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References from Mission-Aransas NERR Publications

 Bibliography of the Mission-Aransas National Estuarine Research Researve (NERR)

 


REFERENCES from MISSION-ARANSAS NERR PUBLICATIONS

References are from literature pertaining to the Mission-Aransas NERR, as well as published reports and documents that have been developed from Mission-Aransas NERR programs. Citation format follows the journal: Estuarine, Coastal and Shelf Science.

[Listed Alphabetically by Author's Last Name]

  

A | B | C | D | E | F | G | H | I | J | K | L | M | N | O | P | Q | R | S | T | U | V | W | X | Y | Z

 

A-

Aßmus, J., Melle, W., Tjøstheim, D., Edwards, M., 2009. Seasonal cycles and long term trends of plankton in shelf and oceanic habitats of the Norwegian Sea in relation to environmental variables. Deep Sea Research Part II 56, 1895-1909. http://dx.doi.org/10.1016/j.dsr2.2008.11.004.

Aberle, N., Bauer, B., Lewandowska, A., Gaedke, U., Sommer, U., 2012. Warming induces shifts in microzooplankton phenology and reduces time-lags between phytoplankton and protozoan production. Marine Biology 159, 2441-2453. DOI 10.1007/s00227-012-1947-0.

Adger, W.N., Huq, S., Brown, K., Conway, D., Hulme, M., 2003. Adaptation to climate change in the developing world. Progress in Development Studies 3, 179-195. http://dx.doi.org/10.1191/1464993403ps060oa.

Ahel, M., Barlow, R.G., Mantoura, R.F.C., 1996. Effect of salinity gradients on the distribution of phytoplankton pigments in a stratified estuary. Marine Ecology Progress Series 143, 289-295.

Airoldi, L., Abbiati, M., Beck, M.W., Hawkins, S.J., Jonsson, P.R., Martin, D., Moschella, P., Sundelof, A., Thompson, R.C., Aberg, P., 2005. An ecological perspective on the deployment and design of low-crested and other hard coastal defence structures. Coastal Engineering 52, 1073-1087. http://dx.doi.org/10.1016/j.coastaleng.2005.09.007.

Albarracin, M.T., Stiling, P., 2006. Bottom-up and top-down effects on insect herbivores do not vary among sites of different salinity. Ecology 87, 2673-2679.

Alber, M., 2002. A conceptual model of estuarine freshwater inflow management. Estuaries 25, 1246-1261.

Alber, M., Swenson, E.M., Adamowicz, S.C., Mendelssohn, I.A., 2008. Salt marsh dieback: an overview of recent events in the US. Estuarine, Coastal and Shelf Science 80, 1-11. http://dx.doi.org/10.1016/j.ecss.2008.08.009.

Aldrich, D.V., Wilson, W.B., 1960. The effect of salinity on growth of Gymnodinium breve Davis. Biological Bulletin 119, 57-64.

Allain, L., Vidrine, M., Grafe, V., Allen, C., Johnson, S., Patton, D., Stewart, R.E., Milam, N., 1999. Paradise Lost? The Coastal Prairie of Louisiana and Texas. U.S. Fish and Wildlife Service, U.S. Geological Survey, 39 pp.

Allen, M., Walker, C., 2000. Water Notes: Advisory Notes for Land Managers on River and Wetland Restoration. Water and Rivers Commission, East Perth, Western Australia.

Allen, R.L., Baltz, D.M., 1997. Distribution and microhabitat use by flatfishes in a Louisiana estuary. Environmental Biology of Fishes 50, 85-103.

Aller, R.C., 2004. Conceptual models of early diagenetic processes: the muddy seafloor as an unsteady, batch reactor. Journal of Marine Research 62, 815-835. http://dx.doi.org/10.1357/0022240042880837.

Allen, R.P., 1952. The Whooping Crane. Research Report no. 3. National Audubon Society, New York, 246 pp.

Altman, J.C., Paerl, H.W., 2012. Composition of inorganic and organic nutrient sources influences phytoplankton community structure in the New River Estuary, North Carolina. Aquatic Ecology 46, 269-282. DOI: 10.1007/s10452-012-9398-8.

Alvarado, Sandra. Personal Communication. 1 July 2005.

Álvarez-Romero, J.G., Pressey, R.L., Ban, N.C., Vance-Borland, K., Willer, C., Klein, C.J., Gaines, S.D., 2011. Integrated land-sea conservation planning: the missing links. Annual Review of Ecology, Evolution, and Systematics 42, 381-409. http://dx.doi.org/10.1146/annurev-ecolsys-102209-144702.

An, S., Gardner, W.S., 2002. Dissimilatory nitrate reduction to ammonium (DNRA) as a nitrogen link, versus denitrification as a sink in a shallow estuary (Laguna Madre/Baffin Bay, Texas) Marine Ecology Progress Series 237, 41-50. DOI: 10.3354/meps237041.

An, S., Gardner, W.S., Kana, T., 2001. Simultaneous measurement of denitrification and nitrogen fixation using isotope pairing with membrane inlet mass spectrometry analysis. Applied and Environmental Microbiology 67, 1171-1178. DOI: 10.1128/AEM.67.3.1171-1178.2001.

Anderson, J.B., 2007. The Formation and Future of the Upper Texas Coast: A Geologist Answers Questions About Sand, Storms,  and Living by the Sea. Texas A & M University Press, College Station, 163 pp.

Anderson, J.R., Hardy, E.E., Roach, J.T., Witmer, R.E., 1979. A Land Use and Land Cover Classification System for Use With Remote Sensor Data. Geological Survey Professional Paper No. 964, U.S. Govt. Print. Off., Washington, 28 pp.

Anderson, K.L., Whitlock, J.E., Harwood, V.J., 2005. Persistence and differential survival of fecal indicator bacteria in subtropical waters and sediments. Applied and Environmental Microbiology 71, 3041-3048.

Anderson, M.J., Underwood, A.J., 1994. Effects of substratum on the recruitment and development of an intertidal estuarine fouling assemblage. Journal of Experimental Marine Biology and Ecology 184, 217-236. http://dx.doi.org/10.1016/0022-0981(94)90006-X.

Applebaum, S., Montagna, P.A., Ritter, C., 2005. Status and trends of dissolved oxygen in Corpus Christi Bay, Texas, U.S.A. Environmental Monitoring and Assessment 107, 297-311.

Aransas National Wildlife Refuge Complex, 2011. First Whooping Cranes at Aransas NWR. WWW Page, http://www.fws.gov/southwest/refuges/texas/aransas/whoopingcranes.html. Accessed July 5, 2011.

Armstrong, N.E., 1982. Responses of Texas estuaries to freshwater inflows. In: Kennedy, V.S. (Ed.), Estuarine Comparisons: Proceedings of the Sixth Biennial International Estuarine Research Conference. Academic Press, New York, pp. 103-120.

Armstrong, N.E., 1987. The Ecology of Open-bay Bottoms of Texas: A Community Profile. Biological Report 85(7.12). U.S. Fish and Wildlife Service, Washington, D.C., 104 pp.

Armsworth, P.R., 2002. Recruitment limitation, population regulation, and larval connectivity in reef fish metapopulations. Ecology 83, 1092-1104.

Arnarson, T.S., Keil, R.G., 2001. Organic–mineral interactions in marine sediments studied using density fractionation and X-ray photoelectron spectroscopy. Organic Geochemistry 32, 1401-1415. http://dx.doi.org/10.1016/S0146-6380(01)00114-0.

Arnarson, T.S., Keil, R.G., 2007. Changes in organic matter-mineral interactions for marine sediments with varying oxygen exposure times.  Geochimica et Cosmochimica Acta 71, 3545-3556. http://dx.doi.org/10.1016/j.gca.2007.04.027.

Arzayus, K.M., Canuel, E.A., 2005. Organic matter degradation in sediments of the York River estuary: effects of biological vs. physical mixing. Geochimica et Cosmochimica Acta 69, 455–463.

Arzul, G., Seguel, M., Guzman, L., Erard-Le Denn, E., 1999. Comparison of allelopathic properties in three toxic Alexandrium species. Journal of Experimental Marine Biology and Ecology 232, 285-295. http://dx.doi.org/10.1016/S0022-0981(98)00120-8.

Assess teaching with surveys: Response rates. WWW Page, http://www.utexas.edu/academic/diia/assessment/iar/teaching/gather/method/survey-Response.php Page last updated: Jul 16 2007.

Atkinson, C.A., Jolley, D.F., Simpson, S.L., 2007. Effect of overlying water pH, dissolved oxygen, salinity and sediment disturbances on metal release and sequestration from metal contaminated marine sediments. Chemosphere 69, 1428-1437. http://dx.doi.org/10.1016/j.chemosphere.2007.04.068.

Auer, M.T., Niehaus, S.L., 1993. Modeling fecal coliform bacteria--I. Field and laboratory determination of loss kinetics. Water Research 27, 693-701.

B-

Baban, S.M.J., 1997. Environmental monitoring of estuaries; estimating and mapping various environmental indicators in Breydon Water Estuary, U.K., using Landsat TM imagery. Estuarine, Coastal and Shelf Science 44, 589-598. http://dx.doi.org/10.1006/ecss.1996.0142.

Bacteria TMDL Task Force, 2007. Bacteria Total Maximum Daily Load Task Force Report. Texas Water Resources Institute, 101 pp.

Baden, D.G., 1989. Brevetoxins: unique polyether dinoflagellate toxins. The FASEB Journal 3, 1807-1817.

Baden, D.G., Tomas, C.R., 1989. Variations in major toxin composition for six clones of Ptychodiscus brevis. In: Okaichi, T., Anderson, D.M., Nemoto, T. (Eds.), Red Tides: Biology, Environmental Science and Toxicology. Proceedings of the International Symposium on Red Tides, Takamatsu, Kagawa Prefecture, Japan. Elsevier, New York, pp. 415-418.

Bahr, L.M., Lanier, W.P., 1981. The Ecology of Intertidal Oyster Reefs of the South Atlantic Coast: A Community Profile. FWS/OBS-81/15, National Coastal Ecosystems Team, Office of Biological Services, Fish and Wildlife Service, U.S. Department of the Interior, 105 pp.

Baldock, J.A., Masiello, C.A., Gelinas, Y., Hedges, J.I., 2004.  Cycling and composition of organic matter in terrestrial and marine ecosystems. Marine Chemistry 92, 39-64. http://dx.doi.org/10.1016/j.marchem.2004.06.016.

Baldwin, H.Q., Jeske, C.W., Powell, M.A., Chadwick, P.C., Barrow, W.C., 2010. Home-range size and site tenacity of overwintering LeConte's sparrows in a fire managed prairie. The Wilson Journal of Ornithology 122, 139-145.

Ball, I., Possingham, H., 2000. Marxan (v1.8.2): Marine Reserve Design Using Spatially Explicit Annealing.

Barbier, E.B., Hacker, S.D., Kennedy, C., Koch, E.W., Stier, A.C., Silliman, B.R., 2011. The value of estuarine and coastal ecosystem services. Ecological Monographs 81, 169-193. http://dx.doi.org/10.1890/10-1510.1.

Bartholomew, K., 2007. Land use-transportation scenario planning: promise and reality. Transportation 34, 397-412. http://dx.doi.org/10.1007/s11116-006-9108-2.

Bartush, B. 2013. Gulf Coast Prairie Landscape Cooperative: Fact Sheet. Accessed online 24 July 2014. http://gulfcoastprairielcc.org/media/18706/GCP-LCC-Fact-Sheet-May-2013-FINAL.pdf. 

Bates, B.C., Kundzewicz, Z.W., Wu, S., Palutikof, J.P. (Eds.), 2008. Climate Change and Water. Technical Paper of the Intergovernmental Panel on Climate Change. IPCC Secretariat, Geneva. 210 pp.

Batzer, D.P., Sharitz, R.R., 2006. Ecology of Freshwater and Estuarine Wetlands. University of California Press, Berkeley, 568 pp.

Bauer, J., Frye, R., Spain, B., 1991. A Natural Resource Survey for Proposed Reservoir Sites and Selected Stream Segments in Texas. Texas Parks and Wildlife Department, Austin, Texas, 216 pp.

Beaugrand, G., 2004. Monitoring marine plankton ecosystems. I: Description of an ecosystem approach based on plankton indicators. Marine Ecology Progress Series 269, 69-81.

Beaugrand, G., 2005. Monitoring pelagic ecosystems using plankton indicators. ICES Journal of Marine Science 62, 333-338. http://dx.doi.org/10.1016/j.icesjms.2005.01.002.

Beaugrand, G., Reid, P.C., Ibañez, F., Lindley, J.A., Edwards, M., 2002. Reorganization of North Atlantic marine copepod biodiversity and climate. Science 296, 1692-1694. http://dx.doi.org/10.1126/science.1071329.

Beck, M.W., Heck Jr., K.L., Able, K.W., Childers, D.L., Eggleston, D.B., Gillanders, B.M., Halpern, B., Hays, C.G., Hoshino, K., Minello, T.J., Orth, R.J., Sheridan, P.F., Weinstein, M.P., 2001. The identification, conservation, and management of estuarine and marine nurseries for fish and invertebrates. BioScience 51, 633-641.

Beck, M.W., Brumbaugh, R.D., Airoldi, L., Carranza, A., Coen, L.D., Crawford, C., Defeo, O., Edgar, G.J., Hancock, B., Kay, M., Lenihan, H., Luckenbach, M.W., Toropova, C.L., Zhang, G., 2009. Shellfish Reefs at Risk: A Global Analysis of Problems and Solutions. The Nature Conservancy, Arlington, VA, 52 pp.

Beck, M.W., Brumbaugh, R.D., Airoldi, L., Carranza, A., Coen, L.D., Crawford, C., Defeo, O., Edgar, G.J., Hancock, B., Kay, M.C., Lenihan, H.S, Luckenbach, M.W., Toropova, C.L., Zhang, G., Guo, X., 2011. Oyster reefs at risk and recommendations for conservation, restoration, and management. BioScience 61, 107-116. http://dx.doi.org/10.1525/bio.2011.61.2.5.

Beger, M., Grantham, H.S., Pressey, R.L., Wilson, K.A., Peterson, E.L., Dorfman, D., Mumby, P.J., Lourival, R., Brumbaugh, D.R., Possingham, H.P., 2010. Conservation planning for connectivity across marine, freshwater, and terrestrial realms. Biological Conservation 143, 565-575. http://dx.doi.org/10.1016/j.biocon.2009.11.006. 

Behrens, E.W., 1963. Buried Pleistocene River valleys in Aransas and Baffin Bays, Texas. Publications of the Institute of Marine Science 9, 7-18.

Behrens, E.W., Watson, R.L., 1973. Corpus Christi Water Exchange Pass: A Case History of Sedimentation and Hydraulics During Its First Year. Contract DACW 72-72-C-0026, USACOE, Coastal Research Center, 135 pp.

Benner, R., Pakulski, J.D., Mccarthy, M., Hedges, J.I., Hatcher, P.G., 1992. Bulk chemical characteristics of dissolved organic matter in the ocean. Science 255, 1561-1564. http://dx.doi.org/10.1126/science.255.5051.1561.

Benoit, G., Oktay-Marshall, S.D., Cantu II, A., Hood, E.M., Coleman, C.H., Corapcioglu, M.O., Santschi, P.H., 1994. Partitioning of Cu, Pb, Ag, Zn, Fe, Al, and Mn between filter-retained particles, colloids, and solution in six Texas estuaries. Marine Chemistry 45, 307-336. http://dx.doi.org/10.1016/0304-4203(94)90076-0.

Bernal, S., Butturini, A., Sabater, F., 2005. Seasonal variations of dissolved nitrogen and DOC:DON ratios in an intermittent Mediterranean stream. Biogeochemistry 75, 351-372.

Berner, R.A., 1982. Burial of organic carbon and pyrite sulfur in the modern ocean: its geochemical and environmental significance. American Journal of Science 282, 451-473.

Berner, R.A., 1989. Biogeochemical cycles of carbon and sulfur and their effect on atmospheric oxygen over phanerozoic time. Global and Planetary Change 1, 97-122. http://dx.doi.org/10.1016/0921-8181(89)90018-0.

Bertness, M.D., Pennings, S.C., 2000. Spatial variation in process and pattern in salt marsh plant communities in Eastern North America. In: M.P. Weinstein, D.A. Kreeger (Eds.), Concepts and Controversies in Tidal Marsh Ecology,. Kluwer Academic, Dordrecht, Boston, pp. 39-57.

Beseres Pollack, J., Cleveland, A., Palmer, T.A., Reisinger, A.S., Montagna, P.A., 2012. A restoration suitability index model for the eastern oyster (Crassostrea virginica) in the Mission-Aransas Estuary, TX, USA. PLoS ONE 7(7):e40839. http://dx.doi.org/10.1371/journal.pone.0040839.

Beseres Pollack, J., Kim, H-C., Morgan, E.K., Montagna, P.A., 2011. Role of flood disturbance in natural oyster (Crassostrea virginica) population maintenance in an estuary in south Texas, USA. Estuaries and Coasts 34, 187-197. http://dx.doi.org/10.1007/s12237-010-9338-6.

Bhat, S., Hatfield, K., Jacobs, J.M., Lowrance, R., Williams, R., 2007. Surface runoff contribution of nitrogen during storm events in a forested watershed. Biogeochemistry 85, 253-262. http://dx.doi.org/10.1007/s10533-007-9131-1.

Bianchi, T.S., Baskaran, M., Ravichandran, M., 1998. Is the Sabine-Neches Estuary net heterotrophic or autotrophic? A reply to the comment by Flinn et al. Estuaries 21, 839-841.

Bianchi, T.S., Mitra, S., McKee, B.A., 2002. Sources of terrestrially-derived organic carbon in lower Mississippi River and Louisiana shelf sediments: implications for differential sedimentation and transport at the coastal margin. Marine Chemistry 77, 211-223. http://dx.doi.org/10.1016/S0304-4203(01)00088-3.

Biddanda, B., Benner, R., 1997. Carbon, nitrogen, and carbohydrate fluxes during the production of particulate and dissolved organic matter by marine phytoplankton. Limnology and Oceanography 42, 506-518.

BirdLife International 2012. Grus americana. The IUCN Red List of Threatened Species. Version 2013.2. <www.iucnredlist.org>. Downloaded on 06 February 2014.

Biron, P.M., Roy, A.G., Courschesne, F., Hendershot, W.H., Côté, B., Fyles, J., 1999. The effects of antecedent moisture conditions on the relationship of hydrology to hydrochemistry in a small forested watershed. Hydrological Processes 13, 1541-1555.

Bishop, K.A., 2012. Freshwater Contributions and Nitrogen Sources in a South Texas Estuarine Ecosystem: a Time-Integrated Story from Stable Isotope Ratios in the Eastern Oyster (Crassostrea virginica). M.S. Thesis, The University of Texas at Austin, 86 pp.

Blackburn, T.H., 1979. Method for measuring rates of NH4+ turnover in anoxic marine sediments, using a 15N-NH4+ dilution technique. Applied and Environmental Microbiology 37, 760-765.

Blackland Research and Extension Center and T.A.M.U. System, 2007. Soil and Water Assessment Tool: SWAT. WWW Page, http://www.brc.tamus.edu/swat/index.html. Accessed: July 2007.

Blair, N.E., Aller, R.C., 2012. The fate of terrestrial organic carbon in the marine environment. Annual Review of Marine Science 4, 401-423.

Blanchette, C.A., Helmuth, B., Gaines, S.D., 2007. Spatial patterns of growth in the mussel, Mytilus californianus, across a major oceanographic and biogeographic boundary at Point Conception, California, USA. Journal of Experimental Marine Biology and Ecology 340, 126-148.

Bledsoe, E.L., Phlips, E.J., 2000. Relationships between phytoplankton standing crop and physical, chemical, and biological gradients in the Suwannee River and Plume Region, U.S.A. Estuaries 23, 458-473.

Blough, N.V., Del Vecchio, R., 2002. Chromophoric DOM in the coastal environment. In: Hansell, D.A., Carlson, C.A. (Eds.), Biogeochemistry of Marine Dissolved Organic Matter. Academic Press, Boston, NY, pp. 509-546.

Bobbick, R., Beltman, B., Verhoeven, J.T.A., Whigham, D.F. (Eds.), 2006. Wetlands: Functioning, Biodiversity Conservation, and Restoration. Ecological Studies 191. Springer, New York, 315 pp.

Bock, M.J., Mayer, L.M., 2000. Mesodensity organo–clay associations in a near-shore sediment. Marine Geology 163, 65-75. http://dx.doi.org/10.1016S0025-3227(99)00105-X.

Bodzin, A., 2002. LEO EnviroSci inquiry: using the web to learn environmental sciences. Learning and Leading with Technology 29, 32-37.

Boesch, D.F., Josselyn, M.N., Mehta, A.J., Morris, J.T., Nuttle, W.K., Simenstad, C.A., Swift, D.J.P., 1994. Scientific assessment of coastal wetland loss, restoration, and management in Louisiana. Journal of Coastal Research, Special Issue No. 20. Coastal Education and Research Foundation, Fort Lauderdale, FL, 103 pp.

Boggs, S., 2012. Principles of Sedimentology and Stratigraphy. Pearson Prentice Hall, New Jersey, 585 pp.

Bohall-Wood, P., 1987. Abundance, habitat use, and perch use of Loggerhead Shrikes in north-central Florida. Wilson Bulletin 99, 82-86.

Bohnsack, J.A., Sutherland, D.L., 1985. Artificial reef research: A review with recommendations for future priorities. Bulletin of Marine Science 37, 11-39.

Bonnet, D., Frid, C., 2004. Seven copepod species considered as indicators of water-mass influence and changes: results from a Northumberland coastal station. ICES Journal of Marine Science 61, 485-491. http://dx.doi.org/10.1016/j.icesjms.2004.03.005.

Booth, G., Raymond, P., Oh, N.-H., 2007. LoadRunner Software and Manual, Yale University, New Haven, CT. WWW Page, http://environment.yale.edu/raymond/loadrunner/.

Bourbonniere, R.A., Meyers, P.A., 1996. Sedimentary geolipid records of historical changes in the watersheds and productivities of Lakes Ontario and Erie. Limnology and Oceanography 41, 352-359.

Bouvier, T.C., del Giorgio, P.A., Compositional changes in free-living bacterial communities along a salinity gradient in two temperate estuaries. Limnology and Oceanography 47, 453-470.

Bowen, J.L., Valiela, I., 2001. The ecological effects of urbanization of coastal watersheds: historical increases in nitrogen loads and eutrophication of Waquoit Bay estuaries. Canadian Journal of Fisheries and Aquatic Sciences 58, 1489-1500.

Bowes, M.J., House, W.A., Hodgkinson, R.A., 2003. Phosphorous dynamics along a river continuum. The Science of the Total Environment 313, 199-212. http://dx.doi.org/10.1016/S0048-9697(03)00260-2.

Boyd, L., 2001. Wildlife Use of Wetland Buffer Zones and Their Protection Under the Massachusetts Wetland Protection Act. Wetland Conservations Professional Program. Department of Natural Resources Conservation, University of Massachusetts.

Boynton, W.R., Kemp, W.M., Keefe, C.W., 1982. A comparative analysis of nutrients and other factors influencing estuarine phytoplankton production. In: Kennedy, V.S. (Ed.), Estuarine Comparisons: Proceedings of the Sixth Biennial International Estuarine Research Conference. Academic Press, New York, pp. 69-90.

Breier, C.F., Buskey, E.J., 2007. Effects of the red tide dinoflagellate, Karenia brevis, on grazing and fecundity in the copepod Acartia tonsa. Journal of Plankton Research 29, 115-126. http://dx.doi.org/10.1093/plankt/fbl075.

Breitburg, D., 2002. Effects of hypoxia, and the balance between hypoxia and enrichment, on coastal fishes and fisheries. Estuaries 25, 767-781.

Brett, M.T., Goldman, C.R., 1996. A meta-analysis of the freshwater trophic cascade. Proceedings of the National Academy of Sciences 93, 7723-7726.

Brissaud, F., Levine, B., Ducoup, C., Dejoux, L., Lazarova, V., Tournoud, M.G., 2000. Hydrodynamic behaviour and faecal coliform removal in a maturation pond. Water Science and Technology 42, 119-126.

Britton, J.C., Morton, B., 1989. Shore Ecology of the Gulf of Mexico. University of Texas Press, Austin, 387 pp.

Brock, D.A., 2001. Nitrogen budget for low and high freshwater inflows, Nueces Estuary, Texas. Estuaries 24, 509-521.

Broda, H.W., Baxter, R.E., 2003. Using GIS and GPS Technology as an Instructional Tool. Social Studies 94, 158-160.

Brodie, J.E., Mitchell, A.W., 2005. Nutrients in Australian tropical rivers: changes with agricultural development and implications for receiving environments. Marine and Freshwater Research 56, 279-302.

Brooks, R.A., Purdy, C.N., Bell, S.S., Sulak, K.J., 2006. The benthic community of the eastern US continental shelf: A literature synopsis of benthic faunal resources. Continental Shelf Research 26, 804-818. http://dx.doi.org/10.1016/j.csr.2006.02.005.

Brown, A.C., McLachlan, A., 2002. Sandy shore ecosystems and the threats facing them: some predictions for the year 2025. Environmental Conservation 29, 62-77. http://dx.doi.org/10.1017/S037689290200005X.

Brown, C.A., Holt, S.A., Jackson, G.A., Brooks, D.A., Holt, G.J., 2004. Simulating larval supply to estuarine nursery areas: how important are physical processes to the supply of larvae to the Aransas Pass Inlet? Fisheries Oceanography 13, 181-196. http://dx.doi.org/10.1111/j.1365-2419.2004.00285.x.

Brown, J.W., 2006. Eco-logical: An Ecosystem Approach to Developing Infrastructure Projects. U.S. Department of Transportation, Federal Highway Administration. http://www.environment.fhwa.dot.gov/ecological/eco_index.asp.

Brown Jr., L.F., Brewton, J.L., McGowen, J.H., Evans, T.J., Fisher, W.L., Groat, C.G., 1976. Environmental Geologic Atlas of the Texas Coastal Zone: Corpus Christi Area. Bureau of Economic Geology, The University of Texas at Austin, 123 pp.

Brown, V.A., McDonnell, J.J., Burns, D.A., Kendall, C., 1999. The role of event water, a rapid shallow flow component, and catchment size in summer stormflow. Journal of Hydrology 217, 171-190. http://dx.doi.org/10.1016/S0022-1694(98)00247-9.

Bruun, P., 1962. Sea-level rise as a cause of shore erosion. Journal of the Waterways and Harbors Division 88, 117-130.

Bulthuis, D.A., 1983. Effects of in situ light reduction on density and growth of the seagrass Heterozostera tasmanica (Martens ex Aschers.) den Hartog in Western Port, Victoria, Australia. Journal of Experimental Marine Biology and Ecology 67, 91-103. http://dx.doi.org/10.1016/0022-0981(83)90137-5.

Bureau of Economic Geology, 2009. Geologic Map of Texas. WWW Page, http://www.lib.utexas.edu/geo/txgeo_map.html. Accessed 8 April 2010.

Burfeind, D.D., Stunz, G.W., 2006. The effects of boat propeller scarring intensity on nekton abundance in subtropical seagrass meadows. Marine Biology 148, 953-962. http://dx.doi.org/10.1007/s00227-005-0136-9.

Burfeind, D.D., Stunz, G.W., 2007. The effects of boat propeller scarring on nekton growth in subtropical seagrass meadows. Transactions of the American Fisheries Society 136, 1546-1551. http://dx.doi.org/10.1577/T06-228.1.

Burgin, A.J., Hamilton, S.K., 2007. Have we overemphasized the role of denitrification in aquatic ecosystems? A review of nitrate removal pathways. Frontiers in Ecology and the Environment 5, 89-96.

Burke, L., Sugg, Z., 2006. Hydrologic Modeling of Watersheds Discharging Adjacent to the Mesoamerican Reef: Analysis Summary, December 1, 2006. World Resources Institute, Washington, D.C. http://www.icran.org/pdf/MAR-Pages/watershed/docs/mar_hydrologic_model_results_english.pdf. 

Burkhardt III, W., Calci, K.R., Watkins, W.D., Rippey, S.R., Chirtel, S.J., 2000. Inactivation of indicator microorganisms in estuarine waters. Water Research 34, 2207-2214.

Burkholder, J.M., Dickey, D.A., Kinder, C.A., Reed, R.E., Mallin, M.A., McIver, M.R., Cahoon, L.B., Melia, G., Brownie, C., Smith, J., Deamer, N., Springer, J., Glasgow, H.B., Toms, D., 2006. Comprehensive trend analysis of nutrients and related variables in a large eutrophic estuary: A decadal study of anthropogenic and climatic influences. Limnology and Oceanography 51, 463-487.

Buskey, E.J., 1993. Annual pattern of micro- and mesozooplankton abundance and biomass in a subtropical estuary. Journal of Plankton Research 15, 907-924. http://dx.doi.org/10.1093/plankt/15.8.907

Buskey, E.J., 1995. Growth and bioluminescence of Noctiluca scintillans on varying algal diets. Journal of Plankton Research 17, 29-40. http://dx.doi.org/10.1093/plankt/17.1.29.

Buskey, E.J., Hyatt, C.J., 1995. Effects of the Texas (USA) 'brown tide' alga on planktonic grazers. Marine Ecology Progress Series 126, 285-292.

Buskey, E.J., Hyatt, C.J., 2006. Use of the FlowCAM for semi-automated recognition and enumeration of red tide cells (Karenia brevis) in natural plankton samples. Harmful Algae 5, 685-692.

Buskey, E.J., Liu, H., Collumb, C., Bersano, J.G.F., 2001.  The decline and recovery of a persistent Texas brown tide algal bloom in the Laguna Madre (Texas, USA). Estuaries 24, 337-346.

Buskey, E.J., Montagna, P.A., Amos, A.F., Whitledge, T.E., 1997. Disruption of grazer populations as a contributing factor to the initiation of the Texas brown tide algal bloom. Limnology and Oceanography 42, 1215-1222.

Buskey, E.J., Stewart, S., Paterson, J., Collumb, C., 1996. Current Status and Historical Trends of Brown Tide and Red Tide Phytoplankton Blooms in the Corpus Christi Bay National Estuary Program Study Area. Publication CCBNEP 7. Texas Natural Resource Conservation Commission, Austin, Texas, 174 pp.

Buskey, E.J., Stockwell, D.A., 1993. Effects of a persistent "brown tide" on zooplankton populations in the Laguna Madre of South Texas. In: Smayda, T.J., Shimizu, Y. (Eds.), Toxic Phytoplankton Blooms in the Sea. Proceedings of the Fifth International Conference on Toxic Marine Phytoplankton, Newport, Rhode Island. Elsevier, Amsterdam, New York, 659-666.

Buskey, E.J., Wysor, B., Hyatt, C., 1998. The role of hypersalinity in the persistence of the Texas 'brown tide' in the Laguna Madre. Journal of Plankton Research 20, 1553-1565.

Buskey, E.J., Villareal, T.A., Lopez-Barriero, T., 1999. Reconstructing the initiation of the Texas brown tide bloom of Aureoumbra lagunensis from archived samples using an immunofluorescence assay. Plankton Biology and Ecology 46, 159-161.

Buzan D., Lee, W., Culbertson, J., Kuhn, N., Robinson, L., 2009. Positive Relationship between Freshwater Inflow and Oyster Abundance in Galveston Bay, Texas. Estuaries and Coasts 32, 206-212.

C-

Cabecinha, E., Cortes, R., Cabral, J.A., Ferreira, T., Lourenco, M., Pardal, M.A. 2009. Multi-scale approach using phytoplankton as a first step towards the definition of the ecological status of reservoirs. Ecological Indicators 9, 240-255. http://dx.doi.org/10.1016/j.ecolind.2008.04.006.

Caffrey, J.M., 2004. Factors controlling net ecosystem metabolism in U.S. estuaries. Estuaries 27, 90-101. http://www.jstor.org/stable/1353493.

Caffrey, J.M., Chapin, T.P., Jannasch, H.W., Haskins, J.C., 2007. High nutrient pulses, tidal mixing and biological response in a small California estuary: variability in nutrient concentrations from decadal to hourly time scales. Estuarine, Coastal and Shelf Science 71, 368-380. http://dx.doi.org/10.1016/j.ecss.2006.08.015.

Cahn, A.R., 1922. Notes on the summer avifanua of Bird Island, Texas, and vicinity. Condor 24, 169-180. http://dx.doi.org/10.2307/1362403.

Cahoon, D.R., 2006. A review of major storm impacts on coastal wetland elevations. Estuaries and Coasts 29, 889-898.

Calbet, A., Landry, M.R., 2004. Phytoplankton growth, microzooplankton grazing, and carbon cycling in marine systems. Limnology and Oceanography 49, 51-57.

Caliman, A., Leal, J.J.F., Esteves, F.A., Carneiro, L.S., Bozelli, R.L., Farjalla, V.F., 2007. Functional bioturbator diversity enhances benthic-pelagic processes and properties in experimental microcosms. Journal of the North American Benthological Society 26, 450-459.

Calleja, M.Ll., Duarte, C.M., Prairie, Y.T., Agusti, S., Herndl, G.J., 2009. Evidence for surface organic matter modulation of air-sea CO2 gas exchange. Biogeosciences 6, 1105-1114. doi:10.5194/bg-6-1105-2009.   

Calnan, T.R., 1980. Molluscan Distribution in Copano Bay, Texas. Bureau of Economic Geology, The University of Texas at Austin, 71 pp.

Cambridge, M.L., Chiffings, A.W., Brittan, C., Moore, L., McComb, A.J., 1986. The loss of seagrass in Cockburn Sound, Western Australia. II. Possible causes of seagrass decline. Aquatic Botany 24, 269-285. http://dx.doi.org/10.1016/0304-3770(86)90062-8.

Campbell, L., Walpert, J.N., Guinasso, N.L., Jr., 2008. A new buoy-based in situ optical early warning system for harmful algal blooms in the Gulf of Mexico. Nova Hedwigia 133, 161-170.

Campbell, N., MacKenzie, K., Zuur, A.F., Ieno, E.N., Smith, G.M., 2007. Fish stock identification through neural network analysis of parasite fauna. In: Zuur, A.F., Ieno, E.N., Smith, G.M. (Eds.), Analysing Ecological Data. Springer, New York, pp. 449-462.

Campbell, S., Miller, C., Steven, A., Stephens, A., 2003. Photosynthetic responses of two temperate seagrasses across a water quality gradient using chlorophyll fluorescence. Journal of Experimental Marine Biology and Ecology 291, 57-78. http://dx.doi.org/10.1016/S0022-0981(03)00090-X.

Camargo, J.A., Alonso A., 2006. Ecological and toxicological effects of inorganic nitrogen pollution in aquatic ecosystems: A global assessment. Environment International 32, 831-849. http://dx.doi.org/10.1016/j.envint.2006.05.002.

Canale, R.P., Auer, M.T., Owens, E.M., Heidtke, T.M., Effler, S.W., 1993. Modeling fecal coliform bacteria--II. Model development and application. Water Research 27, 703-714.

Canuel, E.A., Cammer, S.S., McIntosh, H.A., Pondell, C.R., 2012. Climate change impacts on the organic carbon cycle at the land-ocean interface. Annual Review of Earth and Planetary Sciences 40, 685-711. DOI:10.1146/annurev-earth-042711-105511.

Carey, J.H., 1992. Quercus virginiana. In: Fire Effects Information System, (online). US Department of Agriculture, Forest Service, Rocky Mountain Research Station, Fire Sciences Laboratory. WWW Page, http://www.fs.fed.us/database/feis. Accessed January 20, 2010.

Carpenter, E.J., Chang, J. 1988. Species-specific phytoplankton growth rates via diel DNA synthesis cycles. I. Concept of the method. Marine Ecology Progress Series 43, 105-111.

Carpenter, S.R., Caraco, N.F., Correll, D.L., Howarth, R.W., Sharpley, A.N., Smith, V.H., 1998. Nonpoint pollution of surface waters with phosphorous and nitrogen. Ecological Applications 8, 559-568.

Castillo-Rivera, M., Kobelkowsky, A., Chavez, A.M., 2000. Feeding biology of the flatfish Citharichthys spilopterus Bothidae) in a tropical estuary of Mexico. Journal of Applied Ichthyology 16, 73-78.

Center for Sponsored Coastal Ocean Research, 2007. Coastal Change Analysis Program (C-CAP). WWW Page, http://www.cop.noaa.gov/stressors/resourcelanduse/past/lu-ccap.aspx#TEXAS. Accessed June 15, 2011.

Chan, K.S., 2008. TSA: Time Series Analysis. R package version 0.97. WWW Page, http://www.stat.uiowa.edu/~kchan/TSA.htm.

Chandler, C., Knox, J., Byrd, L. (Eds.), 1981. Nueces and Mission-Aransas Estuaries: A Study of the Influence of Freshwater Inflows. Limited Publication 108. Texas Department of Water Resources, Austin, Texas, 362 pp.

Chaney, A.H., Blacklock, G.W., Bartels, S.G., 1996. Current Status and Historical Trends of the Estuarine Living Resources within the Corpus Christi Bay National Estuary Program Study Area, Volume 2. Publication CCBNEP 06-B, Texas Natural Resource Conservation Commission, Austin, 1 v.

Chaney, A.H., Chapman, B.R., Karges, J.P., Nelson, D.A., Schmidt, R.R., 1978. Use of Dredged Material Islands by Colonial Seabirds and Wading Birds in Texas. Environmental Laboratory, U.S. Army Engineer Waterways Experiment Station, Vicksburg, Mississippi, 1 v.

Chao, A., Chazdon, R.L., Colwell, R.K., Shen, T.-J., 2006. Abundance-based similarity indices and their estimation when there are unseen species in samples. Biometrics 62, 361-371. DOI: 10.1111/j.1541-0420.2005.00489.x.

Chapin, F.S. III, McGuire, A.D., Randerson, J., Pielke, R., Baldocchi, D., Hobbie, S.E., Roulet, N., Eugster, W., Kasischke, E., Rastetter, E.B., Zimov, S.A., Running, S.W., 2000. Arctic and boreal ecosystems of western North America as components of the climate system. Global Change Biology 6, Suppl. 1, 211-223.

Chapman, M.G., Blockley, D.J., 2009. Engineering novel habitats on urban infrastructure to increase intertidal biodiversity. Oecologia 161, 625-635. DOI 10.1007/s00442-009-1393-y.

Chapra, S.C., 2003. Engineering water quality models and TMDLs. Journal of Water Resources Planning and Management 129, 247-256.

Charras, G.T., 2008. A short history of blebbing. Journal of Microscopy 231, 466-478.

Chase, J.M., 2003. Strong and weak trophic cascades along a productivity gradient. Oikos 101, 187-195.

Chavez, F.P., Messie, M., Pennington, J.T., 2011. Marine primary production in relation to climate variability and change. Annual Review of Marine Science 3, 227-260. DOI: 10.1146/annurev.marine.010908.163917.

Chen, G.F., Brock, D., Matsumoto, J., Buzan, D., 2006. Verification of freshwater inflow modeling for Texas bays and estuaries. Geographic Information Systems and Water Resources IV AWRA Spring Specialty Conference, May 8-10, 2006. Houston, Texas. 

Childers, D.L., Boyer, J.N., Davis, S.E., Madden, C.J., Rudnick, D.T., Sklar, F.H., 2006. Relating precipitation and water management to nutrient concentrations in the oligotrophic "upside-down" estuaries of the Florida Everglades. Limnology and Oceanography 51, 602-616. doi:10.4319/lo.2006.51.1_part_2.0602.

Chittaro, P.M., Finley, R.J., Levin, P.S., 2009. Spatial and temporal patterns in the contribution of fish from their nursery habitats. Oecologia 160, 49-61.

Choucair, P.C., Spiller, K.W., Meador, K., 2006. Status and Trends of Selected Marine Fauna in the Coastal Bend Bays and Estuary Program Study Area, 1984-2004. Coastal Fisheries Division, Texas Parks and Wildlife Department, Corpus Christi, Texas, 262 pp.

Chow, V.T., Maidment, D.R., and Mays, L.W., 1988. Applied Hydrology. McGraw-Hill, New York, 572 pp.

Christensen, B.T., 1992. Physical fractionation of soil and organic matter in primary particle size and density separates. In: Stewart, B.A. (Ed.), Advances in Soil Science, vol. 20. Springer-Verlag, New York, pp. 1-90.

Christensen, V.G., Rasmussen, P.P., Ziegler, A.C., Jian, X., 2001. Continuous monitoring and regression analysis to estimate bacteria loads. TMDL Science Issues Conference. Water Environment Federation, Alexandria, Va., pp. 405-411.

Christian, R., Thomas, C., 2003. Network analysis of nitrogen inputs and cycling in the Neuse River estuary, North Carolina, USA. Estuaries 26, 815-828. doi:10.1007/BF02711992.

Christiansen, C., Christoffersen, H., Dalsgaard, J., Norberg, R., 1981. Coastal and near-shore changes correlated with die-back in eel-grass (Zostera Marina, L.) Sedimentary Geology 28, 163-173. http://dx.doi.org/10.1016/0037-0738(81)90063-4.

Cicin-Sain, B., Belfiore, S., 2005. Linking marine protected areas to integrated coastal and ocean management: a review of theory and practice. Ocean & Coastal Management 48, 847-868. http://dx.doi.org/10.1016/j.ocecoaman.2006.01.001.

Cloern, J.E., 1996. Phytoplankton bloom dynamics in coastal ecosystems: A review with some general lessons from sustained investigation of San Francisco Bay, California. Reviews of Geophysics 34, 127-168.

Cloern, J.E., 2001. Our evolving conceptual model of the coastal eutrophication problem. Marine Ecology Progress Series 210, 223-253.

Coastal Bend Bays and Estuaries Program, 1998. Coastal Bend Bays Plan: To Conserve and Manage the Coastal Bend Bays of South Texas. Publication CBBEP-1, Texas Natural Resource Conservation Commission, Austin, 80 pp.

Coastal Bend Bays and Estuaries Program, 2011. Coastal Waterbirds. WWW Page, http://www.cbbep.org/programscoastalwbirds.html. Accessed June 15, 2011.

Coffey, M., Dehairs, F., Collette, O., Luther, G., Church, T., Jickells, T., 1997. The behaviour of dissolved barium in estuaries. Estuarine, Coastal and Shelf Science 45, 113-121. http://dx.doi.org/10.1006/ecss.1996.0157.

Cole, J.J., Lee, C., 1986. Rapid microbial metabolism of non-protein amino acids in the sea. Biogeochemistry 2, 299-312.

Coleman, F.C., Figueira, W.F., Ueland, J.S., Crowder, L.B., The impact of United States recreational fisheries on marine fish populations. Science 305, 1958-1960.

Colgan, C.S. 2004. The National Ocean Economics Project. The Changing Ocean and Coastal Economy of the United States: A Briefing Paper for Governors. Prepared for National Governors Association.

Collier, A., 1958. Some biochemical aspects of red tides and related oceanographic problems. Limnology and Oceanography 3, 33-39.

Conley, D.J., 2000. Biogeochemical nutrient cycles and nutrient management strategies. Hydrobiologia 410, 87-96.

Cooper, L.W., Whitledge, T.E., Grebmeier, J.M., Weingartner, T., 1997. The nutrient, salinity, and stable oxygen isotope composition of Bering and Chukchi Seas waters in and near the Bering Strait. Journal of Geophysical Research 102, 12563-12573. http://dx.doi.org/10.1029/97JC00015.

Cooper, R.J., Cederbaum, S.B, Gannon, J.J., 2005. Natural Resource Summary for Padred Island National Seashore Final Report. Warnell School of Forest Resources, University of Georgia, Athens, GA.

Copeland, B.J., 1966. Effects of decreased river flow on estuarine ecology. Journal Water Pollution Control Federation 38, 1831-1839.

Corpus Christi Geological Society (CCGS), 1967. Typical Oil and Gas Fields of South Texas. Corpus Christi, 221 pp.

Correll, D.L., Jordan, T.E., Weller, D.E., 2001. Effects of precipitation, air temperature, and land use on organic carbon discharges from Rhode River watersheds. Water, Air, and Soil Pollution 128, 139-159.

Costanza, R., D'Arge, R., De Groot, R., Farber, S., Grasso, M., Hannon, B., Limburg, K., Naeem, S., O'Neill, R.V., Paruelo, J., Raskin, R.G., Sutton, P., Van Den Belt, M., 1997. The value of the world's ecosystem services and natural capital. Nature 387, 253-260.

Cotner, J.B., Suplee, M.W., Chen, N.W., Shormann, D.E., 2004. Nutrient, sulfur and carbon dynamics in a hypersaline lagoon. Estuarine, Coastal and Shelf Science 59, 639-652. http://dx.doi.org/10.1016/j.ecss.2003.11.008.

Countway, P.D., Gast, R.J., Savai, P., Caron, D.A., 2005. Protistan diversity estimates based on 18S rDNA from seawater incubations in the western North Atlantic. Journal of Eukaryotic Microbiology 52, 95-106.

Cowan Jr., J.H., Houde, E.D., 1992. Size-dependent predation on marine fish larvae by ctenophores, scyphomedusae, and planktivorous fish. Fisheries Oceanography 1, 113-126. http://dx.doi.org/10.1111/j.1365-2419.1992.tb00030.x

Cowardin, L.M., Carter, V., Golet, F.C., LaRoe, E.T., 1979. Classification of Wetlands and Deepwater Habitats of the United States. U.S. Department of the Interior, Fish and Wildlife Service, Washington, D.C. 131 pp.

Cowardin, L.M., Carter, V., Golet, F.C., LaRoe, E.T., 1979. Classification of Wetlands and Deepwater Habitats of the United States. U.S. Department of the Interior, Fish and Wildlife Service, Washington, D.C. Jamestown, ND: Northern Prairie Wildlife Research Center Online. http://www.npwrc.usgs.gov/resource/wetlands/classwet/index.htm (Version 04DEC1998).

Cowie, G.L., Hedges, J.I., 1992. Sources and reactivities of amino acids in a coastal marine environment. Limnology and Oceanography 37, 703-724.

Cowlishaw, R.J., 2004. Seasonal coupling between ciliate and phytoplankton standing stocks in the South Slough of Coos Bay, Oregon. Estuaries 27, 539-550.

Craft, C.B., 2001. Biology of wetland soils. In: Richardson, J.L., Vepraskas, M.J. (Eds.), 2001. Wetland Soils: Genesis, Hydrology, Landscapes, and Classification. Lewis Publishers, Boca Raton, Florida, pp. 107-136.

Creed, J.C., Amado Filho, G.M., 1999. Disturbance and recovery of the macroflora of a seagrass (Halodule wrightii Ascherson) meadow in the Abrolhos Marine National Park, Brazil: an experimental evaluation of anchor damage. Journal of Experimental Marine Biology and Ecology 235, 285-306. http://dx.doi.org/10.1016/S0022-0981(98)00188-9.

Crist, P., Madden, K., Varley, I., Eslinger, D., Walker, D., Anderson, A., Morehead, S., Dunton, K., 2009. Integrated Land-Sea Planning: Technical Guide to the Integrated Land-Sea Planning Toolkit. EBM Tools Network.

Crist, P., Madden, K., Varley, I., Eslinger, D., Walker, D., Anderson, A., Morehead, S., Dunton, K., 2009b. Integrated Land-Sea Planning: Technical Guide to the Integrated Land-Sea Planning Toolkit. EBM Tools Network. www.ebmtools.orgEBM Tool Developers Collaborative. 2010. Best Practices for Ecosystem-Based Management Tool Interoperability. http://www.ebmtools.org/about_us/tool_developers_collaborative.html.

Crofutt, S., Smith, E.H., 1997. Fennessey Ranch Mitigation Bank Proposal. Mitigation Banking Review Team.

Crowder, L.B., Hazen, E.L., Avissar, N., Bjorkland, R., Latanich, C., Ogburn, M.B., 2008. The impacts of fisheries on marine ecosystems and the transition to ecosystem-based management. Annual Review of Ecology, Evolution, and Systematics 39, 259-78.

Crump, B.C., Hopkinson, C.S., Sogin, M.L., Hobbie, J.E., 2004. Microbial biogeography along an estuarine salinity gradient: combined influences of bacterial growth and residence time. Applied and Environmental Microbiology 70, 1494-1505. DOI: 10.1128/AEM.70.3.1494-1505.2004.

Crump, B.C., Kling, G.W., Bahr, M., Hobbie, J.E., 2003. Bacterioplankton community shifts in an arctic lake correlate with seasonal changes in organic matter source. Applied and Environmental Microbiology 69, 2253-2268. DOI: 10.1128/AEM.69.4.2253-2268.

Culbertson, J., Robinson, L., Campbell, P., Butler, L., 2004. Trends in Texas Commercial Fishery Landings 1981-2001. Texas Parks and Wildlife Department, Austin.

Culverhouse, P.F., Williams, R., Benfield, M., Flood, P.R., Sell, A.F., Mazzocchi, M.G., Buttino, I., Sieracki, M., 2006. Automatic image analysis of plankton: future perspectives. Marine Ecology Progress Series 312, 297-309.

Czerny, A.B., Dunton, K.H., 1995. The effects of in situ light reduction on the growth of two subtropical seagrasses, Thalassia testudinum and Halodule wrightii. Estuaries 18, 418-427. http://dx.doi.org/10.2307/1352324.

D-

Dahl, E., Johannessen, T., 2001. Relationship between occurrence of Dinophysis species (Dinophyceae) and shellfish toxicity. Phycologia 40, 223-227.

Daily, R., 2008. Mesquite Trees. WWW Page, http://desertwaterwisegardens.suite101.com/article.cfm/mesquite_trees. Accessed March 10, 2012.

Dalrymple, R.W., 1992. Tidal depositional systems. In: Walker, R.G., James, N.P. (Eds.), Facies Models Response to Sea Level Changes. Geological Association of Canada, Newfoundland, pp. 195-218.

Dalton, S.E., 2005. Chesapeake Bay, MD National Estuarine Research Reserve, Community Characterization. For NOAA Coastal Services Center. Training Workshop Social Assessment: Tools and Techniques for Coastal Managers, Huron, Ohio.

Dauer, D.M., Ranasinghe, J.A., Weisberg, S.B., 2000. Relationships between benthic community condition, water quality, sediment quality, nutrient loads, and land use patterns in Chesapeake Bay. Estuaries 23, 80-96.

Dauer, D.M., Rodi, A.J., Ranasinghe, J.A., 1992. Effects of low dissolved oxygen events on the macrobenthos of the lower Chesapeake Bay. Estuaries 15, 384-391.

Dauwe, B., Middelburg, J.J., 1998. Amino acids and hexosamines as indicators of organic matter degradation state in North Sea sediments. Limnology and Oceanography 43, 782-798.

Dauwe, B., Middelburg, J.J., Herman, P.M.J., Heip, C.H.R., 1999. Linking diagenetic alteration of amino acids and bulk organic matter reactivity. Limnology and Oceanography 44, 1809-1814.

D'Avanzo, C., Kremer, J., Wainright, S., 1996. Ecosystem production and respiration in response to eutrophication in shallow temperate estuaries. Marine Ecology Progress Series 141, 263-274. doi:10.3354/meps141263.

Davis, R.A. Jr., Fingleton, W.G., Allen, G.R. Jr., Crealese, C.D., Johanns, W.M., O'Sullivan, J.A., Reive, C.L., Scheetz, S.J., Stranaly, G.L., 1973. Corpus Christi Pass: A hurricane modified tidal inlet on Mustang Island, Texas. Contributions in Marine Science 17, 123-131.

Dawes, C.J., Andorfer, J., Rose, C., Uranowski, C., Ehringer, N., 1997. Regrowth of the seagrass Thalassia testudinum into propeller scars. Aquatic Botany 59, 139-155. http://dx.doi.org/10.1016/S0304-3770(97)00021-1.

Day, J.W., Deegan, L.A., Hall, C.A.S., Kemp, W.M., Yáñez-Arancibia, A., 1989. Nekton, the free-swimming consumers. In: Day Jr., J.W., Hall, C.A.S., Kemp, W.M., Yáñez-Arancibia, A. (Eds.), Estuarine Ecology. Wiley, New York, pp. 377-437.

Day, J.W., Hall, C.A.S., Kemp, W.M., Yáñez-Arancibia, A., 1989. Esutarine Ecology. Wiley, New York, 558 pp.

De'ath, G., 2007. Boosted trees for ecological modeling and prediction. Ecology 88, 243-251.

Deegan, L.A., Finn, J.T., Ayvazian, S.G., Ryder-Kieffer, C.A., Buonaccorsi, J., 1997. Development and validation of an estuarine biotic integrity index. Estuaries 20, 601-617.

Dennison, W.C., Alberte, R.S., 1985. Role of daily light period in the depth distribution of Zostera marina (eelgrass). Marine Ecology Progress Series 25, 51-61.

Dennison, W.C., Orth, R.J., Moore, K.A., Stevenson, J.C., Carter, V., Kollar, S., Bergstrom, P.W., Batiuk, R.A., 1993. Assessing water quality with submersed aquatic vegetation: habitat requirements as barometers of Chesapeake Bay health. BioScience 43, 86-94.

DePue, J., 1974. Nesting and Reproduction of the Black Skimmer (Rynchops niger niger Linnaeus) on Four Spoil Islands in the Laguna Madre, Texas. M.S. Thesis, Texas A&I University, Kingsville. 190 pp.

Deubler, E.E., 1960. Salinity as a factor in the control of growth and survival of postlarvae of the southern flounder, Paralichthys lethostigma. Bulletin of Marine Science of the Gulf and Caribbean 10, 338-345.

DeYoe, H.R., Stockwell, D.A., Bidigare, R.R., Latasa, M., Johnson, P.W., Hargraves, P.E., Suttle, C.A., 1997. Description and characterization of the algal species Aureoumbra lagunensis gen. et sp. nov. and referral of Aureoumbra and Aureococcus to the Pelagophyceae. Journal of Phycology 33, 1042-1048.

DeYoe, H.R., Suttle, C.A., 1994. The inability of the Texas "brown tide" alga to use nitrate and the role of nitrogen in the initiation of a persistent bloom of this organism. Journal of Phycology 30, 800-806. http://dx.doi.org/10.1111/j.0022-3646.1994.00800.x.

Diaz, R.J., Rosenberg, R., 2008. Spreading dead zones and consequences for marine ecosystems. Science 321, 926-929.

Dickens, A.F., Baldock, J., Kenna, T.C., Eglinton, T.I., 2011. A depositional history of particulate organic carbon in a floodplain lake from the lower Ob’ River, Siberia. Geochimica et Cosmochimica Acta 75, 4796-4815.

Dickens, A.F., Baldock, J.A., Smernik, R.J., Wakeham, S.G., Arnarson, T.S., Ge´linas, Y., Hedges, J.I., 2006. Solid-state 13C NMR analysis of size and density fractions of marine sediments: Insight into organic carbon sources and preservation mechanisms. Geochimica et Cosmochimica Acta 70, 666-686.

Diehl, S., 2002. Phytoplankton, light, and nutrients in a gradient of mixing depths: theory. Ecology 83, 386-398.

Diener, R.A., 1975. Cooperative Gulf of Mexico Estuarine Inventory and Study, Texas: Area Description. NOAA Technical Report NMFS CIRC 393. U.S. Dept. of Commerce, National Oceanic and Atmospheric Administration, Seattle, WA, 129 pp.

Diez, B., Pedrós-Alió, C., Massana, R., 2001. Study of genetic diversity of eukaryotic picoplankton in different oceanic regions by small-subunit rRNA gene cloning and sequencing. Applied and Environmental Microbiology 67, 2932-2941. DOI: 10.1128/AEM.67.7.2932-2941.2001.

Digby, P.G.N., Kempton, R.A., 1987. Multivariate Analysis of Ecological Communities. Chapman and Hall, London, New York, 206 pp.

Digital Coast, 2011. Coastal Change Analysis Program Regional Land Cover, NOAA Coastal Services Center. WWW Page, http://www.csc.noaa.gov/digitalcoast/data/ccapregional/. Accessed June 15, 2011.

Dilworth, S., Withers, K., 2010. Mollie Beattie Coastal Habitat Community. WWW Page, www.cbbep.org/projects/molliebeattie/index.htm. Accessed February 24, 2010.

Diouf, K., Panfili, J., Labonne, M., Aliaume, C., Tomás, J., Chi, T.D., 2006. Effects of salinity on strontium:calcium ratios in the otoliths of the West African black-chinned tilapia Sarotherodon melanotheron in a hypersaline estuary. Environmental Biology of Fishes 77, 9-20. http://dx.doi.org/10.1007/s10641-006-9048-x.

Division of Instructional Innovation and Assessment. "Response Rates." University of Texas. WWW Page,  www.utexas.edu/academic/diia/assessment/iar/teaching/gather/methods/survey/response. Website last updated July 16, 2007.

Dobson, J.E., Bright, E.A., Ferguson, R.L., Field, D.W., Wood, L.L., Haddad, K.D., Iredale, H., Jensen, J.R., Klemas, V.V., Orth, R.J., Thomas, J.P., 1995. NOAA Coastal Change Analysis Program (C-CAP): Guidance for Regional Implementation. NOAA Technical Report NMFS 123. Scientific Publications Office, National Marine Fisheries Service, Seattle, WA, 92 pp.

Dodson, S.I., Newman, A.L., Will-Wolf, S., Alexander, M.L., Woodford, M.P., Van Egeren, S., 2009. The relationship between zooplankton community structure and lake characteristics in temperate lakes (Northern Wisconsin, USA). Journal of Plankton Research 31, 93-100.

Doherty, P., 1998. Recruitment-limitation: definitions, predictions and tests. ReeFish '95: Recruitment and Population Dynamics of Coral Reef Fisheries. CRC Reef Research Centre, Townsville, Australia, pp. 129-131.

Donahue, M.J., 2007. Strengthening the application of science in coastal decision making: final report. Water Resources and Environmental Services, URS Corporation, Farmington Hills, MI. http://ciceet.unh.edu/news/releases/cso_report/pdf/summary.pdf.

Doney, S.C., Ruckelshaus, M., Duffy, J.E., Barry, J.P., Chan, F., English, C.A., Galindo, H.M., Grebmeier, J.M., Hollowed, A.B., Knowlton, N., Polovina, J., Rabalais, N.N., sydeman, W.J., Talley, L.D., 2012. Climate change impacts on marine ecosystems. Annual Review of Marine Science 4, 11-37. DOI: 10.1146/annurev-marine-041911-111611.

Dorval, E., Jones, C.M., Hannigan, R., 2005. Chemistry of surface waters: distinguishing fine-scale differences in sea grass habitats of Chesapeake Bay. Limnology and Oceanography 50, 1073-1083. http://dx.doi.org/10.4319/lo.2005.50.4.1073. 

Douglas, B.C., 1991. Global sea level rise. Journal of Geophysical Research 96, C4, 6981-6992.

Douglas, G., 1996. Habitat 1: Open bay. In: Tunnell Jr., J.W., Dokken, Q.R. (Eds.), Current Status and Historical Trends of the Estuarine Living Resources Within the Corpus Christi Bay National Estuary Program Study Area. Volume 1. Publication CCBNEP 6. Texas Natural Resource Conservation Commission, Austin, Tex., pp. 43-109.

Drumright, A., 1989. Seasonal Variation in Diversity and Abundance of Faunal Associates of Two Oyster Reefs Within a South Texas Estuarine Complex. M.S. Thesis, Corpus Christi State University, Texas, 150 pp.

Duan, S., Bianchi, T.S., 2007. Particulate and dissolved amino acids in the lower Mississippi and Pearl Rivers (USA). Marine Chemistry 107, 214-229.

Duarte, C.M., 1995. Submerged aquatic vegetation in relation to different nutrient regimes. Ophelia 41, 87-112.

Duke, N.C., 1992. Mangrove floristics and biogeography, 1992. In: Robertson, A.I., Alongi, D.M. (Eds.), Tropical Mangrove Ecosystems. American Geophysical Union, Washington, DC, pp. 63-100.

Dulvy, N.K., Sadovy, Y., Reynolds, J.D., 2003. Extinction vulnerability in marine populations. Fish and Fisheries 4, 25-64.

Dunton, K.H., 1994. Seasonal growth and biomass of the subtropical seagrass Halodule wrightii in relation to continuous measurements of underwater irradiance. Marine Biology 120, 479-489.

Dunton, K., Pulich, W., Mutchler, T., 2007. A seagrass monitoring program for Texas coastal waters: multiscale integration of landscape features with plant and water quality indicators. In: Dunton, K.H., Pulich Jr., W. (Eds.), Landscape Monitoring and Biological Indicators for Seagrass Conservation in Texas Coastal Waters: Final Report. Publication CBBEP-73. Project Number 0627. Coastal Bend Bays & Estuaries Program.

Dunton, K.H., Hardegree, B., Whitledge, T.E., 2001. Response of estuarine marsh vegetation to interannual variations in precipitation. Estuaries 24, 851-861. http://dx.doi.org/10.2307/1353176.

Dunton, K.H., Schonberg, S.V., 2002. Assessment of propeller scarring in seagrass beds of the south Texas coast. Journal of Coastal Research, Special Issue No. 37, 100-110.

Durako, M.J., Hall, M.O., Sargent, F., Peck, S., 1992. Propeller scars in seagrass beds: an assessment and experimental study of recolonization in Weedon Island State Preserve, Florida. Proceedings of the 19th Annual Conference on Wetlands Restoration and Creation. Hillsborough Community College, Plant City, Florida, pp. 42-53.

Dustan, P., Pinckney Jr., J.L., 1989. Tidally induced estuarine phytoplankton patchiness. Limnology and Oceanography 34, 410-419.

Dziock, F., Henle, K., Foeckler, F., Follner, K., Scholz, M., 2006. Biological indicator systems in floodplains -- a review. International Review of Hydrobiology 91, 271-291.

E-

Eargle, D.H., Dickinson, K.A., Davis, B.O., 1975. South Texas uranium deposits. American Association of Petroleum Geologists Bulletin 59, 766-779.

East, J.W., 2001. Discharge Between San Antonio Bay and Aransas Bay, Southern Gulf Coast, Texas, May-September 1999. U.S. Geological Survey, Reston, Va., 6 pp.

Eglinton, G., Hamilton, R.J., 1967. Leaf epicuticular waxes. Science 156, 1322-1335.

Ehrenfeld, J.G., 2000. Evaluating wetlands within an urban context. Ecological Engineering 15, 253-265.

Eiler, A., Hayakawa, D.H., Church, M.J., Karl, D.M., Rappé, M.S., 2009. Dynamics of the SAR11 bacterioplankton lineage in relation to environmental conditions in the oligotrophic North Pacific subtropical gyre. Environmental Microbiology 11, 2291-2300.

Elith, J., Graham, C.H., Anderson, R.P., Dudik, M., Ferrier, S., Guisan, A., Hijmans, R.J., Huettmann, F., Leathwick, J.R., Lehmann, A., Li, J., Lohmann, G., Loiselle, B.A., Manion, G., Moritz, C., Nakamura, M., Nakazawa, Y., Overton, J.McC., Peterson, A.T., Phillips, S.J., Richardson, K., Scachetti-Pereira, R., Schapire, R.E., Soberon, J., Williams, S., Wisz, M.S., Zimmermann, N.E., 2006. Novel methods improve prediction of species' distributions from occurrence data. Ecography 29, 129-151.

Elith, J., Leathwick, J.R., Hastie, T., 2008. A working guide to boosted regression trees. Journal of Animal Ecology 77, 802-813.

Ellison, A.M., Farnsworth, E.J., 2001. Marine communities. In: Bertness, M.D., Gaines, S.D., Hay, M.E. (Eds.), Marine Community Ecology. Sinauer Associates, Sunderland, Massachusetts, pp. 423-442.

Ellison, J.C., 1994. Climate change and sea level rise impacts on mangrove ecosystems. In: Pernetta, J., Leemans, R., Elder, D., Humphrey, S. (Eds.), Impacts of Climate Change on Ecosystems and Species: Marine and Coastal Ecosystems. pp. 11-30.

Ellison, J.C., 1996. Pollen evidence of late Holocene mangrove development in Bermuda. Global Ecology and Biogeography Letters 5, 315-326. http://www.jstor.org/stable/2997587.

Elsdon, T.S., De Bruin, M.B., Diepen, N.J., Gillanders, B.M., 2009. Extensive drought negates human influence on nutrients and water quality in estuaries. Science of the Total Environment 407, 3033-3043.

Elsdon, T.S., Gillanders, B.M., 2006. Temporal variability in strontium, calcium, barium, and manganese in estuaries: implications for reconstructing environmental histories of fish from chemicals in calcified structures. Estuarine, Coastal and Shelf Science 66, 147-156. http://dx.doi.org/10.1016/j.ecss.2005.08.004.

Emanuel, K., 2005. Increasing destructiveness of tropical cyclones over the past 30 years. Nature 436, 686-688. 10.1038/nature03906.

Engelhard, G.H., Dieckmann, U., Godo, O.R., 2003. Age at maturation predicted from routine scale measurements in Norwegian spring-spawning herring (Clupea harengus) using discriminant and neural network analyses. ICES Journal of Marine Science 60, 304-313.

Engelhard, G.H., Heino, M., 2002. Maturation Characteristics in Norwegian Spring-Spawning Herring Before, During, and After a Major Population Collapse. ICES CM Documents 2002/Y:10. International Council for the Exploration of the Sea, Copenhagen.

Environmental Systems Research Institute, 1998. Explore Your World with a Geographic Information System: A Teaching Supplement for Grades 5-12 Introducing GIS concepts and Components. Environmental Systems Research Institute, Redlands, CA.

Environmental Systems Research Institute, 2006. WWW Page, www.esri.com Accessed August 3, 2007. GIS Data Dictionary.

Escalera, L., Reguera, B., 2008. Planozygote division and other observations on the sexual cycle of several species of Dinophysis (Dinophyceae, Dinophysiales). Journal of Phycology 44, 1425-1436.

Eshleman, K.N., Hemond, H.F., 1985. The role of organic acids in the acid-base status of surface waters at Bickford Watershed, Massachusetts. Water Resources Research 21, 1503-1510.

ESRI. 2009. http://www.esri.com/software/arcgis/arcview/index.html.

Etzold, D.J., Christmas, J.Y., 1979. A Mississippi Marine Finfish Management Plan. Report MASGP-78-046. Mississippi-Alabama Sea Grant Consortium, Ocean Springs, Miss. 36 pp.

Evans, A., Madden, K., Morehead, S., 2012. The Ecology and Sociology of the Mission-Aransas Estuary: An Estuarine and Watershed Profile. University of Texas Marine Science Institute, Port Aransas, Texas, 183 pp.

Evans, C.D., Monteith, D.T., Cooper, D.M., 2005. Long-term increases in surface water dissolved organic carbon: observations, possible causes and environmental impacts. Environmental Pollution 137, 55-71. http://dx.doi.org/10.1016/j.envpol.2004.12.031.

Everitt, J.H., Judd, F.W., 1989. Using remote sensing techniques to distinguish and monitor black mangrove (Avicennia germinans). Journal of Coastal Research 5, 737-745. http://www.jstor.org/stable/4297605.

Everitt, J.H., Judd, F.W., Escobar, D.E., Davis, M.R., 1996. Integration of remote sensing and spatial information technologies for mapping black mangrove on the Texas gulf coast. Journal of Coastal Research 12, 64-69. http://www.jstor.org/stable/4298460.

Eyre, B., Balls, P., 1999. A comparative study of nutrient behavior along the salinity gradient of tropical and temperate estuaries. Estuaries 22, 313-326. doi: 10.2307/1352987.

F-

Fabry, V.J., Seibel, B.A., Feely, R.A., Orr, J.C., 2008. Impacts of ocean acidification on marine fauna and ecosystem processes. ICES Journal of Marine Science 65, 414-432. doi:10.1093/icesjms/fsn048.

Fangstrom, I., Willen, E., 1987. Clustering and canonical correspondence analysis of phytoplankton and environmental variables in Swedish lakes. Vegetatio 71, 87-95.

Fanning, K.A., Carder, K.L., Betzer, P.R., 1982. Sediment resuspension by coastal waters: a potential mechanism for nutrient re-cycling on the ocean's margins. Deep Sea Research Part A. Oceanographic Research Papers 29, 953-965. http://dx.doi.org/10.1016/0198-0149(82)90020-6.

FAO, 2007. The World's Mangroves, 1980-2005. Forestry Paper 153, Food and Agriculture Organization of the United Nations, Rome, 77 pp.

Feagin, R.A., Sherman, D.J., Grant, W.E., 2005. Coastal erosion, global sea-level rise, and the loss of sand dune plant habitats. Frontiers in Ecology and the Environment 3, 359-364.

Fear, J.M., Thompson, S.P., Gallo, T.E., Paerl, H.W., 2005. Denitrification rates measured along a salinity gradient in the eutrophic Neuse River Estuary, North Carolina, USA. Estuaries 28, 608-619. doi:10.1007/BF02696071.

Fejes, E., Roelke, D., Gable, G., Heilman, J., McInnes, K., Zuberer, D., 2005. Microalgal productivity, community composition, and pelagic food web dynamics in a subtropical, turbid salt marsh isolated from freshwater inflow. Estuaries 28, 96-107.

Fennel, K., Brady, D., DiToro, D., Fulweiler, R.W., Gardner, W.S., Giblin, A., McCarthy, M.J., Rao, A., Seitzinger, S., Thouvenot-Korppoo, M., Tobias, C., 2009. Modeling denitrification in aquatic sediments. Biogeochemistry 93, 159-178. doi:10.1007/s10533-008-9270-z.

Ficken, K., Li, B., Swain, D., Eglinton, G., 2000. An n-alkane proxy for the sedimentary input of submerged/floating freshwater aquatic macrophytes. Organic Geochemistry 31, 745-749.

Field, C.D., 1995. Impact of expected climate change on mangroves. Hydrobiologia 295, 75-81.

Findlay, H.S., Kendall, M.A., Spicer, J.I., Turley, C., Widdicombe, S., 2008. Novel microcosm system for investigating the effects of elevated carbon dioxide and temperature on intertidal organisms. Aquatic Biology 3, 51-62. doi: 10.3354/ab00061.

Fink, D.F., Mitsch, W.J., 2004. Seasonal and storm event nutrient removal by a created wetland in an agricultural watershed. Ecological Engineering 23, 313-325. http://dx.doi.org/10.1016/j.ecoleng.2004.11.004.

Flax, L.K., Jackson, R.W., Stein, D.N., 2002. Community vulnerability assessment tool methodology. Natural Hazards Review 3, 163-176. http://dx.doi.org/10.1061/(ASCE)1527-6988(2002)3:4(163)

Flint, R.W., 1985. Long-term estuarine variability and associated biological response. Estuaries 8, 158-169.

Fodrie, F.J., Heck, K.L., Powers, S.P., Graham, W.M., Robinson, K.L., 2010. Climate-related, decadal-scale assemblage changes of seagrass-associated fishes in the northern Gulf of Mexico. Global Change Biology 16, 48-59. doi: 10.1111/j.1365-2486.2009.01889.x.

Fogel, M.L., Cifuentes, L.A., Velinsky, D.J., Sharp, J.H., 1992. Relationship of carbon availability in estuarine
phytoplankton to isotopic composition. Marine Ecology Progress Series 82, 291-300.

Forbes, M.G., Alexander, H.D., Dunton, K.H., 2008. Effects of pulsed riverine versus non-pulsed wastewater inputs of freshwater on plant community structure in a semi-arid salt marsh. Wetlands 28, 984-994.

Forbes, M.G., Dunton, K.H., 2006. Response of a subtropical estuarine marsh to local climatic change in the southwestern Gulf of Mexico. Estuaries and Coasts 29, 1242-1254. http://www.jstor.org/stable/4124855.

Fox, D.E., 1983. Traces of Texas History: Archeological Evidence of the Past 450 Years. Corona Publishing Co., San Antonio, 416 pp.

Freedman, D., Pisani, R., Purves, R., 1998. Statistics. 3rd. W.W. Norton, NY, 578 pp.

Freeman, K.H., Wakeham, S.G., Hayes, J.M., 1994. Predictive isotopic biogeochemistry: hydrocarbons from anoxic marine basins. Organic Geochemistry 21, 629-644.

Freese, L.R., 1952. Marine diatoms of the Rockport, Texas, Bay area. Texas Journal of Science 4, 331-386.

Friedman, J.H., 2001. Greedy function approximation: a gradient boosting machine. The Annals of Statistics 29, 1189-1232. http://www.jstor.org/stable/2699986.

Froeschke, B.F., Sterba-Boatwright, B., Stunz, G.W., 2011. Assessing southern flounder (Paralichthys lethostigma) long-term population trends in the northern Gulf of Mexico using time series analyses. Fisheries Research 108, 291-298. doi: 10.1016/j.fishres.2010.12.023.

Froeschke, B.F., Stunz, G.W., Robillard, M.M.R., Williams, J., Froeschke, J.T., 2013. A modeling and field approach to identify essential fish habitat for juvenile bay whiff (Citharichthys spilopterus) and southern flounder (Paralichthys lethostigma) within the Aransas Bay Complex, TX. Estuaries and Coasts 36,  881-892. DOI: 10.1007/s12237-013-9600-9.

Froeschke, J., Stunz, G.W., Wildhaber, M.L., 2010. Environmental influences on the occurrence of coastal sharks in estuarine waters. Marine Ecology Progress Series 407, 279-292. doi: 10.3354/meps08546.

Froeschke, J.T., Froeschke, B.F., 2011. Spatio-temporal predictive model based on environmental factors for juvenile spotted seatrout in Texas estuaries using boosted regression trees. Fisheries Research 111, 131-138. doi:10.1016/j.fishres.2011.07.008.

Fry, B., 2002. Conservative mixing of stable isotopes across estuarine salinity gradients: a conceptual framework for monitoring watershed influences on downstream fisheries production. Estuaries 25, 264-271. http://www.jstor.org/stable/1353315.

Fuhrman, J.A., Hewson, I., Schwalbach, M.S., Steele, J.A., Brown, M.V., Naeem, S., 2006. Annually reoccurring bacterial communities are predictable from ocean conditions. Proceedings of the National Academy of Sciences 103, 13104-13109.

Fukushima, T., Ishibashi, T., Imai, A., 2001. Chemical characterization of dissolved organic matter in Hiroshima Bay, Japan. Estuarine, Coastal and Shelf Science 53, 51-62. doi: 10.1006/ecss.2001.0777.

Fulbright, T.E., Diamond, D.D., Rappole, J., Norwine, J., 1990. The coastal sand plain of southern Texas. Rangelands 12, 337-340.

Fulweiler, R.W., Nixon, S.W., Buckley, B.A., Granger, S.L., 2007. Reversal of the net dinitrogen gas flux in coastal marine sediments. Nature 448, 180-182. doi:10.1038/nature05963.

G-

Gardner, W.S., Bootsma, H.A., Evans, C., St. John, P.A., 1995. Improved chromatographic analysis of 15N:14N ratios in ammonium or nitrate for isotope addition experiments. Marine Chemistry 48, 271-282. http://dx.doi.org/10.1016/0304-4203(94)00060-Q.

Gardner, W.S., McCarthy, M.J., 2009. Nitrogen dynamics at the sediment-water interface in shallow, sub-tropical Florida Bay: why denitrification efficiency may decrease with increased eutrophication. Biogeochemistry 95, 185-198. http://dx.doi.org/10.1007/s10533-009-9329-5.

Gardner, W.S., McCarthy, M.J., An, S., Sobolev, D., Sell, K.S., Brock, D., 2006. Nitrogen fixation and dissimilatory nitrate reduction to ammonium (DNRA) support nitrogen dynamics in Texas estuaries. Limnology and Oceanography 51, 558-568. DOI: 10.4319/lo.2006.51.1_part_2.0558.

Gardner, W.S., McCarthy, M.J., Carini, S.A., Souza, A.C., Lijun, H., McNeal, K.S., Puckett, M.K., Pennington, J., 2009. Collection of intact sediment cores with overlying water to study nitrogen- and oxygen-dynamics in regions with seasonal hypoxia. Continental Shelf Research 29, 2207-2213. http://dx.doi.org/10.1016/j.csr.2009.08.012.

Garcés, E., Delgado, M., Camp, J., 1997. Phased cell division in a natural population of Dinophysis sacculus and the in situ measurement of potential growth rate. Journal of Plankton Research 19, 2067-2077.

Gaullucci, V.F., Taylor, I.G., Erzini, K., 2006. Conservation and management of exploited shark populations based on reproductive value. Canadian Journal of Fisheries and Aquatic Sciences 63, 931-942.

Gelinas, Y., Baldock, J.A., Hedges, J.I., 2001a. Demineralization of marine and freshwater sediments for CP/MAS 13C NMR analysis. Organic Geochemistry 32, 677-693. http://dx.doi.org/10.1016/S0146-6380(01)00018-3.

Gelinas, Y., Baldock, J.A., Hedges, J.I., 2001b. Organic carbon composition of marine sediments: effect of oxygen exposure on oil generation potential. Science 294, 145-148.

Gentien, P., Lazure, P., Nezan, E., Lunven, M., Crassous, M.P., Danielou, M.M., 2004. How do the gametes of the rare marine protist Dinophysis acuminata mate? Harmful Algae 2004: Proceedings of the 11th International Conference on Harmful Algae. NISC Pty. Ltd., Cape Town, South Africa, pp. 121.

GEOHAB, 2003. Global Ecology and Oceanography of Harmful Algal Blooms: Implementation Plan. Gentien, P., Pitcher, G., Cembella, A., and Glibert, P. (Eds.). GEOHAB Report 2, SCOR and IOC, Baltimore and Paris. 36 pp.

GESAMP (IMO/FAO/UNESCO-IOC/WMO/WHO/IAEA/UN/UNEP Joint Group of Experts on the Scientific Aspects of Marine Environmental Protection) and Advisory Committee on Protection of the Sea. 2001. Protecting the Oceans From Land-based Activities - Land-based Sources and Activities Affecting the Quality and Uses of the Marine, Coastal and Associated Freshwater Environment. Reports and Studies GESAMP No. 71. GESAMP, The Hague, 162 pp.

Giacobbe, M.G., Gangemi, E., 1997. Vegetative and sexual aspects of Dinophysis pavillardi (Dinophyceae). Journal of Phycology 33, 73-80.

Gibeaut, J.C., Tremblay, T.A., 2003. Coastal Hazards Atlas of Texas: A Tool for Hurricane Preparedness and Coastal Management-Volume 3, The South Coast. Bureau of Economic Geology, The University of Texas at Austin, 29 pp.

Gibeaut, J.C., White, W.A., Smyth, R.C., Andrews, J.R., Tremblay, T.A., Gutiérrez, R., Hepner, T.L., Neuenschwander, A., 2003. Topographic variation of barrier island subenvironments and associated habitats. Coastal Sediments '03: "Crossing Disciplinary Boundaries": The Fifth International Symposium on Coastal Engineering and Science of Coastal Sediment Processes: Proceedings, May 18-23, 2003, Clearwater Beach, Florida, USA. CD-ROM, 10 pp.

Giblin, A.E., Weston, N.B., Banta, G.T., Tucker, J., Hopkinson, C.S., 2010. The effects of salinity on nitrogen losses from an oligohaline estuarine sediment. Estuaries and Coasts 33, 1054-1068. http://dx.doi.org/10.1007/s12237-010-9280-7.

Gibson, C.J., 2006a. Bacterial Loadings Watershed Model in Copano Bay. On-line report 06-06. Center for Research in Water Resources, The University of Texas at Austin, 443 pp.

Gibson, C.J., 2006b. Bacterial Loadings Watershed Model in Copano Bay. M.S. Thesis, The University of Texas at Austin. 413 pp.

Gibson, R.N., 1994. Impact of habitat quality and quantity on the recruitment of juvenile flatfishes. Netherlands Journal of Sea Research 32, 191-206.

Gillanders, B.M., Munro, A.R., 2012. Hypersaline waters pose new challenges for reconstructing environmental histories of fish based on otolith chemistry. Limnology and Oceanography 57, 1136-1148. http://dx.doi.org/10.4319/lo.2012.57.4.1136.

Glasby, T.M., 1998. Estimating spatial variability in developing assemblages of epibiota on subtidal hard substrata. Marine and Freshwater Research 49, 429-437.

Glasby, T.M., Connell, S.D., 2001. Orientation and position of substrata have large effects on epibiotic assemblages. Marine Ecology Progress Series 214, 127-135.

Glass, L.A., Rooker, J.R., Kraus, R.T., Holt, G.J., 2008. Distribution, condition, and growth of newly settled southern flounder (Paralichthys lethostigma) in the Galveston Bay Estuary, TX. Journal of Sea Research 59, 259-268. doi:10.1016/j.seares.2008.02.006.

Gonçalves, A.M.M., De Troch, M., Marques, S.C., Pardal, M.A., Azeiteiro, U.M., 2010. Spatial and temporal distribution of harpacticoid copepods in Mondego estuary. Journal of the Marine Biological Association of the United Kingdom 90, 1279-1290.

Goni, M.A., Ruttenberg, K.C., Eglinton, T.I., 1997. Sources and contribution of terrigenous organic carbon to surface sediments in the Gulf of Mexico. Nature 389, 275-278.

González-Ortegón E., Drake, P., 2012. Effects of freshwater inputs on the lower trophic levels of a temperate estuary: physical, physiological or trophic forcing? Aquatic Sciences 74, 455-469. http://dx.doi.org/10.1007/s00027-011-0240-5.

Gopal, B., 2000. Wetlands and agriculture: are we heading for confrontation or conservation. Proceedings of a Conference on Sustainability of Wetlands and Water Resources. U.S. Department of Agriculture, Forest Service, Southern Research Station, Asheville, NC, pp. 88-93.

Graham, W.M., Martin, D.L., Felder, D.L., Asper, V.L., Perry, H.M., 2003. Ecological and economic implications of a tropical jellyfish invader in the Gulf of Mexico. Biological Invasions 5, 53-69.

Gray, J.S., Elliot, M., 2009. The Ecology of Marine Sediments: From Science to Management. 2nd ed. Oxford University Press, New York, 225 pp.

Greiner La Peyre, M.K., Grace, J.B., Hahn, E., Mendelssohn, I.A., 2001. The importance of competition in regulating plant species abundance along a salinity gradient. Ecology 82, 62-69. http://www.jstor.org/stable/2680086.

Grieco, E.M., Cassidy, R.C., 2001. Overview of Race and Hispanic Origin: Census 2000 Brief. U.S. Census, Report C2KBR/01-1.

GSA BBEST, 2011. Environmental Flows Recommendations Report. Final Submission to the Guadalupe, San Antonio, Mission, and Aransas Rivers and Mission, Copano, Aransas, and San Antonio Bays Basin and Bay Area Stakeholder Committee, Environmental Flows Advisory Group, and Texas Commission on Environmental Quality. Texas Commission on Environmental Quality, Austin. 1 v.

Guerin, J.L., Stickle, W.B., 1992. Effects of salinity gradients on the tolerance and bioenergetics of juvenile blue crabs (Callinectes sapidus) from waters of different environmental salinities. Marine Biology 114, 391-396. doi: 10.1007/BF00350029.

Guisan, A., Thuiller, W., 2005. Predicting species distribution: offering more than simple habitat models. Ecology Letters 8, 993-1009. doi: 10.1111/j.1461-0248.2005.00792.x.

Gunter, G., 1967. Some relationships of estuaries to the fisheries of the Gulf of Mexico. In: Lauff, G.H. (Ed.), Estuaries [papers]. AAAS Publication No. 83. American Association for the Advancement of Science, Washington, pp. 621-638.

Gunter, G., 1945. Studies on marine fishes of Texas. Publications of the Institute of Marine Science 1, 1-190.

H-

Habib, O.A., Tippett, R., Murphy, K.J., 1997. Seasonal changes in phytoplankton community structure in relation to physico-chemical factors in Loch Lomond, Scotland. Hydrobiologia 350, 63-79.

Haedrich, R.L., Hall, C.A.S., 1976. Fishes and estuaries. Oceanus 19, 55-63.

Hallegraeff, G.M., 1998. Transport of toxic dinoflagellates via ships' ballast water: bioeconomic risk assessment and efficacy of possible ballast water management strategies. Marine Ecology Progress Series 168, 297-309.

Halpern, B.S., Walbridge, S., Selkoe, K.A., Kappel, C.V., Micheli, F., D'Agrosa, C., Bruno, J.F., Casey, K.S., Ebert, C., Fox, H.E., Fujita, R., Heinemann, D., Lenihan, H.S., Madin, E.M.P., Perry, M.T., Selig, E.R., Spalding, M., Steneck, R., Watson, R., 2008. A global map of human impact on marine ecosystems. Science 319, 948-952. http://dx.doi.org/10.1126/science.1149345.

Hammer, D.A., 1992. Creating Freshwater Wetlands. Lewis Publishers, Boca Raton, Florida, 298 pp.

Handley, L., Altsman, D., DeMay, R., 2007. Seagrass Status and Trends in the Northern Gulf of Mexico: 1940-2002. Scientific Investigations Report 2006-5287. U.S. Environmental Protection Agency 855-R-04-003. U.S. Department of the Interior, U.S. Geological Survey, Reston, VA, 267 pp.

Hanor, J.S., Chan, L.H., 1977. Non-conservative behavior of barium during mixing of Mississippi River and Gulf of Mexico waters. Earth and Planetary Science Letters 37, 242-250. http://dx.doi.org/10.1016/0012-821X(77)90169-8.

Harding, L.W., 1994. Long-term trends in the distribution of phytoplankton in Chesapeake Bay: roles of light, nutrients and streamflow. Marine Ecology Progress Series 104, 267-291.

HARRNESS, 2005. Harmful Algal Research and Response: A National Environmental Science Strategy 2005-2015. Ramsdell, J.S., D.M. Anderson and P.M. Glibert (Eds.). Ecological Society of America, Washington, DC. 96 pp.

Hartman, B., Hammond, D. E., 1985. Gas exchange in San Francisco Bay. Hydrobiologia 129, 59-68. http://dx.doi.org/10.1007/BF00048687.

Hastings, K., Hesp, P., Kendrick, G.A., 1995. Seagrass loss associated with boat moorings at Rottnest Island, Western Australia. Ocean and Coastal Management 26, 225-246. http://dx.doi.org/10.1016/0964-5691(95)00012-Q.

Hattermann, F.F., Krysanova, V., Hesse, C., 2008. Modelling wetland processes in regional applications. Hydrological Sciences 53, 1001-1012. http://dx.doi.org/10.1623/hysj.53.5.1001.

Hauxwell, J., Valiela, I., 2004. Effects of nutrient loading on shallow seagrass-dominated coastal systems: patterns and processes. In: Nielsen, S.L., Banta, G.T., Pedersen, M.F. (Eds.), Estuarine Nutrient Cycling: The Influence of Primary Producers : the Fate of Nutrients and Biomass. Kluwer Academic Publishers, Dordrecht, The Netherlands, pp. 59-52. DOI: 10.1007/978-1-4020-3021-5_3.

Hayakawa, A., Shimizu, M., Woli, K.P., Kuramochi, K., Hatano, R., 2006. Evaluating stream water quality through land use analysis in two grassland catchments: impact of wetlands on stream nitrogen concentration. Journal of Environmental Quality 35, 617-627. DOI:10.2134/jeq2005.0343.

Hayes, D.B., Ferreri, C.P., Taylor, W.W., 1996. Linking fish habitat to their population dynamics. Canadian Journal of Fisheries and Aquatic Sciences 53, Supplement 1, 383-390.

Hays, G.C., Richardson, A.J., Robinson, C., 2005. Climate change and marine plankton. Trends in Ecology and Evolution 20, 337-344. http://dx.doi.org/10.1016/j.tree.2005.03.004.

Heaton, T.H.E., 1986. Isotopic studies of nitrogen pollution in the hydrosphere and atmosphere: a review. Chemical Geology: Isotope Geoscience Section 59, 87-102. doi: 10.1016/0168-9622(86)90059-X.

Hedges, J.I., Baldock, J.A., Gelinas, Y., Lee, C., Peterson, M., Wakeham, S.G., 2001. Evidence for non-selective preservation of organic matter in sinking marine particles. Nature 409, 801-804. http://dx.doi.org/10.1038/35057247.

Hedges, J.I., Eglinton, G., Hatcher, P.G., Kirchman, D.L., Arnosti, C., Derenne, S., Evershed, R.P., Kogel-Knabner, I., de Leeuw, J.W., Littke, R., Michaelis, W., Rullkotter, J., 2000. The molecularly-uncharacterized component of nonliving organic matter in natural environments. Organic Geochemistry 31, 945-958. http://dx.doi.org/10.1016/S0146-6380(00)00096-6.

Hedges, J.I., Keil, R.G., 1995. Sedimentary organic matter preservation: an assessment and speculative synthesis: closing comments. Marine Chemistry 49, 137-139. http://dx.doi.org/10.1016/0304-4203(95)00013-H.

Hedges, J.I., Oades, J.M., 1997. Comparative organic geochemistries of soils and marine sediments. Organic Geochemistry 27, 319-361. http://dx.doi.org/10.1016/S0146-6380(97)00056-9.

Hedges, J.I., Stern, J.H., 1984. Carbon and nitrogen determinations of carbonate-containing solids. Limnology and Oceanography 29, 657-663.

Heinz Center, 2000. The Hidden Costs of Coastal Hazards: Implications for Risk Assessment and Mitigation. Island Press, Washington, D.C.

Helsel, D.R., Hirsch, R.M., 2002. Statistical Methods in Water Resources. Techniques of water-resources investigations, Book 4, Chapter A3, U.S. Geological Survey, Reston, VA, 522 pp.

Hemmert, W.H., 1975. The public health implications of Gymnodinium breve red tides, a review of the literature and recent events. Proceedings of the First International Conference on Toxic Dinoflagellate Blooms. Massachusetts Science and Technology Foundation, Wakefield, Massachusetts, pp. 489-497.

Hemond, H.F., Benoit, J., 1988. Cumulative impacts on water quality functions of wetlands. Environmental Management 12, 639-653. DOI: 10.1007/BF01867542.

Henrichs, D.W., Renshaw, M.A., Santamaria, C.A., Richardson, B., Gold, J.R., Campbell, L., 2008. PCR amplification of microsatellites from single cells of Karenia brevis preserved in Lugol's iodine solution. Marine Biotechnology 10, 122-127.

Henrichs, S.M., 1992. Early diagenesis of organic matter in marine sediments : progress and perplexity. Marine chemistry 39, 119-149. http://dx.doi.org/10.1016/0304-4203(92)90098-U.

Henry, R.P., Wheatly, M.G., 1992. Interaction of respiration, ion regulation, and acid-base balance in the everyday life of aquatic crustaceans. American Zoologist 32, 407-416. http://www.jstor.org/stable/3883620.

Herrmann, R., Stottlemyer, R., 1991. Long-term monitoring for environmental change in U.S. National Parks: a watershed approach. Environmental Monitoring and Assessment 17, 51-65.

Herzka, S.Z., Holt, G.J., 2000. Changes in isotopic composition of red drum (Sciaenops ocellatus) larvae in response to dietary shifts: potential applications to settlement studies. Canadian Journal of Fisheries and Aquatic Sciences 57, 137-147. DOI: 10.1139/f99-174.

Herzka, S.Z., Holt, S.A., Holt, G.J., 2001. Documenting the settlement history of individual fish larvae using stable isotope ratios: model development and validation. Journal of Experimental Marine Biology and Ecology 265, 49-74. doi: 10.1016/S0022-0981(01)00324-0.

Hester, T.R., 1980. Digging Into South Texas Prehistory: A Guide for Amateur Archaeologists. Corona Publishing Co., San Antonio, 201 pp.

Hickman Jr., C.P., 1968. Glomerular filtration and urine flow in the euryhaline southern flounder, Paralichthys lethostigma, in seawater. Canadian Journal of Zoology 46, 427-437. http://dx.doi.org/10.1139/z68-061.

Hicks, R.E., Lee, C., Marinucci, A.C., 1991. Loss and recycling of amino acids and protein from smooth cordgrass (Spartina alterniflora) litter. Estuaries 14, 430-439. http://dx.doi.org/10.2307/1352267.

Hidalgo, M., Rouyer, T., Molinero, J.C., Massuti, E., Moranta, J., Guijarro, B., Stenseth, N. C., 2011. Synergistic effects of fishing-induced demographic changes and climate variation on fish population dynamics. Marine Ecology Progress Series 426, 1-12.

Hiemstra, P.H., Pebesma, E.J., Twenhöfel, C.J.W., Heuvelink, G.B.M., 2009. Real-time automatic interpolation of ambient gamma dose rates from the Dutch radioactivity monitoring network. Computers & Geosciences 35, 1711-1721. http://dx.doi.org/10.1016/j.cageo.2008.10.011.

Hijmans, R.J., van Etten, J., 2012. Raster: geographic analysis and modeling with raster data. R Package Version 2.0-08.

Hilborn, R., Branch, T.A., Ernst, B., Magnusson, A., Minte-Vera, C.V., Scheuerell, M.D., Valero, J.L., 2003. State of the world's fisheries. Annual Review of Environment and Resources 28, 359-399. http://dx.doi.org/10.1146/annurev.energy.28.050302.105509.

Hill, A.R., 1993. Nitrogen dynamics of storm runoff in the riparian zone of a forested watershed. Biogeochemistry 20, 19-44.

Hill, P.S., 1998. Controls on floc size in the sea. Oceanography 11, 13-18.

Hinga, K.R., Stanley, D.W., Klein, C.J., Lucid, D.T., Katz, M.J. (Eds.), 1991. The National Estuarine Eutrophication Project: Workshop Proceedings. National Oceanic and Atmospheric Administration, Rockville, Maryland, and the University of Rhode Island Graduate School of Oceanography, Narragansett, Rhode Island, 41 pp.

Hinrichsen, D., 1998. Coastal Waters of the World: Trends, Threats, and Strategies. Island Press, Washington, DC, 275 pp.

Hittle, J., 2011. Integrated Planning for Resilient Communities: A Technical Guide to Integrating Hazard, Ecosystem and Land Use Planning. EBM Tools Network. http://www.ebmtools.org.

Hixon, M.A., 1998. Population dynamics of coral-reef fishes: controversial concepts and hypotheses. Australian Journal of Ecology 23, 192-201.

Hixon, M.A., Beets, J.P., 1989. Shelter characteristics and Caribbean fish assemblages: experiments with artificial reefs. Bulletin of Marine Science 44, 666-680.

Hockaday, W.C., Masiello, C.A., Randerson, J.T., Smernik, R.J., Baldock, J.A., Chadwick, O.A., Harden, J.W., 2009. Measurement of soil carbon oxidation state and oxidative ratio by 13C nuclear magnetic resonance. Journal of Geophysical Research: Biogeosciences 114, 1-14. doi:10.1029/2008JG000803.  

Hoese, H.D., 1967. Effect of higher than normal salinities on salt marshes. Contributions in Marine Science 12, 249-261.

Hoese, H.D., Moore, R.H., 1998. Fishes of the Gulf of Mexico, Texas, Louisiana, and adjacent waters. Texas A&M University Press, College Station, 422 pp.

Holland, A.F., Shaughnessy, A.T., Hiegel, M.H., 1987. Long-term variation in mesohaline Chesapeake Bay macrobenthos: spatial and temporal patterns. Estuaries 10, 227-245. http://www.jstor.org/stable/1351851.

Holland, F.R., 1972. America's Lighthouses: An Illustrated History. Dover, New York, 230 pp.

Holland, J.S., Maciolek, N.J., Kalke, R.D., Mullins, L., Oppenheimer, C.H., 1975. A Benthos and Plankton Study of the Corpus Christi, Copano, and Aransas Bay Systems. III, Report on Data Collected During the Period July, 1974-May, 1975 and Summary of the Three-year Project: Final report. University of Texas Marine Science Institute, Port Aransas, Texas, 174 pp.

Holt, G.J., Holt, S.A., 2000. Vertical distribution and the role of physical processes in the feeding dynamics of two larval sciaenids Sciaenops ocellatus and Cynoscion nebulosus. Marine Ecology Progress Series 193, 181-190.

Holt, S.A., 2008. Distribution of red drum spawning sites identified by a towed hydrophone array. Transactions of the American Fisheries Society 137, 551-561. DOI: 10.1577/T03-209.1.

Horner-Devine, M.C., Lage, M., Hughes, J.B., Bohannan, B.J.M., 2004. A taxa-area relationship for bacteria. Nature 432, 750-753.

Horner-Devine, M.C., Silver, J.M., Leibold, M.A., Bohannan, B.J.M., Colwell, R.K., Fuhrman, J.A., Green, J.L., Kuske, C.R., Martiny, J.B.H., Muyzer, G., Øvreås, L., Reysenbach, A.L., Smith, V.H., 2007. A comparison of taxon co-occurrence patterns for macro- and microorganisms. Ecology 88, 1345-1353.

Hou, L., Liu, M., Carini, S.A., Gardner, W.S., 2012. Transformation and fate of nitrate near the sediment-water interface of Copano Bay. Continental Shelf Research 35, 86-94. http://dx.doi.org/10.1016/j.csr.2012.01.004.

Houde, E.D., Rutherford, E.S., 1993. Recent trends in estuarine fisheries: predictions of fish production and yield. Estuaries 16, 161-176.

Howarth, R., Anderson, D., Cloern, J., Elfring, C., Hopkinson, C., Lapointe, B., Malone, T., Marcus, N., McGlathery, K., Sharpley, A., Walker, D., 2000. Nutrient Pollution of Coastal Rivers, Bays, and Seas. Issues in Ecology No. 7. 15 pp.

Howarth, R., Paerl, H.W., 2008. Coastal marine eutrophication: control of both nitrogen and phosphorous is necessary. Proceedings of the National Academy of Sciences 105, E103. http://dx.doi.org/10.1073/pnas.0807266106.

Howarth, R.W., Fruci, J.R., Sherman, D., 1991. Inputs of sediment and carbon to an estuarine ecosystem: influence of land use. Ecological Applications 1, 27-39. http://dx.doi.org/10.2307/1941845.

Howarth, R.W., Marino, R., 2006. Nitrogen as the limiting nutrient for eutrophication in coastal marine ecosystems: evolving views over three decades. Limonology and Oceanography 51, 364-376. http://www.jstor.org/stable/4499596.

Howie, C.T., Kunz, J., Law, K.H., 1997. Software interoperability. CIFE technical report no. 117. Center for Integrated Facility Engineering, Stanford University. http://cife.stanford.edu/sites/default/files/TR117.pdf.

Hughes, L., 2000. Biological consequences of global warming: is the signal already [apparent]? Trends in Ecology and Evolution 15, 56-61. http://dx.doi.org/10.1016/S0169-5347(99)01764-4.

Hughes, T.P., Bellwood, D.R., Folke, C., Steneck, R.S., Wilson, J., 2005. New paradigms for supporting the resilience of marine ecosystems. Trends in Ecology & Evolution 20, 380-386. http://dx.doi.org.10.1016/j.tree.2005.03.022.

Huntley, M., Sykes, P., Rohan, S., Marin, V., 1986. Chemically-mediated rejection of dinoflagellate prey by the copepods Calanus pacificus and Paracalanus parvus: mechanism, occurrence and significance. Marine Ecology Progress Series 28, 105-120.

Huson, H., 1935. El Copano, the Ancient Port of Bexar and La Bahia. The Refugio Timely Remarks, Refugio, Texas.

Hwang, J., Druffel, E.R.M., 2003. Lipid-like material as the source of the uncharacterized organic carbon in the Ocean? Science 299, 881-884. doi: 10.1126/science.1078508.

I-

Ingalls, A.E., Lee, C., Wakeham, S.G., Hedges, J.I., 2003. The role of biominerals in the sinking flux and preservation of amino acids in the Southern Ocean along 170 degrees W. Deep-Sea Research II 50, 713-738. 

Ingalls, A.E., Liu, Z.F., Lee, C., 2006. Seasonal trends in the pigment and amino acid compositions of sinking particles in biogenic CaCO3 and SiO2 dominated regions of the Pacific sector of the Southern Ocean along 170 degrees W. Deep Sea Research I 53, 836-859. http://dx.doi.org/10.1016/j.dsr.2006.01.004.

Ingram, B.L., Conrad, M.E., Ingle, J.C., 1996. Stable isotope and salinity systematics in estuarine waters and carbonates: San Francisco Bay. Geochimica et Cosmochimica Acta 60, 455-467. http://dx.doi.org/10.1016/0016-7037(95)00398-3.

Intergovernmental Panel on Climate Change (IPCC), 2001a. Climate Change 2001: Impacts, Adaptation, and Vulnerability. Contribution of Working Group II to the Third Assessment Report of the Intergovernmental Panel on Climate Change [McCarthy, J.J., O.F. Canziani, N.A. Leary, D.J. Dokken and K.S. White (eds.)]. Cambridge University Press, Cambridge, UK and New York, NY, 1032 pp.

Intergovernmental Panel on Climate Change (IPCC), 2001b. Climate Change 2001: The Scientific Basis. Contribution of Working Group I to the Third Assessment Report of the Intergovernmental Panel on Climate Change [Houghton, J.T., Y. Ding, D.J. Griggs, M. Noguer, P.J. van der Linden, X. Dai, K. Maskell, and C.A. Johnson (eds.)]. Cambridge University Press, Cambridge, UK and New York, NY, 881 pp.

Intergovernmental Panel on Climate Change (IPCC), 2007. Climate Change 2007: The Physical Science Basis. Contribution of Working Group I to the Fourth Assessment Report of the Intergovernmental Panel on Climate Change [Solomon, S., D. Qin, M. Manning, Z. Chen, M. Marquis, K.B. Averyt, M. Tignor and H.L. Miller (Eds.)]. Cambridge University Press, Cambridge, UK and New York, NY, 996 pp.

Irwin, A.J., Finkel, Z.V., Schofield, O.M.E., Falkowski, P.G., 2006. Scaling-up from nutrient physiology to the size-structure of phytoplankton communities. Journal of Plankton Research 28, 459-471.

IUCN-CMP, 2006. Unified Classification of Direct Threats. Version 1.0. WWW Page, http://www.iucn.org/themes/ssc/sis/classification.htm.

Ives, J.D., 1985. The relationship between Gonyaulax tamarensis cell toxin levels and copepod ingestion rates. In: Anderson, D.M., White, A.W., Baden, D.G., 1985. Toxic Dinoflagellates. Elsevier, New York, pp. 413-418.

Ives, J.D., 1987. Possible mechanisms underlying copepod grazing responses to levels of toxicity in red tide dinoflagellates. Journal of Experimental Marine Biology and Ecology 112, 131-144. doi: 10.1016/0022-0981(87)90113-4.

J-

Jackson, J.B.C., Kirby, M.X., Berger, W.H., Bjorndal, K.A., Botsford, L.W., Bourque, B.J., Bradbury, R.H., Cooke, R., Erlandson, J., Estes, J.A., Hughes, T.P., Kidwell, S., Lange, C.B., Lenihan, H.S., Pandolfi, J.M., Peterson, C.H., Steneck, R.S., Tegner, M.J., Warner, R.R., 2001. Historical overfishing and the recent collapse of coastal ecosystems. Science 293, 629-638. http://dx.doi.org/10.1126/science.1059199.

Jacob, J.S., Moulton, D.W., Lopez, R.A., 2003. Texas Coastal Wetlands. WWW Page, www.texaswetlands.org. Accessed February 25, 2010.

Jamet, J.-L., Jean, N., Bogé, G., Richard, S., Jamet, D., 2005. Plankton succession and assemblage structure in two neighbouring littoral ecosystems in the north-west Mediterranean Sea. Marine and Freshwater Research 56, 69-83.

Jeong, H.J., 1994. Predation effects of the calanoid copepod Acartia tonsa on a population of the heterotrophic dinoflagellate Protoperidinium cf. divergens in the presence of co-occurring red-tide dinoflagellate prey. Marine Ecology Progress Series 111, 87-97.

Jiang, R., Woli, K.P., Kuramochi, K., Hayakawa, A., Shimizu, M., Hatano, R., 2010. Hydrological process controls on nitrogen export during storm events in an agricultural watershed. Soil Science and Plant Nutrition 56, 72-85. DOI: 10.1111/j.1747-0765.2010.00456.x.

Johns, N.D., 2004. Bays in Peril: A Forecast for Freshwater Flows to Texas Estuaries. National Wildlife Federation, Gulf States Natural Resource Center, Austin, Texas, 44 pp.

Johnson, S.L., 2009. A General Method For Modeling Coastal Water Pollutant Loadings. Ph.D. Thesis, The University of Texas at Austin, 325 pp. UTDR

Johnson, W.S., Allen, D.M., 2005. Zooplankton of the Atlantic and Gulf Coasts: a Guide to Their Identification and Ecology. Johns Hopkins University Press, Baltimore, Maryland, 379 pp.

Jones, K., Hanna, E., 2004. Design and implementation of an ecological engineering approach to coastal restoration at Loyola Beach, Kleberg County, Texas. Ecological Engineering 22, 249-261. doi: 10.1016/j.ecoleng.2004.05.006.

Jones, K., Pan, X., Garza, A., Lloyd-Reilley, J., 2010. Multi-level assessment of ecological coastal restoration in South Texas. Ecological Engineering 36, 435-440. doi: 10.1016/j.ecoleng.2009.11.010.

Jones, M.N. 1984. Nitrate reduction by shaking with cadmium: alternative to cadmium columns. Water Resources 18, 643-646. doi: 10.1016/0043-1354(84)90215-X.

Joung, D., Shiller, A.M., 2013. Trace element distributions in the water column near the Deepwater Horizon Well blowout. Environmental Science & Technology 47, 2161-2168. http://dx.doi.org/10.1021/es303167p.

Joung, D., Shiller, A.M., 2014. Dissolved barium behavior in Louisiana Shelf waters affected by the Mississippi/Atchafalaya River mixing zone. Geochimica et Cosmochimica Acta 141, 303-313. http://dx.doi.org/10.1016/j.gca.2014.06.021.

Joye, S.B., Paerl, H.W., 1994. Nitrogen cycling in microbial mats: rates and patterns of denitrification and nitrogen fixation. Marine Biology 119, 285-295. http://dx.doi.org/10.1007/BF00349568.

Judd, F.W., 2002. Tamaulipan biotic province. In: Tunnell Jr., J.W., Judd, F.W. (Eds.), The Laguna Madre of Texas and Tamaulipas. Texas A&M University Press, College Station, pp. 38-58.

Justic, D., Rabalais, N.N., Turner, R.E., 1997. Impacts of climate change on net productivity of coastal waters: implications for carbon budgets and hypoxia. Climate Research 8, 225-237.

K-

Kaiser, M.J., 2006. The Texas Artificial Reef Program. Marine Technology Society Journal 40, 62-72. doi: 10.4031/002533206787353619.

Kalke, R.D., Montagna, P.A., 1991. The effect of freshwater inflow on macrobenthos in the Lavaca River Delta and Upper Lavaca Bay, Texas. Contributions in Marine Science 32, 49-71.

Kathiresan, K., Bingham, B.L., 2001. Biology of mangroves and mangrove ecosystems. Advances in Marine Biology 40, 81-251.

Keil, R.G., Tsamakis, E., Fuh, C.B., Giddings, J.C., Hedges, J.I., 1994. Mineralogical and textural controls on the organic composition of coastal marine sediments: hydrodynamic separation using SPLITT-fractionation. Geochimica et Cosmochimica Acta 58, 879-893. http://dx.doi.org/10.1016/0016-7037(94)90512-6.

Keil, R.G., Tsamakis, E., Giddings, J.C., Hedges, J.I., 1998. Biochemical distributions (amino acids, neutral sugars, and lignin phenols) among size-classes of modern marine sediments from the Washington coast. Geochimica et Cosmochimica Acta 62, 1347-1364. http://dx.doi.org/10.1016/S0016-7037(98)00080-5.

Kemp, W.M., Boynton, W.R., Adolf, J.E., Boesch, D.F., Boicourt, W.C., Brush, G., Cornwell, J.C., Fisher, T.R., Glibert, P.M., Hagy, J.D., Harding, L.W., Houde, E.D., Kimmel, D.G., Miller, W.D., Newell, R.I.E., Roman, M.R., Smith, E.M., Stevenson, J.C., 2005. Eutrophication of Chesapeake Bay: historical trends and ecological interactions. Marine Ecology Progress Series 303, 1-29.

Kemp, W.M., Smith, E.M., Marvin-DiPasquale, M., Boynton, W.R., 1997. Organic carbon balance and net ecosystem metabolism in Chesapeake Bay. Marine Ecology Progress Series 150, 229-248. http://dx.doi.org/10.3354/meps150229.

Kendall, C., Silva, S.R., Kelly, V.J., 2001. Carbon and nitrogen isotopic compositions of particulate organic matter in four large river systems across the United States. Hydrological Process 15, 1301-1346. doi: 10.1002/hyp.216.

Kendall, M.S., Jensen, O.P., Alexander, C., Field, D., McFall, G., Bohne, R., Monaco, M.E., 2005. Benthic mapping using sonar, video transects, and an innovative approach to accuracy assessment: a characterization of bottom features in the Georgia Bight. Journal of Coastal Research 21, 1154 – 1165. doi: 10.2112/03-0101R.1.

Kenworthy, W.J., Fonseca, M.S., Whitfield, P.E., Hammerstrom, K.K., 2002. Analysis of seagrass recovery in experimental excavations and propeller-scar disturbances in the Florida Keys National Marine Sanctuary. Journal of Coastal Research. Special Issue No. 37, 75-85. http://www.jstor.org/stable/25736344.

Kerski, J.J., 2001. A national assessment of GIS in American high schools. International Research in Geographical and Environmental Education. 10, 72-84.

Kerwin, J.A., 1972. Distribution of the salt marsh snail (Melampus bidentatus Say) in relation to marsh plants in the Poropotank River area, Virginia. Chesapeake Science 13, 150-153. http://www.jstor.org/stable/1351019.

Khandelwal, A., Gupta, H.P., 1993. Palynological evidence of mangrove degradation during mid-late Holocene at Rambha, Chilka Lake, Orissa. Geophytology 23, 141-145.

Kim, S., Kang, Y.G., Kim, H.S., Yih, W., Coats, D.W., Park, M.G., 2008. Growth and grazing responses of the mixotropic dinoflagellate Dinophysis acuminata as functions of light intensity and prey concentration. Aquatic Microbial Ecology 51, 301-310.

Kimmel, D.G., Roman, M.R., Zhang, X., 2006. Spatial and temporal variability in factors affecting mesozooplankton dynamics in Chesapeake Bay: evidence from biomass size spectra. Limnology and Oceanography 51, 131-141.

King III, B.D., 1971. Study of Migratory Patterns of Fish and Shellfish Through a Natural Pass. Technical Series Number 9, Texas Parks and Wildlife Department, Austin, Texas, 54 pp.

King, K.A., Flickinger, E.L., Hildebrand, H.H., 1977. The decline of brown pelicans on the Louisiana and Texas Gulf coast. The Southwest Naturalist 21, 417-431. http://www.jstor.org/stable/30054023.

King, T.L., Ward, R., Zimmerman, E.G., 1994. Population structure of eastern oysters (Crassostrea virginica) inhabiting the Laguna Madre, Texas, and adjacent bay systems. Canadian Journal of Fisheries and Aquatic Sciences 51, Supplement 1, 215-222. 10.1139/f94-307.

Kinney, M.J., Simpfendorfer, C.A., 2009. Reassessing the value of nursery areas to shark conservation and management. Conservation Letters 2, 53-60.

Kirsch, K.D., Barry, K.A., Fonseca, M.S., Whitfield, P.E., Meehan, S.R., Kenworthy, W.J., Julius, B.E., 2005. The Mini-312 Program: an expedited damage assessment and restoration process for seagrasses in the Florida Keys National Marine Sanctuary. Journal of Coastal Research, Special Issue No. 40, 109-119. http://www.jstor.org/stable/25736619.

Klein, N.J., Bulloch, S.K., Mooney, R.M., Garlough, P., McClelland, J.W., 2008. Nutrient and Organic Matter Dynamics in Tidally-influenced Freshwater Sections of the Mission and Aransas Rivers, South Texas. Research Education for Undergraduates Scientific Poster. American Geophysical Union, Fall Meeting 2008, abstract #OS41E-1268.

Klinkhammer, G.P., McManus, J., 2001. Dissolved manganese in the Columbia River estuary: production in the water column. Geochimica et Cosmochimica Acta 65, 2835-2841. http://dx.doi.org/10.1016/S0016-7037(01)00650-0.

Knutson, T.R., McBride, J.L., Chan, J., Emanuel, K., Holland, G., Landsea, C., Held, I., Kossin, J.P., Srivastava, A.K., Sugi, M., 2010. Tropical cyclones and climate change. Nature Geoscience 3, 157-163.

Koch, G.R., Childers, D.L., Staehr, P.A., Price, R.M., Davis, S.E., Gaiser, E.E., 2012. Hydrological conditions control P loading and aquatic metabolism in an oligotrophic, subtropical estuary. Estuaries and Coasts 35, 292-307. DOI: 10.1007/s12237-011-9431-5.

Kopecky, A.L., Dunton, K.H., 2006. Variability in drift macroalgal abundance in relation to biotic and abiotic factors in two seagrass dominated estuaries in the western Gulf of Mexico. Estuaries and Coasts 29, 617-629.

Koukaras, K., Nikolaidis, G., 2004. Dinophysis blooms in Greek coastal waters (Thermaikos Gulf, NW Aegean Sea). Journal of Plankton Research 26, 445-457.

Kowalski, N., Dellwig, O., Beck, M., Grunwald, M., Dürselen, C.-D., Badewien, T.H., Brumsack, H.-J., Van Beusekom, J.E.E., Böttcher, M.E., 2012. A comparative study of manganese dynamics in the water column and sediments of intertidal systems of the North Sea. Estuarine, Coastal and Shelf Science 100, 3-17. http://dx.doi.org/10.1016/j.ecss.2011.03.011.

Kraus, R.T., Secor, D.H., 2004. Incorporation of strontium into otoliths of an estuarine fish. Journal of Experimental Marine Biology and Ecology 302, 85-106. http://dx.doi.org/10.1016/j.jembe.2003.10.004.

Krieger, A.D., 2002. We Came Naked and Barefoot: The Journey of Cabeza de Vaca Across North America. University of Texas Press, Austin, Texas, 318 pp.

Kubanek, J., Hicks, M.K., Naar, J., Villareal, T.A., 2005. Does the red tide dinoflagellate Karenia brevis use allelopathy to outcompete other phytoplankton? Limnology and Oceanography 50, 883-895.

Kundzewicz, Z.W., Mata, L.J., Arnell, N.W., Döll, P.,  Kabat, P., Jiménez, B., Miller, K.A., Oki, T., Sen, Z., Shiklomanov, I.A., 2007. Freshwater resources and their management. In: Parry, M.L., Canziani, O.F., Palutikof, J.P., van der Linden, P.J., Hanson, C.E. (Eds.), Climate Change 2007: Impacts, Adaptation and Vulnerability. Contribution of Working Group II to the Fourth Assessment Report of the Intergovernmental Panel on Climate Change. Cambridge University Press, Cambridge, UK, pp. 173-210. 

Kurihara, H., Shirayama, Y., 2004. Effects of increased atmospheric CO2 on sea urchin early development. Marine Ecology Progress Series 274, 161-169.

Kusakabe, T., Komatsu, T., Tamaki, T., Nakajima, M., Aoki, I., 1997. Prediction of the recruit of sand eel in the eastern Seto Inland Sea using a neural network. Bulletin of the Japanese Society of Fisheries Oceanography 61, 375-380.

Kusler, J., 1999. Climate Change in Wetland Areas Part II: Carbon Cycle Implications. Newsletter of the US National Assessment of the Potential Consequences of Climate Variability and Change. Acclimations, July-August.

Kutcher, T.E., Garfield, N.H., Raposa, K.B., 2005. A Recommendation for a Comprehensive Habitat and Land Use Classification System for the National Estuarine Research Reserve System, draft.

L-

Labuda, S.E., Butts, K.O., 1979. Habitat use by wintering whooping cranes on the Aransas National Wildlife Refuge. Proceedings of the 1978 International Crane Workshop. International Crane Foundation, Baraboo, Wisconsin, pp. 152-157.

Lacson, J.M., Lee, W.Y., 1997. Status and Trends of Selected Marine Fauna in the Corpus Christi Bay National Estuary Program Study Area. Publication CCBNEP-24. Natural Resources Center, Corpus Christi, Texas, 283 pp.

Lajtha, K., Michener, R.H., 1994. Stable Isotopes in Ecology and Environmental Science. Blackwell Scientific Publications, Oxford, 316 pp.

Landry, M.R., Hassett, R.P., 1982. Estimating the grazing impact of marine micro-zooplankton. Marine Biology 67, 283-288.

Langenbuch, M., Pörtner, H.O., 2002. Changes in metabolic rate and N excretion in the marine invertebrate Sipunculus nudus under conditions of environmental hypercapnia. Journal of Experimental Biology 205, 1153-1160.

Larkin, T.J., Bomar, G.W., 1983. Climatic Atlas of Texas. Texas Department of Water Resources, Austin, Texas, 151 pp.

Leandro, S.M., Morgado, F., Pereira, F., Queiroga, H., 2007. Temporal changes of abundance, biomass and production of copepod community in a shallow temperate estuary (Ria de Aveiro, Portugal) Estuarine, Coastal and Shelf Science 74, 215-222. http://dx.doi.org/10.1016/j.ecss.2007.04.009.

Leathwick, J.R., Elith, J., Chadderton, W.L., Rowe, D., Hasti, T., 2008. Dispersal, disturbance and the contrasting biogeographies of New Zealand’s diadromous and non-diadromous fish species. Journal of Biogeography 35, 1481-1497. http://dx.doi.org/10.1111/j.1365-2699.2008.01887.x

Leathwick, J.R., Elith, J., Francis, M.P., Hastie, T., Taylor, P., 2006. Variation in demersal fish species richness in the oceans surrounding New Zealand: an analysis using boosted regression trees. Marine Ecology Progress Series 321, 267-281. http://dx.doi.org/10.3354/meps321267.

Lee, C., Cronin, C., 1984. Particulate amino acids in the sea: effects of primary productivity and biological decomposition. Journal of Marine Research 42, 1075-1097.

Lellis-Dibble, K.A., McGlynn, K.E., Bigford, T.E., 2008. Estuarine Fish and Shellfish Species in U.S. Commercial and Recreational Fisheries: Economic Value as an Incentive to Protect and Restore Estuarine Habitat. NOAA Tech. Memo. NMFSF/SPO-90.

Levin, P.S., Stunz, G.W., 2005. Habitat triage for exploited fishes: Can we identify essential "essential fish habitat?" Estuarine, Coastal and Shelf Science 64, 70-78. http://dx.doi.org/10.1016/j.ecss.2005.02.007.

Levinton, J.S., 1995. Marine Biology: Function, Biodiversity, Ecology. Oxford University Press, New York, 420 pp.

Lezine, A.-M., 1996. The west African mangrove: an indicator of sea-level fluctuations and regional climate changes during the last deglaciation. Bulletin de la Societe Geologique de France 167, 743-752. (in French)

Li, W.K.W., 2002. Macroecological patterns of phytoplankton in the northwestern North Atlantic Ocean. Nature 419, 154-157.

Liao, J.D., Boutton, T.W., Jastrow, J.D., 2006. Storage and dynamics of carbon and nitrogen in soil physical fractions following woody plant invasion of grassland. Soil Biology and Biochemistry 38, 3184-3196. http://dx.doi.org/10.1016/j.soilbio.2006.04.003.

Licea, S., Zamudio, M.E., Luna, R., Soto, J., 2004. Free-living dinoflagellates in the southern Gulf of Mexico: report of data (1979-2002). Phycological Research 52, 419-428.

Limburg, K.E., Olson, C., Walther, Y., Dale, D., Slomp, C.P., Høie, H., 2011. Tracking Baltic hypoxia and cod migration over millennia with natural tags. Proceedings of the National Academy of Sciences of the United States of America 108, E177-182. http://dx.doi.org/10.1073/pnas.1100684108.

Limburg, K.E., Walther, B.D., Lu, Z., Jackman, G., Mohan, J., Walther, Y., Nissling, A., Weber, P.K., Schmitt, A.K., 2014. In search of the dead zone: use of otoliths for tracking fish exposure to hypoxia. Journal of Marine Systems, 1-12. http://dx.doi.org/10.1016/j.jmarsys.2014.02.014.

Lin, S., Zhang, H., Spencer, D.F., Norman, J.E., Gray, M.W., 2002. Widespread and extensive editing of mitochondrial mRNAs in dinoflagellates. Journal of Molecular Biology 320, 727-739.

Lin, X., McCarthy, M.J., Carini, S.A., Gardner, W.S., 2011. Net, actual, and potential sediment-water interface NH4 fluxes in the northern Gulf of Mexico (NGOMEX): evidence for NH4 limitation of microbial dynamics. Continental Shelf Research 31, 120-128. http://dx.doi.org/10.1016/j.csr.2010.11.012.

Lindeman, R.L., 1942. The trophic-dynamic aspect of ecology. Ecology 23, 399-417.

Lindroth, P., Mopper, K., 1979. High performance liquid chromatographic determination of subpicomole amounts of amino acids by precolumn fluorescence derivatization with o-phthaldialdehyde. Analytical Chemistry 51, 1667-1674.

Link, P.K., 1982. Basic Petroleum Geology. Oil and Gas Consultants International, Tulsa, 235 pp.

Litchman, E., de Tezanos Pinto, P., Klausmeier, C.A., Thomas, M.K., Yoshiyama, K., 2010. Linking traits to species diversity and community structure in phytoplankton. Hydrobiologia 653, 15-28. DOI: 10.1007/s10750-010-0341-5.

Litchman, E., Klausmeier, C.A., Yoshiyama, K., 2009. Contrasting size evolution in marine and freshwater diatoms. Proceedings of the National Academy of Sciences of the United States of America 106, 2665-2670.

Liu, H., Buskey, E.J., 2000a. Hypersalinity enhances the production of extracellular polymeric substance (EPS) in the Texas brown tide alga, Aureoumbra lagunensis (Pelagophyceae). Journal of Phycology 36, 71-77. http://dx.doi.org/10.1046/j.1529-8817.2000.99076.x.

Liu, H., Buskey, E.J., 2000b. The exopolymer secretions (EPS) layer surrounding Aureoumbra lagunensis cells affects growth, grazing, and behavior of protozoa. Limnology and Oceanography 45, 1187-1191. http://www.jstor.org/stable/2670711.

Liu, Z.F., Lee, C., 2006. Drying effects on sorption capacity of coastal sediment: the importance of architecture and polarity of organic matter. Geochimica et Cosmochimica Acta 70, 3313-3324. http://dx.doi.org/10.1016/j.gca.2006.04.017.

Liu, Z.F., Lee, C., Aller, R.C., 2008. Drying effects on decomposition of salt marsh sediment and on lysine sorption. Journal of Marine Research 66, 665-689. http://dx.doi.org/10.1357/002224008787536781.

Liu, Z.F., Liu, J., Zhu, Q., Wu, W., 2012. The weathering of oil after the Deepwater Horizon oil spill: insights from the chemical composition of the oil from the sea surface, salt marshes and sediments. Environmental Research Letters 7, 035302. 

Liu, Z.F., Mao, J.D., Peterson, M.L., Lee, C., Wakeham, S.G., Hatcher, P.G., 2009. Characterization of sinking particles from the northwest Mediterranean Sea using advanced solid-state NMR. Geochimica et Cosmochimica 73, 1014-1026. http://dx.doi.org/10.1016/j.gca.2008.11.019.

Livingston, R.J., 2001. Eutrophication Processes in Coastal Systems. CRC Press, Boca Raton, FL, 327 pp.

Livingston, R.J., 2003. Trophic Organization in Coastal Systems. CRC Press, Boca Raton, Fla., 388 pp.  

Llope, M., Daskalov, G.M., Rouyer, T.A., Mihneva, V., Chan, K.-S., Grishin A.N., Stenseth, N.C., 2011. Overfishing of top predators eroded the resilience of the Black Sea system regardless of the climate and anthropogenic conditions. Global Change Biology 17, 1251-1265.

Longley, W.L., 1994. Freshwater Inflows to Texas Bays and Estuaries: Ecological Relationships and Methods for Determination of Needs. Texas Water Development Board, Austin, Texas, 386 pp.

Longley, W.L., 1995. Estuaries. In: North, G.R., Schmandt, J., Clarkson, J. (Eds.), The Impact of Global Warming on Texas: A Report of the Task Force on Climate Change in Texas, University of Texas Press, Austin, pp. 88-118.

Lopez-Barreiro, T., 1998. Detection and Distribution of the Texas Brown Tide Species Aureoumbra lagunensis in the Gulf of Mexico Using an Immunofluorescence Assay. M.S. Thesis, University of Massachusetts, Boston, 67 pp.

Lot Helgueras, A., Vazquez-Yanes, C., Menendez, F., 1975. Physiognomic and floristic changes near the northern limit of mangroves in the Gulf coast of Mexico. Proceedings of the International Symposium on Biology and Management of Mangroves, Vol. 1. Institute of Food and Agricultural Sciences, University of Florida, Gainesville, pp. 52-61.

Lotze, H.K., Lenihan, H.S., Bourque, B.J., Bradbury, R.H., Cooke, R.G., Kay, M.C., Kidwell, S.M., Kirby, M.X., Peterson, C.H., Jackson, J.B.C., 2006. Depletion, degradation, and recovery potential of estuaries and coastal seas. Science 312, 1806-1809. http://dx.doi.org/10.1126/science.1128035.

Lougheed, V.L., McIntosh, M.D., Parker, C.A., Stevenson, R.J., 2008. Wetland degradation leads to homogenization of the biota at local and landscape scales. Freshwater Biology 53, 2402-2413. http://dx.doi.org/10.1111/j.1365-2427.2008.02064.x.

Lugo, A.E., Sanchez, M.J., Brown, S., 1986. Land use and organic carbon content of some subtropical soils. Plant and Soil 96, 185-196. http://dx.doi.org/10.1007/BF02374763.

Lund, E.J., 1936. Some facts relating to the occurrence of dead and dying fish on the Texas coast during June, July, and August 1935. Annual Report of the Texas Game, Fish, and Oyster Commission, 1934-1935, Austin, Texas. pp. 47-50.

M-

Machlis, M.G., Burch Jr., W.R., 1983. Relations between strangers: cycles of structure and meaning in tourist systems. Sociological Review 31, 666-692.

MacIntyre, S., Flynn, K.M., Jellison, R., Romero, J.R., 1999. Boundary mixing and nutrient fluxes in Mono Lake, California. Limnology and Oceanography 44, 512-529.

Mackas, D.L., Goldblatt, R., Lewis, A.G., 1998. Interdecadal variation in developmental timing of Neocalanus plumchrus populations at Ocean Station P in the subarctic North Pacific. Canadian Journal of Fisheries and Aquatic Sciences 55, 1878-1893. 10.1139/f98-080.

Madden, K., Crist, P., Eslinger, D., Walker, D., Anderson, A., Morehead, S., Dunton, K., 2009. Integrated Land-Sea Planning Toolkit Training Recommendations. http://www.utmsi.utexas.edu/images/stories/toolkit%20trng%20recs%20_final.pdf.

Madden et al., in press. Mission-Aransas NERR Ecosystem Based Management Tool Demonstration Project: An Integrated Approach to Land Use Planning in Aransas County.

Magaña, H.A., Contreras, C., Villareal, T.A., 2003. A historical assessment of Karenia brevis in the western Gulf of Mexico. Harmful Algae 2, 163-171. http://dx.doi.org/10.1016/S1568-9883(03)00026-X.

Magaña, H.A., Villareal, T.A., 2006. The effect of environmental factors on the growth rate of Karenia brevis (Davis) G. Hansen and Moestrup. Harmful Algae 5, 192-198. http://dx.doi.org/10.1016/j.hal.2005.07.003.

Mallin, M.A., Paerl, H.W., 1994. Planktonic trophic transfer in an estuary: seasonal, diel, and community structure effects. Ecology 75, 2168-2184.

Mallin, M.A., Paerl, H.W., Rudek, J., Bates, P.W., 1993. Regulation of estuarine primary production by watershed rainfall and river flow. Marine Ecology Progress Series 93, 199-203.

Mann, K.H., Lazier, J.R.N., 2006. Dynamics of Marine Ecosystems: Biological-Physical Interactions in the Oceans. Blackwell Publications, Malden, MA, 496 pp.

Maranda, L., Shimizu, Y., 1987. Diarrhetic shellfish poisoning in Narragansett Bay. Estuaries 10, 298-302.

Marasco, R.J., Goodman, D., Grimes, C.B., Lawson, P.W., Punt, A.E., Quinn, T.J., 2007. Ecosystem-based fisheries management: some practical suggestions. Canadian Journal of Fisheries and Aquatic Sciences 64, 928-939.

Marino, R., Howarth, R.W., 1993. Atmospheric oxygen exchange in the Hudson River: dome measurements and comparison with other natural waters. Estuaries 16, 433-445. http://dx.doi.org/10.2307/1352591.

Marques, S.C., Pardal, M.A., Pereira, M.J., Goncalves, F., Marques, J.C., Azeiteiro, U.M., 2007. Zooplankton distribution and dynamics in a temperate shallow estuary. Hydrobiologia 587, 213-223. 

Marshall, H.G., Alden, R.W., 1990. A comparison of phytoplankton assemblages and environmental relationships in three estuarine rivers of the lower Chesapeake Bay. Etuaries 13, 287-300.

Martine, S.R., Onuf, C.P., Dunton, K.H., 2008. Assessment of propeller and off-road vehicle scarring in seagrass beds and wind-tidal flats of the southwestern Gulf of Mexico. Botanica Marina 51, 79-91. http://dx.doi.org/10.1515/BOT.2008.015.

Martínez, M.L., Intralawan, A., Vázquez, G., Pérez-Maqueo, O., Sutton, P., Landgrave, R., 2007. The coasts of our world: ecological, economic and social importance. Ecological Economics 63, 254-272. http://dx.doi.org/ 10.1016/j.ecolecon.2006.10.022.

Martinez-Andrade, F., Fisher, M., Bowling, B., Balboa, B., 2009. Marine Resource Monitoring Operations Manual. Texas Parks and Wildlife Department. Coastal Fisheries Division. WWW Page, http://www.tpwd.state.tx.us./.

Matlack, K.S., Houseknecht, D.W., Applin, K.R., 1989. Emplacement of clay into sand by infiltration. Journal of Sedimentary Petrology 59, 77-87.

Matlock, G.C., 1991. Growth, mortality, and yield of southern flounder in Texas. Northeast Gulf Science 12, 61-65.

Matthews, G.A., Marcin, C., Clements, G.L., 1974. A Plankton and Benthos Survey of the San Antonio Bay System: March 1972-July 1974. Texas Parks and Wildlife Department, Austin, Texas, 76 pp.

Mayer, L.M., 1994a. Relationships between mineral surfaces and organic carbon concentrations in soils and sediments. Chemical Geology 114, 347-363. http://dx.doi.org/10.1016/0009-2541(94)90063-9.

Mayer, L.M., 1994b. Surface area control of organic carbon accumulation in continental shelf sediments. Geochimica et Cosmochimica Acta 58, 1271-1284. http://dx.doi.org/10.1016/0016-7037(94)90381-6.

Mayer, L.M., Rahaim, P.T., Guerin, W., Macko, S.A., Watling, L., Anderson, F.E., 1985. Biological and granulometric controls on sedimentary organic matter of an intertidal mudflat. Estuarine, Coastal and Shelf Science 20, 491-503. http://dx.doi.org/10.1016/0272-7714(85)90091-5.

Mayer, L.M., Schick, L.L., Hardy, K.R., Wagai, R., McCarthy, J., 2004. Organic matter in small mesopores in sediments and soils. Geochimica et Cosmochimica Acta 68, 3863-3872. http://dx.doi.org/10.1016/j.gca.2004.03.019.

Mayer, L.M., Schick, L.L., Skorko, K., Boss, E., 2006. Photodissolution of particulate organic matter from sediments. Limnology and Oceanography 51, 1064-1071.

McAlister, W.H., McAlister, M.K., 1993. Matagorda Island: A Naturalist's Guide. University of Texas Press, Austin, 354 pp.

McCarthy, M.J., Lavrentyev, P.J., Yang, L., Zhang, L., Chen Y., Qin, B., Gardner, W.S., 2007. Nitrogen dynamics and microbial food web structure during a summer cyanobacterial bloom in a subtropical, shallow, well-mixed, eutrophic lake (Lake Taihu, China) In: Qin, B., Liu, Z., Havens, K. (Eds.), Eutrophication of Shallow Lakes with Special Reference to Lake Taihu, China. Developments in hydrobiology 194. Springer, Dordrecht, The Netherlands, pp. 195-207. http://dx.doi.org/10.1007/978-1-4020-6158-5_22. 

McCarthy, M.J., McNeal, K.S., Morse, J.W., Gardner, W.S., 2008. Bottom-water hypoxia effects on sediment-water interface nitrogen transformations in a seasonally hypoxic, shallow bay (Corpus Christi Bay, TX, USA) Estuaries and Coasts 31, 521-531. http://dx.doi.org/10.1007/s12237-008-9041-z.

McClelland, J.W., Valiela, I., 1998. Linking nitrogen in estuarine producers to land-derived sources. Limnology and Oceanography 43, 577-585.

McDuff, R.E., Chisholm, S.W., 1982. The calculation of in situ growth rates of phytoplankton populations from fractions of cells undergoing mitosis: a clarification. Limnology and Oceanography 27, 783-788.

McEachran, J.D., Fechhelm, J.D., 2005. Fishes of the Gulf of Mexico. Volume 2: Scorpaeniformes to Tetraodontiformes. University of Texas Press, Austin, 1004 pp.

McElfish, J.M., Kihslinger, R.L., Nichols, S.S., 2008. Planner's Guide to Wetland Buffers for Local Governments. Environmental Law Institute, Washington, D.C., 29 pp.

McGowen, J.H., Morton, R.A., 1979. Sediment Distribution, Bathymetry, Faults, and Salt Diapirs, Submerged Lands of Texas. Bureau of Economic Geology, The University of Texas at Austin, 31 pp.

McKenna, K.K., 2004. Texas Coastwide Erosion Response Plan: 2004 Update. Contract No. 04-077C. Texas General Land Office, Austin, Texas, 61 pp.

McLachlan, J.L., 1993. Evidence for sexuality in a species of Dinophysis. Toxic Phytoplankton Blooms in the Sea: Proceedings of the Fifth International Conference on Toxic Marine Phytoplankton. Elsevier, Amsterdam and New York, pp. 143-146.

McLaughlin, K., Ahn, J.H., Litton, R.M., Grant, S.B., 2007. Use of salinity mixing models to estimate the contribution of creek water fecal indicator bacteria to an estuarine environment: Newport Bay, California. Water Research 41, 3595-3604.

McLendon, T., 1991. Preliminary description of the vegetation of South Texas exclusive of coastal saline zones. Texas Journal of Science 43, 13-32.

McLeod, K., Leslie, H. (Eds.), 2009. Ecosystem-Based Management for the Oceans. Island Press, Washington, D.C. 368 pp.

McLeod, K.L., Lubchenco, J., Palumbi, S.R., Rosenberg, A.A., 2005. Scientific Consensus Statement on Marine Ecosystem-Based Management. Signed by 221 academic scientists and policy experts with relevant expertise and published by the Communication Partnership for Science and the Sea. http://compassonline.org/?q=EBM.

McMillan, C., 1975. Adaptive differentiation to chilling in mangrove populations. Proceedings of the International Symposium on Biology and Management of Mangroves, Vol. 1. Institute of Food and Agricultural Sciences, University of Florida, Gainesville, pp. 62-68.

McMurry, S.L., 1971. Nesting and Development of Reddish Egret (Dichromanassa-rufescens Gmelin) on a Spoil Bank Chain in the Laguna Madre, Texas. M.S. Thesis, Texas A&I University, Kingsville. 78 pp.

McNabb, P., Selwood, A.I., Holland, P.T., Aasen, J., Aune, T., Eaglesham, G., Hess, P., Igarishi, M., Quilliam, M., Slattery, D., Van de Riet, J., Van Egmond, H., Van den Top, H., Yasumoto, T., 2005. Multiresidue method for determinatioin of algal toxins in shellfish: single-laboratory validation and interlaboratory study. Journal of AOAC International 88, 761-772.

Meyer, J.L., McDowell, W.H., Bott, T.L., Elwood, J.W., Ishizaki, C., Melack, J.M., Peckarsky, B.L., Peterson, B.J., Rublee, P.A., 1988. Elemental dynamics in streams. Journal of the North American Benthological Society 7, 410-432.

Meyer, W.B., 1996. Human Impact on the Earth. Cambridge University Press, Cambridge, United Kingdom, New York. 253 pp.

Michener, W.K., Blood, E.R., Bildstein, K.L., Brinson, M.M., Gardner, L.R., 1997. Climate change, hurricanes and tropical storms, and rising sea level in coastal wetlands. Ecological Applications 7, 770-801. http://www.jstor.org/stable/2269434.

Middelburg, J.J., Van der Weijden, C.H., Woittiez, J.R.W., 1988. Chemical processes affecting the mobility of major, minor and trace elements during weathering of granite rocks. Chemical Geology 68, 253-273. http://dx.doi.org/10.1016/0009-2541(88)90025-3.

Middleton, B.A., 2009. Regeneration of coastal marsh vegetation impacted by Hurricanes Katrina and Rita. Wetlands 29, 54-65. DOI: http://dx.doi.org/10.1672/08-18.1.

Milazzo, M., Badalamenti, F., Ceccherelli, G., Chemello, R., 2004. Boat anchoring on Posidonia oceanica beds in a marine protected area (Italy, western Mediterranean): effect of anchor types in different anchoring stages. Journal of Experimental Marine Biology and Ecology 299, 51-62. doi:10.1016/j.jembe.2003.09.003.

Mildenhall, D.C., 1994. Early to Mid Holocene pollen samples containing mangrove pollen from Sponge Bay, East Coast, North Island, New Zealand. Journal of the Royal Society of New Zealand 24, 219-230.

Miles, D.W., 1951. The Life Histories of the Sea-trout, Cynoscion nebulosus, and the Redfish, Sciaenops ocellata: Sexual Development. Annual Report for the Fiscal Year September 1, 1950 to August 31, 1951. Texas Game and Fish Commission, Rockport, Texas, 11 leaves. (mimeograph)

Milliman J.D., Farnsworth, K.L., Jones, P.D., Xu, K.H., Smith, L.C., 2008. Climatic and anthropogenic factors affecting river discharge to the global ocean, 1951-2000. Global and Planetary Change 62, 187-194. http://dx.doi.org/10.1016/j.gloplacha.2008.03.001.

Miller, L., Douglas, B.C., 2004. Mass and volume contributions to twentieth-century global sea level rise. Nature 428, 406-409.

Miller, T.E., Gornish, E.S., Buckley, H.L., 2010. Climate and coastal dune vegetation: disturbance, recovery, and succession. Plant Ecology 206, 97-104. 

Min, D., 2008. High frequency and multi-parameter observation of land-sea connection at the Aransas Pass tidal inlet, south Texas in Summer 2008. EOS Transactions AGU 89, Fall Meeting, Supplement Abstract OS21C-1196.

Mitra, A., Flynn, K.J., 2006. Promotion of harmful algal blooms by zooplankton predatory activity. Biology Letters 2, 194-197. doi:10.1098/rsbl.2006.0447.

Mitsch, W.J., Gosselink, J.G., 1986. Wetlands. Van Nosrand Reinhold Co., New York, 539 pp.

Mitsch, W.J., Gosselink, J.G., 2007. Wetlands. 4th ed. Wiley, Hoboken, New Jersey, 582 pp.

Mohan, J.A., Rulifson, R.A., Corbett, D.R., Halden, N.M., 2012. Validation of oligohaline elemental otolith signatures of striped bass by use of in situ caging experiments and water chemistry. Marine and Coastal Fisheries 4, 57-70. http://dx.doi.org/10.1080/194251

Molinero, J.C., Buercher, E., Dallot, S., Nival, P., 2008. Climate control on the long term anomalous changes of zooplankton communities in the Northwestern Mediterranean. Global Change Biology 14, 11-26.

Molinero, J.C., Ibanez, F., Nival, P., Buecher, E., Souissi, S., 2005. North Atlantic climate and northwestern Mediterranean plankton variability. Limnology and Oceanography 50, 1213-1220.

Molinero, J.C., Ibanez, F., Souissi, S., Buecher, E., Dallot, S., Nival, P., 2008. Climate control on the long-term anomalous changes of zooplankton communities in the Northwestern Mediterranean. Global Change Biology 14, 11-26.

Montagna, P., Vaughan, B., Ward, G., 2011. The importance of freshwater inflows to Texas estuaries. In: Griffin, R. (Ed.), Water Policy in Texas: Responding to the Rise of Scarcity, RFF Press, Washington, D.C., pp. 107-127.

Montagna, P.A., 1996. A Conceptual Ecosystem Model of the Corpus Christi Bay National Estuary Program Study Area. Publication CCBNEP-08. Natural Resource Conservation Commission, Austin, Texas, 114 pp.

Montagna, P.A., Alber, M., Doering, P., Connor, M.S., 2002. Freshwater inflow: science, policy, management. Estuaries 25, 1243-1245. DOI: 10.1007/BF02692221.

Montagna, P.A., Brenner, J., Gibeaut, J., Morehead, S., 2011. Coastal impacts. In: Schmandt, J., North, G.R., Clarkson, J. (Eds.), The Impact of Global Warming on Texas, 2nd edition. University of Texas Press, Austin, Texas, pp. 1-26.

Montagna, P.A., Froeschke, J., 2009. Long-term biological effects of coastal hypoxia in Corpus Christi Bay, Texas, USA. Journal of Experimental Marine Biology and Ecology 381, Supplement 1, S21-S30.

Montagna, P.A., Gibeaut, J.C., Tunnell Jr., J.W., 2007. South Texas climate 2100: coastal impacts. In: Norwine, J., John, K. (Eds.), The Changing Climate of South Texas 1900-2100: Problems and Prospects, Impacts and Implications, Texas A&M University-Kingsville, pp. 57-77.

Montagna, P.A., Holt, S.A., Ritter, M.C., Herzka, S., Binney, K.F., Dunton, K.H., 1998. Characterization of Anthropogenic and Natural Disturbance on Vegetated and Unvegetated Bay Bottom Habitats in the Corpus Christi Bay National Estuary Program Study Area. Publication CCBNEP-25A, Texas Natural Resource Conservation Commission, Austin, 108, 23 pp.

Montagna, P.A., Jarvis, S.C., Kennicutt II, M.C., 2002. Distinguishing between contaminant and reef effects on meiofauna near offshore hydrocarbon platforms in the Gulf of Mexico. Canadian Journal of Fisheries and Aquatic Sciences 59, 1584-1592. 10.1139/f02-131.

Montagna, P.A., Kalke, R.D., 1992. The effect of freshwater inflow on meiofaunal and macrofaunal populations in the Guadalupe and Nueces Estuaries, Texas. Estuaries 15, 307-326. http://www.jstor.org/stable/1352779.

Montagna, P.A., Kalke, R.D., 1995. Ecology of infaunal mollusca in South Texas estuaries. American Malacological Bulletin 11, 163-175.

Montagna, P.A., Kalke, R.D., Ritter, C., 2002. Effect of restored freshwater inflow on macrofauna and meiofauna in upper Rincon Bayou, Texas, USA. Estuaries 25, 1436-1447.

Montagnes, D.J., Allen, J., Brown, L., Bulit, C., Davidson, R., Diaz-Avalos, C., Fielding, S., Heath, M., Holliday, N.P., Rasmussen, J., Sanders, R., Waniek, J.J., Wilson, D., 2008. Factors controlling the abundance and size distribution of the phototrophic ciliate Myrionecta rubra in open waters of the North Atlantic. Journal of Eukaryotic Microbiology 55, 457-465.

Montgomery, G.L., 1996. RCA III Riparian Areas: Reservoirs of Diversity. WWW Page, www.nrcs.usda.gov/technical/rca/wp13text.html.

Mooney, R.F., 2009. Watershed Export Events and Ecosystem Responses in the Mission-Aransas National Estuarine Research Reserve. M.S. Thesis, The University of Texas at Austin, 91 pp. PDF

Mooney, R.F., Bruesewitz, D.A., McClelland, J.W., Gardner, W.S., Buskey, E.J., 2011. Nutrient and organic matter dynamics following storm events in he Mission-Aransas National Estuarine Research Reserve (NERR), Texas. 21st Biennial Conference of the Coastal and Estuarine Research Federation (CERF) : Societies, Estuaries & Coasts: Adapting to Change, Daytona, FL.

Mooney, R.F., McClelland, J.W., 2012. Watershed export events and ecosystem responses in the Mission-Aransas National Estuarine Research Reserve, South Texas. Estuaries and Coasts 35, 1468-1485. http://dx.doi.org/10.1007/s12237-012-9537-4.

Moore, D.S., McCabe, G.P., 1999. Introduction to the Practice of Statistics. 3rd. W.H. Freeman, NY, 1 v.

Moore, K., 2009. NERRS SWMP Bio-Monitoring Protocol: Long-term Monitoring of Estuarine Submersed and Emergent Vegetation Communities. Contribution of SAV-Emergent Biomonitoring Committee to National Estuarine Research Reserve System. Chesapeake Bay National Estuarine Research Reserve System in Virginia, Gloucester Point, VA. 14 pp.

Morehead, S., Beyer, T.G., Dunton, K., 2007. Community Characterization of the Mission-Aransas National Estuarine Research Reserve and Surrounding Areas. Revised May 3, 2007. UTMSI Report TR/07-001, University of Texas Marine Science Institute, Port Aransas, Texas, 42 pp.

Morehead, S., Montagna, P.A., 2003. Monitoring Hypoxia (Low Oxygen) Conditions in Corpus Christi Bay: Final Report. Technical report NO. TR/03-01. University of Texas Marine Science Institute, Port Aransas, Texas, 62 pp.

Morehead, S., Simanek, C., Montagna, P.A., 2002. GIS Database of Hypoxia (Low Oxygen) Conditions in Corpus Christi Bay. Coastal Management Program Grant no. 01-214. UTMSI Technical Report no. TR/02-001. University of Texas Marine Science Institute, Port Aransas, Texas, 2 v.

Morris, A.W., Bale, A.J., Howland, R.J.M., 1981. Nutrient distributions in an estuary: evidence of chemical precipitation of dissolved silicate and phosphate. Estuarine, Coastal, and Shelf Science 12, 205-216. doi: 10.1016/S0302-3524(81)80097-7.

Morris, A.W., Mantoura, R.F.C., Bale, A.J., Howland, R.J.M., 1978. Very low salinity regions of estuaries: important sites for chemical and biological reactions. Nature 274, 678-680. http://dx.doi.org/10.1038/274678a0.

Morris, R.M., Rappe, M.S., Connon, S.A., Vergin, K.L., Siebold, W.A., Carlson, C.A., Giovannoni, S.J., 2002. SAR11 clade dominates ocean surface bacterioplankton communities. Nature 420, 806-810.   

Morton, R.A., Bernier, J.C., Barras, J.A., 2006. Evidence of regional subsidence and associated interior wetland loss induced by hydrocarbon production, Gulf Coast region, USA. Environmental Geology 50, 261-274.

Morton, R.A., Holmes, C.W., 2009. Geological processes and sedimentation rates of wind-tidal flats, Laguna Madre, Texas. Gulf Coast Association of Geological Societies Transactions 59, 519-538.

Morton, R.A., McGowen, J.H., 1980. Modern Depositional Environments of the Texas Coast. Bureau of Economic Geology, University of Texas at Austin, 167 pp.

Morton, R.A., Miller, T.L., Moore, L.J., 2004. National Assessment of Shoreline Change. Part 1, Historical Shoreline Changes and Associated Coastal Land Loss Along the U.S. Gulf of Mexico. Open-file Report 2004-1043. U.S. Geological Survey, Center for Coastal and Watershed Studies, St. Petersburg, Florida, 42 pp.

Morton, R.A., Paine, J.G., 1984. Historical Shoreline Changes in Corpus Christi, Oso, and Nueces Bays, Texas Gulf Coast. Bureau of Economic Geology, The University of Texas at Austin, 66 pp.

Morton, R.A., White, W.A., McGowen, J.H., Nance, H.S., 1983. Sediments and geochemistry. In: White, W.A., Calnan, T.R., Morton, R.A., Kimble, R.S., Littleton, T.G., McGowen, J.H., Nance, H.S., Schmedes, K.E., Submerged Lands of Texas, Corpus Christi Area: Sediments, Geochemistry, Benthic Macroinvertebrates, and Associate Wetlands. Bureau of Economic Geology, Austin, Texas, pp. 13-33.

Mott, J.B., Lehman, R.L., 2005. Bacteria Source Tracking in Copano Bay: Phase II, Final Report. Texas A&M University, Corpus Christi, 171 pp.

Mrazek, R.W., 1974. The Relationship of the Fire Ant Solenopsis geminata (Fabricius) to the Young Birds Nesting on Two Spoil Islands in the Laguna Madre. M.S. Thesis, Texas A&I University, Kingsville, 122 pp.

Muller, R.N., Tisue, G.T., 1977. Preparative-scale size fractionation of soils and sediments and an application to studies of plutonium geochemistry. Soil Science 124, 191-198.

Murphy, J., Riley, J.P., 1962. A modified single solution method for the determination of phosphate in natural waters. Analytica Chimica Acta 27, 31-36.

Murrell, M.C., Lores, E.M., 2004. Phytoplankton and zooplankton seasonal dynamics in a subtropical estuary: importance of cyanobacteria. Journal of Plankton Research 26, 371-382.

Muzika, R.M., Swearingen, J.M., 2009. Saltcedar. Plant Conservation Alliance's Alien Plant Working Group. WWW Page, http://nps.gov/plants/alien/fact/tama1.html. Accessed March 10, 2010.

N-

Nañez-James, S.E., Stunz, G.W., Holt, S.A., 2009. Habitat use patterns of newly settled southern flounder, Paralichthys lethostigma, in Aransas-Copano Bay, Texas. Estuaries and Coasts 32, 350-359. http://dx.doi.org/10.1007/s12237-008-9107-y.

National Estuarine Research Reserve System (NERRS), 2006. Performance Monitoring Manual [for] the NERRS Coastal Training Program.

National Marine Fisheries Service (NMFS), 2002. Annual report to Congress on the Status of U.S. Fisheries 2001. U.S. Dept. of Commerce, NOAA, National Marine Fisheries Service, Silver Spring, MD. 142 pp.

National Marine Fisheries Service (NMFS), 2008. Annual report to Congress on the Status of U.S. Fisheries, 2007. U.S. Dept. of Commerce, NOAA, National Marine Fisheries Service, Silver Spring, MD, 23 pp.

National Marine Fisheries Service (NMFS), 2008. Annual report to Congress on the Status of U.S. Fisheries, 2007. U.S. Dept. of Commerce, NOAA, National Marine Fisheries Service, Silver Spring, MD. WWW Page, http://www.nmfs.noaa.gov/sfa/statusoffisheries/2007/2007StatusofUSFisheries_Report_to_Congress.pdf. Accessed July 2013.

National Marine Fisheries Service (NMFS), 2009. Fisheries of the United States, National Marine Fisheries Service, Washington, D.C.

National Marine Fisheries Service (NMFS), 2011. National Marine Fisheries Service Annual Landing Statistics.

National Park Service, 2011. Padre Island National Seashore. WWW Page, http://www.nps.gov/pais/naturescience/plants.htm. Accessed June 15, 2011.

National Safety Council, 1998. Coastal Challenges: A Guide to Coastal and Marine Issues. Environmental Health Center, Washington, DC, 178 pp.

National Science and Technology Council. Committee on Environment and Natural Resources, 2000. National Assessment of Harmful Algal Blooms in US Waters. NOAA, Silver Spring, Md. 38 pp.

National Renewable Energy Laboratory (NREL), 2013. Chapter 2: The national wind resource.

Natural Resources Conservation Science (NRCS), 2011. Natural Resources Conservation Science, Conservation Programs. WWW Page http://www.nrcs.usda.gov/programs/. Accessed June 1 2011.

Nazaries, L., Pan, Y., Bodrossy, L., Baggs, E.M., Millard, P., Murrell, J.C., Singh, B.K., 2013. Microbial regulation of biogeochemical cycles: evidence from a study on methane flux and land-use change. Applied and Environmental Microbiology 79, 1-39. doi:10.1128/AEM.00095-13.

Négrel, P., Allègre, C.J., Dupré, B., Lewin, E., 1993. Erosion sources determined by inversion of major and trace element ratios and strontium isotopic ratios in river water: the Congo Basin case. Earth and Planetary Science Letters 120, 59-76. http://dx.doi.org/10.1016/0012-821X(93)90023-3.

Nemergut, D.R., Costello, E.K., Hamady, M., Lozupone, C., Jiang, L., Schmidt, S.K., Fierer, N., Townsend, A.R., Cleveland, C.C., Stanish, L., Knight, R., 2011. Global patterns in the biogeography of bacterial taxa. Environmental Microbiology 13, 135-144.

Nessmith, C., 1980. Natural and Induced Revegetation Processes in an Artificially Disturbed Seagrass Meadow in Texas. M.S. Thesis, The University of Texas at Austin, 318 pp.

Newell, R.I.E., 2004. Ecosystem influences of natural and cultivated populations of suspension-feeding bivalve molluscs: a review. Journal of Shellfish Research 23, 51-61.

Nicholls, R.J., Wong, P.P., Burkett, V.R., Codignotto, J.O., Hay, J.E., McLean, R.F., Ragoonaden, S., Woodroffe, C.D., 2007. Coastal systems and low-lying areas. In: Parry, M.L., Canziani, O.F., Palutikof, J.P., van der Linden, P.J., Hanson, C.E. (Eds.), Climate Change 2007: Impacts, Adaptation and Vulnerability. Contribution of Working Group II to the Fourth Assessment Report of the Intergovernmental Panel on Climate Change. Cambridge University Press, Cambridge, UK, pp. 315-356.

Nielsen-Gammon, J.W., Zhang, F., Odins, A.M., Myoung, B., 2013. Extreme rainfall in Texas: patterns and predictability. Physical Geography 26, 340-364. http://dx.doi.org/10.2747/0272-3646.26.5.340.

Niemi, G., Wardrop, D., Brooks, R., Anderson, S., Brady, V., Paerl, H., Rakocinski, C., Brouwer, M., Levinson, B., McDonald, M., 2004. Rationale for a new generation of indicators for coastal waters. Environmental Health Perspectives 112, 979-986. http://dx.doi.org/10.1289/ehp.6903.

Ning, Z.H., Turner, R.E., Doyle, T., Abdollahi, K., 2003. Preparing For a Changing Climate: The Potential Consequences of Climate Variability and Change - Gulf Coast Region. U.S. Environmental Protection Agency, GCRCC and LSU Graphic Services, Baton Rouge, 80 pp.

Nixon, S.W., 1995. Coastal marine eutrophication: a definition, social causes, and future concerns. Ophelia 41, 199-219. 

Nixon, S.W., Ammerman, J.W., Atkinson, L.P., Berounsky, V.M., Billen, G., Boicourt, W.C., Boynton, W.R., Church, T.M., Ditoro, D.M., Elmgren, R., Garber, J.H., Giblin, A.E., Jahnke, R.A., Owens, N.J.P., Pilson, M.E.Q., Seitzinger, S.P., 1996. The fate of nitrogen and phosphorus at the land-sea margin of the North Atlantic Ocean. Biogeochemistry 35, 141-180. http://www.jstor.org/stable/1469227.

NOAA, 1990. Estuaries of the United States: Vital Statistics of a National Resource Base. A special NOAA 20th anniversary report. Office of Oceanography and Marine Assessment, National Ocean Service, National Oceanic and Atmospheric Administration, Rockville, Md. 79 pp.

NOAA, 2006. Final Programmatic Environmental Impact Statement: Federal Approval of the Texas National Estuarine Research Reserve and Management Plan, the Mission-Aransas Estuary. U.S. Dept. of Commerce, National Oceanic and Atmospheric Administration, National Ocean Service, Office of Ocean and Coastal Resource Management, Estuarine Research Division, Silver Spring, MD, 1 v. PDF

NOAA, 2007. Fisheries Statistics. Commercial Fisheries. Annual Commercial Landing Statistics for Eastern Oyster for the Chesapeake Region. WWW Page, http://www.st.nmfs.gov/st1/commercial/landings/annual_landings.html. (Accessed January 2009)

NOAA, 2008. Classifying Estuaries by Geology. WWW Page, http://oceanservice.noaa.gov/education/kits/estuaries/estuaries04_geology.html. Accessed 7 April 2010.

NOAA, 2009. Land Cover Analysis, Coastal NLCD Classification Scheme. WWW Page, http://www.csc.noaa.gov/crs/lca/tech_cls.html.

NOAA, 2010a. The Global Climate During El Niño and La Niña. WWW Page, http://www.esrl.noaa.gov/psd/enso/enso.climate.html. Accessed May 7, 2010.

NOAA, 2010b. Office of Coast Survey. Surveys & Wrecks. WWW Page, http://www.nauticalcharts.noaa.gov. Accessed 9 August 2010.

NOAA Coastal Services Center, 2009. Coastal Inundation Mapping Guidebook. http://www.csc.noaa.gov/digitalcoast/inundation/_pdf/guidebook.pdf.

Nueces River Authority, 2006. Coastal Bend Regional Water Plan. WWW Page, http://www.nueces-ra.org/CP/RWPG/ipp/. November 13, 2009.

O-

Oades, J.M., Waters, A.G., 1991. Aggregate hierarchy in soils. Australian Journal of Soil Research 29, 815-828.

Odebrecht, C., Abreu, P.C., Moller, O.O., Niencheski, L.F., Proenca, L.A., Torgan, L.C., 2005. Drought effects on pelagic properties in the shallow and turbid Patos Lagoon, Brazil. Estuaries 28, 675-685.

Odum, H.T., 1956. Primary production in flowing waters. Limnology and Oceanography 1, 102-117. http://dx.doi.org/10.4319/lo.1956.1.2.0102.

Okubo, A., 1987. Fantastic voyage into the deep: marine biofluid mechanics. In: Teromoto, E., Yamaguti, M. (Eds.), Mathematical Topics in Population Biology, Morphogenesis, and Neurosciences. Springer-Verlag, New York, pp. 32-47.

Oliver, B.G., Thurman, E.M., Malcom, R.L., 1983. The contribution of humic substances to the acidity of colored natural waters. Geochimica et Cosmochimica Acta 47, 2031-2035.

Olsgard, F., Gray, J.S., 1995. A comprehensive analysis of the effects of offshore oil and gas exploration and production on the benthic communities of the Norwegian continental shelf. Marine Ecology Progress Series 122, 277-306.

Olson, R.J., Sosik, H.M., 2007. A submersible imaging-in-flow instrument to analyze nano- and microplankton: Imaging FlowCytobot. Limnology and Oceanography: Methods 5, 195-203.

Onuf, C.P., 1994. Seagrasses, dredging and light in Laguna Madre, Texas, U.S.A. Estuarine, Coastal and Shelf Science 39, 75-91.

Onuf, C.P., 2006. Aspects of the biology of Salicornia bigelovii Torr. in relation to a proposed restoration of a wind-tidal flat system on the south Texas, USA coast. Wetlands 26, 649-666. http://dx.doi.org/10.1672/0277-5212(2006)26[649:AOTBOS]2.0.CO;2.

Orlando Jr., S.P., Rozas, L.P., Ward, G.H., Klein, C.J., 1993. Salinity Characteristics of Gulf of Mexico Estuaries. Strategic Environmental Assessments Division, Office of Ocean Resources Conservation and Assessment, National Ocean Service, Silver Spring, MD, 209 pp.

Orton, R., 1990. Map of Texas showing normal precipitation deficiency in inches. U.S. Department of Commerce, Environmental Science Services Administration, Weather Bureau.

Osborn, A.M., Moore, E.R.B., Timmis, K.N., 2000. An evaluation of terminal-restriction fragment length polymorphism (T-RFLP) analysis for the study of microbial cimmunity structure and dynamics. Environmental Microbiology 2, 39-50.

Overpeck, J.T., Otto-Bliesner, B.L., Miller, G.H., Muhs, D.R., Alley, R.B., Kiel, J.T., 2006. Paleoclimatic evidence for future ice-sheet instability and rapid sea-level rise. Science 311, 1747-1750.

Oviatt, C.A., 2004. The changing ecology of temperate coastal waters during a warming trend. Estuaries 27, 895-904.

P-

Paerl, H.W., Paul, V.J., 2012. Climate change: links to global expansion of harmful cyanobacteria. Water Research 46, 1349-1363. http://dx.doi.org/10.1016/j.watres.2011.08.002.

Paerl, H.W., Pinckney, J.L., Fear, J.M., Peierls, B.L., 1998. Ecosystem responses to internal and watershed organic matter loading: consequences for hypoxia in the eutrophying Neuse River Estuary, North Carolina, USA. Marine Ecology Progress Series 166, 17-25.

Paerl, H.W., Rossignol, K.L., Hall, S.N., Peierls, B.L., Wetz, M.S., 2010.  Phytoplankton community indicators of short- and long-term ecological change in the anthropogenically and climatically impacted Neuse River Estuary, North Carolina, USA. Estuaries and Coasts 33, 485-497. http://dx.doi.org/10.1007/s12237-009-9137-0.

Painchaud, J., Lefaivre, D., Therriault, J.C., Legendre, L., 1995. Physical processes controlling bacterial distribution and variability in the upper St. Lawrence estuary. Estuaries 18, 433-444.

Paine, J.G., 1993. Subsidence of the Texas coast: inferences from historical and late Pleistocene sea levels. Tectonophysics 222, 445-458.

Paine, J.G., Morton, R.A., 1993. Historical Shoreline Changes in Copano, Aransas, and Redfish Bays, Texas Gulf Coast. Bureau of Economic Geology, The University of Texas at Austin, 66 pp.

Pakhomova, S.V., Hall, P.O.J., Kononets, M.Y., Rozanov, A.G., Tengberg, A., Vershinin, A.V., 2007. Fluxes of iron and manganese across the sediment-water interface under various redox conditions. Marine Chemistry 107, 319-331. http://dx.doi.org/10.1016/j.marchem.2007.06.001.

Palmer, T.A., Montagna, P.A., Nairn, R.B., 2008. The effects of a dredge excavation pit on benthic macrofauna in offshore Louisiana. Environmental Management 41, 573-583. DOI 10.1007/s00267-007-9063-5.

Park, M.G., Kim, S., Kim, H.S., Myung, G., Kang, Y.G., Yih, W., 2006. First successful culture of the marine dinoflagellate Dinophysis acuminata. Aquatic Microbial Ecology 45, 101-106.

Park, M.G., Park, J.S., Kim, M., Yih, W., 2008. Plastid dynamics during survival of Dinophysis caudata without its ciliate prey. Journal of Phycology 44, 1154-1163.

Paucot, H., Wollast, R., 1997. Transport and transformation of trace metals in the Scheldt estuary. Marine Chemistry 58, 229-244. http://dx.doi.org/10.1016/S0304-4203(97)00037-6.

Paulsen, C., Crist, P.J., Kittel, G., Varley, I., 2010. Regionwide cumulative effects analysis of long-range transportation plans. Transportation Research Record: Journal of the Transportation Research Board 2158, 10-18. http://pubsindex.trb.org/view.aspx?id=911393.

Pauly, D., Christensen, V., Guénette, S., Pitcher, T.J., Sumaila, U.R., Walters, C.J., Watson, R., Zeller, D., 2002. Towards sustainability in world fisheries. Nature 418, 689-695.

Peierls, B.L., Christian, R.R., Paerl, H.W., 2003. Water quality and phytoplankton as indicators of hurricane impacts on a large estuarine ecosystem. Estuaries 26, 1329-1343.

Penland, S., Ramsey, K.E., McBride, R.A., Mestayer, J.T., Westphal, K.A., 1988. Relative sea level rise and delta-plain development in the Terrebonne Parish region. Coastal Geology Technical Report No. 4. Louisiana Geological Survey, Baton Rouge, 121 pp.

Pennings, S.C., Callaway, R.M., 1992. Salt marsh plant zonation: the relative importance of competition and physical factors. Ecology 73, 681-690.

Perry, M.J., Mackun, P.J., 2001. Population Change and Distribution, Census 2000 Brief. Report C2KBR/01-2, U.S. Census Bureau.

Peterjohn, W.T., Correll, D.L., 1984. Nutrient dynamics in an agricultural watershed: observations on the role of a riparian forest. Ecology 65, 1466-1475. doi: 10.2307/1939127.

Peterson, B.J., Fry, B., 1987. Stable isotopes in ecosystem studies. Annual Review of Ecology and Systematics. 18, 293-320.

Peterson, B.J., Wollheim, W.M., Mulholland, P.J., Webster, J.R., Meyer, J.L., Tank, J.L., Marti, E., Bowden, W.B., Valett, H.M., Hershey, A.E., McDowell, W.H., Dodds, W.K., Hamilton, S.K., Gregory, S., Morrall, D.D., 2001. Control of nitrogen export from watersheds by headwater streams. Science 292, 86-90. DOI: 10.1126/science.1056874.

Peterson, C.H., Kennicutt, M.C., Green, R.H., Montagna, P., Harper Jr., D.E., Powell, E.N., Roscigno, P.F., 1996. Ecological consequences of environmental perturbations associated with offshore hydrocarbon production: a perspective on long-term exposures in the Gulf of Mexico. Canadian Journal of Fisheries and Aquatic Sciences 53, 2637-2654.

Phlips, E.J., Badylak, S., Grosskopf, T., 2002. Factors affecting the abundance of phytoplankton in a restricted subtropical lagoon, the Indian River Lagoon, Florida, USA. Estuarine, Coastal and Shelf Science 55, 385-402.

Piehler, M.F., Smyth, A.R., 2011. Habitat-specific distinctions in estuarine denitrification affect both ecosystem function and services. Ecosphere 2, 1-16. http://dx.doi.org/10.1890/ES10-00082.1.

Pierce, R.H., Henry, M.S., Proffitt, L.S., Hasbrouck, P.A., 1990. Red tide toxin (brevetoxin) enrichment in marine aerosol. In: Graneli, E., Sundstrom, B., Edler, L., Anderson, D.M. (Eds.). Toxic Marine Phytoplankton: Proceedings of the Fourth International Conference on Toxic Marine Phytoplankton, Lund, Sweden. Elsevier, New York, pp. 397-402.

Pierce, S.M., Mader, A.D., 2006. The STEP Handbook. Integrating the natural environment into land use decisions at the municipal level: towards sustainable development. Centre for African Conservation Ecology (ACE). Report number 47 (Second Edition). Nelson Mandela Metropolitan University, South Africa.

Pihl, L., Baden, S.P., Diaz, R.J., Schaffner, L.C., 1992. Hypoxia-induced structural changes in the diet of bottom-feeding fish and crustacea. Marine Biology 112, 349-361. DOI:10.1007/BF00356279.

Pikitch, E.K., Santora, C., Babcock, E.A., Bakun, A., Bonfil, R., Conover, D.O., Dayton, P., Doukakis, P., Fluharty, D., Heneman, B., Houde, E.D., Link, J., Livingston, P.A., Mangel, M., McAllister, M.K., Pope, J., Sainsbury, K.J., 2004. Ecology: ecosystem-based fishery management. Science 305, 346-347. DOI: 10.1126/science.1098222.

Pinckney, J., Dustan, P., 1990. Ebb-tidal fronts in Charleston Harbor, South Carolina: physical and biological characteristics. Estuaries 13, 1-7.

Pinckney, J.L., Paerl, H.W., Harrington, M.B., Howe, K.E., 1998. Annual cycles of phytoplankton community-structure and bloom dynamics in the Neuse River Estuary, North Carolina. Marine Biology 131, 371-381.

Pinheiro, J., Bates, D., DebRoy, S., Sarkar, D., R Core Team, 2009. nlme: Linear and Nonlinear Mixed Effects Models. R package version3. 1-93.

PlaceMatters, 2012. PlaceMatters' Brainstorm Anywhere. http://www.placematters.org/institute/video/placematters-brainstorm-anywhere.

Plaziat, J.-C., 1995. Modern and fossil mangroves and mangals: their climatic and biogeographic variability. In: Bosence, D.W.J., Allison, P.A. (Eds.), Marine Palaeoenvironmental Analysis From Fossils. Geological Society Special Publication NO. 83. Geologial Society, London, AAPG Bookstore, Tulsa, Okla., pp. 73-96.

Pollack, J.B., Kim, H.C., Morgan, E.K., Montagna, P.A., 2011. Role of flood disturbance in natural oyster (Crassostrea virginica) population maintenance in an estuary in South Texas, USA. Estuaries and Coasts 34, 187-197. DOI: 10.1007/s12237-010-9338-6.

Pomeroy, L.R., 1974. The ocean's food web, a changing paradigm. BioScience 24, 499-504.

Pommier, T., Canback, B., Riemann, L., Bostrom, K.H., Simu, K., Lundberg, P., Tunlid, A., Hagstrom, A., 2007. Global patterns of diversity and community structure in marine bacterioplankton. Molecular Ecology 16, 867-880.

Potter, E.C.E., Kell, L., Reddin, D.G., 1993. The Discrimination of North American and European Salmon Using a Genetic Algorithm and By Neutral Network. C.M. 1993/M:18. International Council for the Exploration of the Sea, Copenhagen.

Prager, E.J., Halley, R.B., 1999. The influence of seagrass on shell layers and Florida Bay mudbanks. Journal of Coastal Research 15, 1151-1162.  http://www.jstor.org/stable/4299032.

Prahl, F.G., Hayes, J.M., Xie, T.-M., 1992. Diploptene: an indicator of terrigenous organic carbon in Washington coastal sediments. Limonology and Oceanography 37, 1290-1300.

Premuzic, E.T., Benkovitz, C.M., Gaffney, J.S., Walsh, J.J., 1982. The nature and distribution of organic matter in the surface sediments of world oceans and seas. Organic Geochemistry 4, 63-77. http://dx.doi.org/10.1016/0146-6380(82)90009-2.

Preston, C.M., 1996. Applications of NMR to soil organic matter analysis: history and prospects. Soil Science 161, 144-166.

Price, W.A., 1954. Oyster reefs of the Gulf of Mexico. Fishery Bulletin of the Fish and Wildlife Service 55, 491.

Pritchard, D.W., 1967. Salinity distribution and circulation in the Chesapeake Bay estuarine system. Journal of Marine Research 11, 106-123.

Prosser, J.I., Bohannan, B.J., Curtis, T.P., 2007. The role of ecological theory in microbial ecology. Nature Review Microbiology 5, 384-392.

Prouty, J.S., Prouty, D.B., 1989. Historical back barrier shoreline changes, Padre Island National Seashore, Texas. Gulf Coast Association of Geological Societies Transactions 39, 481-490.

Pulich Jr., W., 2007. Texas coastal bend. In: Handley, L., Altsman, D., DeMay, R. (Eds.), Seagrass Status and Trends In the Northern Gulf of Mexico: 1940-2002. Scientific Investigations Report 2006-5287. U.S. Environmental Protection Agency 855-R-04-003. U.S. Geological Survey, Reston, VA, pp. 41-59.

Pulich Jr., W., Blair, C., White, W.A., 1997. Current Status and Historical Trends of Seagrasses in the Corpus Christi Bay National Estuary Program Study Area. Publication CCBNEP-20. Texas Natural Resource Conservation Commission, Austin, Texas, 131 pp.

Pulich Jr., W.M., Scalan, R.S., 1987. Organic carbon and nitrogen flow marine cyanobacteria to semiaquatic insect food webs. Contributions in Marine Science 30, 27-37. UTDR

Pulich Jr., W.M., White, W.A., 1991. Decline of submerged vegetation in the Galveston Bay system: chronology and relationships to physical processes. Journal of Coastal Research 7, 1125-1138. http://www.jstor.org/stable/4297932.

Purcell, J.E., Arai, M.N., 2001. Interactions of pelagic cnidarians and ctneophores with fish: a review. Hydrobiologia 451, 27-44. http://dx.doi.org/10.1023/A:1011883905394.

Pyke, C.R., 2004. Habitat loss confounds climate change impacts. Frontiers in Ecology and the Environment 2, 178–182. http://dx.doi.org/10.1890/1540-9295(2004)002[0178:HLCCCI]2.0.CO;2.

Q-

Quammen, M.L., Onuf, C.P., 1993. Laguna Madre: seagrass changes continue decades after salinity reduction. Estuaries 16, 302-310. http://www.jstor.org/stable/1352503.

Quigg, A., Broach, L., Denton, W., Miranda, R., 2009. Water qualilty in the Dickinson Bayou watershed (Texas, Gulf of Mexico) and health issues. Marine Pollution Bulletin 58, 896-904. doi:10.1016/j.marpolbul.2009.01.012.

R-

R Development Core Team, 2009. R: A Language and Environment for Statistical Computing. R Foundation for Statistical Computing, Vienna, Austria, 409 pp.

Rabalais, N.N., Turner, R.E., Díaz, R.J., Justić, D. 2009. Global change and eutrophication of coastal waters. ICES Journal of Marine Science 66, 1528-1537.

Race, M.S., Christie, D.R., 1982. Coastal zone development: mitigation, marsh creation, and decision-making. Environmental Management 6, 317-328. http://dx.doi.org/10.1007/BF01875063.

Raho, N., Pizarro, G., Escalera, L., Reguera, B., Marin, I., 2008. Morphology, toxin composition and molecular analysis of Dinophysis ovum Schütt, a dinoflagellate of the "Dinophysis acuminata complex." Harmful Algae 7, 839-848.

Ransom, B., Bennett, R.H., Baerwald, R., Shea, K., 1997. TEM study of in situ organic matter on continental margins: occurrence and the "monolayer" hypothesis. Marine Geology 138, 1-9. http://dx.doi.org/10.1016/S0025-3227(97)00012-1.

Ratzlaff, K.W., 1980. Land-surface Subsidence in the Texas Coastal Region. Open-file report 80-969, U.S. Dept. of the Interior, Geological Survey, Austin, Texas, 19 pp.

Ravens, T.M., Thomas, R.C., Roberts, K.A., Santschi, P.H., 2009. Causes of salt marsh erosion in Galveston Bay, Texas. Journal of Coastal Research 25, 265-272. doi: 10.2112/07-0942.1.

Ray, G.L., 2005. Invasive Animal Species in Marine and Estuarine Environments: Biology and Ecology. ERDC/EL TR-05-2. US Army Corps of Engineers, Engineer Research and Development Center, Environmental Laboratory, Vicksburg, Mississippi, 56 pp.

Raymond, P.A., Bauer, J.E., 2001. Riverine export of aged terrestrial organic matter to the North Atlantic Ocean. Nature 409, 497-500.

Reed, S.B., 2008. Economic News Release: Consumer Price Index Summary. Bureau of Labor Statistics. WWW Page, www.bls.gov/news.release/cpi.nr0.htm.

Reguera, B., Garces, E., Pazos, Y., Bravo, I., Ramilo, I., González-Gill, S., 2003. Cell cycle patterns and estimates of in situ division rates of dinoflagellates of the genus Dinophysis by a postmitotic index. Marine Ecology Progress Series 249, 117-131.

Reguera, B., González-Gil, S., 2001. Small cell and intermediate cell formation in species of Dinophysis (Dinophyceae, Dinophysiales). Journal of Phycology 37, 318-333.

Reguera, B., González-Gil, S., Delgado, M., 2007. Dinophysis diegensis is a life history stage of Dinophysis caudata (Dinophyceae, Dinophysiales). Journal of Phycology 43, 1083-1093.

Reiter, M.A., Parsons, G.R., Scarborough, R.W., Fan, C., Thur, S.M., 2006. An interdisciplinary conceptual metamodel for the St. Jones River Watershed, Delaware: development, results, and implications. Journal of Environmental Monitoring and Restoration 2, 38-50.

Renard, K.G., Foster, G.R., Weesies, G.A., McCool, D.K., Yoder, D.C., 1997. Predicting Soil Erosion by Water: A Guide to Conservation Planning With the Revised Universal Soil Loss Equation (RUSLE). Agriculture handbook no. 703. U.S. Dept. of Agriculture, Agricultural Research Service, Washington, D.C. 384 pp.

Reschovsky, C.A., 2004. Journey to Work: 2000: Census 2000 Brief. Report C2KBR-33, U.S. Census Bureau, Washington, DC.

Revilla, M., Ansotegui, A., Iriarte, A., Madariaga, I., Orive, E., Sarobe, A., Trigueros, J.M., 2002. Microplankton metabolism along a trophic gradient in a shallow-temperate estuary. Estuaries 25, 6-18.

Rhudy, K.B., Sharma, V.K., Lehman, R.L., McKee, D.A., 1999. Seasonal variability of the Texas 'brown tide' (Aureoumbra lagunensis) in relation to environmental parameters. Estuarine, Coastal and Shelf Science 48, 565-574. doi: 10.1006/ecss.1998.0460.

Ricciardi, A., Rasmussen, J.B., 1999. Extinction rates of North American freshwater fauna. Conservation Biology 13, 1220-1222. DOI: 10.1046/j.1523-1739.1999.98380.x.

Richard, D., Sundby, B., Mucci, A., 2013. Kinetics of manganese adsorption, desorption, and oxidation in coastal marine sediments. Limnology and Oceanography 58, 987-996. http://dx.doi.org/10.4319/lo.2013.58.3.0987.

Ricklis, R.A., 1996. The Karankawa Indians of Texas: An Ecological Study of Cultural Tradition and Change. University of Texas Press, Austin, 222 pp. 

Ricklis, R.A., 2004. Prehistoric occupation of the central and lower Texas coast. In: Perttula, T.K. (Ed.), The Prehistory of Texas. Texas A&M University Press, College Station, pp. 155-180.

Riechers, R., 2008. Regulations Committee Southern Flounder Update. Texas Parks and Wildlife Department Regulation Committee, Houston, TX. http://www.tpwd.state.tx.us/business/feedback/meetings/2009/1106/transcripts/regulations_committee/index.phtml.

Rignot, E., Kanagaratnam, P., 2006. Changes in the velocity structure of the Greenland Ice Sheet. Science 311, 986-990.

Riley, G.A., 1946. Factors controlling phytoplankton populations on Georges Bank. Journal of Marine Research 6, 54-73.

Riley, G.A., 1976. A model of plankton patchiness. Limnology and Oceanography 21, 873-880.

Risgaard-Petersen, N., Rysgaard, S., Alef, K., Nannipieri, P., 1995. Nitrate reduction in sediments and waterlogged soil measured by 15N techniques. In: Alef, K., Nannipieri, P. (Eds.), Methods in Applied Soil Microbiology and Biochemistry. Academic Press, pp. 287-295.

Ritter, C., Montagna, P.A., 1999. Seasonal hypoxia and models of benthic response in a Texas bay. Estuaries 22, 7-20. http://dx.doi.org/10.2307/1352922.

Roberts, B.S., 1979. Occurrence of Gymnodinium breve red tides along the west and east coasts of Florida during 1976 and 1977. In: Taylor, D.L., Seliger, H.H. (Eds.), Toxic Dinoflagellate Blooms: Proceedings of the Second International Conference on Toxic Dinoflagellate Blooms, Key Biscayne, Florida. Elsevier, New York, pp. 199-202.

Robertson, S.G., Morison, A.K., 1999. A trial of artificial neural networks for automatically estimating the age of fish. Marine and Freshwater Research 50, 73-82. DOI: 10.1071/MF98039.

Robertson, S.M., Schultz, T.W., Gamble, L.R., Maurer, T.C., 1991. Contaminants Investigation of Aransas Dredge Spoil Islands Texas, 1988-1989. Study R2-88-2-115. U.S. Fish and Wildlife Service, Ecological Services, Corpus Christi, Texas, 29 pp.

Robinson, L.P., Campbell, R.P., Butler, L., 1994. Trends in Texas Commercial Fishery Landings, 1972-1993. Management Data Series No. 111. Texas Parks and Wildlife Department, Coastal Fisheries Branch, Austin. 117 pp.

Rodríguez, R.W., Webb, R.M.T., Bush, D.M., 1994. Another look at the impact of Hurricane Hugo on the shelf and coastal resources of Puerto Rico, U.S.A. Journal of Coastal Research 10, 278-296. http://www.jstor.org/stable/4298216.

Rogers, B.D., Herke, W.H., 1985. Temporal Patterns and Size Characteristics of Migrating Juvenile Fishes and Crustaceans in a Louisiana Marsh. Research Report Number 5, School of Forestry, Wildlife, and Fisheries, Louisiana Agricultural Experiment Station, Louisiana State University Agricultural Center, Baton Rouge, 81 pp.

Rooker, J.R., Holt, S.A., 1997. Utilization of subtropical seagrass meadows by newly settled red drum Sciaenops ocellatus: patterns of distribution and growth. Marine Ecology Progress Series 158, 139-149.

Rooker, J.R., Holt, S.A., Soto, M.A., Holt, G.J., 1998. Postsettlement patterns of habitat use by sciaenid fishes in subtropical seagrass meadows. Estuaries 21, 318-327. http://www.jstor.org/stable/1352478.

Roszell, L.E., Schulman, L.S., Baden, D.G., 1990. Toxin profiles are dependent on growth stages in cultured Ptychodiscus brevis. In: Graneli, E., Sundstrom, B., Edler, L., Anderson, D.M. (Eds.). Toxic Marine Phytoplankton: Proceedings of the Fourth International Conference on Toxic Marine Phytoplankton, Lund, Sweden. Elsevier, New York, pp. 403-406.

Rozas, L.P., Minello, T.J., Munuera-Fernandez, I., Fry, B., Wissel, B., 2005. Macrofaunal distributions and habitat change following winter-spring releases of freshwater into the Brenton Sound estuary, Louisiana (USA). Estuarine, Coastal and Shelf Science 65, 319-336. doi: 10.1016/j.ecss.2005.05.019.

Ruckelshaus, M.H., Levin, P., Johnson, J.B., Kareiva, P.M., 2002. The Pacific salmon wars: what science brings to the challenge of recovering species. Annual Review of Ecology and Systematics 33, 665-706. http://dx.doi.org/10.1146/annurev.ecolsys.33.010802.150504.

Rudek, J., Paerl, H.W., Mallin, M.A., Bates, P.W., 1991. Seasonal and hydrological control of phytoplankton nutrient limitation in the lower Neuse River Estuary, North Carolina. Marine Ecology Progress Series 75, 133-142.

Ruiz, G.M., Fofonoff, P.W., Carlton, J.T., Wonham, M.J., Hines, A.H., 2000. Invasion of coastal marine communities in North America: apparent patterns, processes, and biases. Annual Review of Ecology and Systematics 31, 481-531. http://www.jstor.org/stable/221741.

Ruiz, J.E., Izquierdo, A., 1997. A simple model for the break-up of marine aggregates by turbulent shear. Oceanologica Acta 20, 597-605. 

Runkel, R.L., Crawford, C.G., Cohn, T.A., 2004. Load Estimator (LOADEST): A FORTRAN Program for Estimating Constituent Loads in Streams and Rivers. Techniques and Methods Book 4, Chapter A5, U.S. Geological Survey, Reston, Va., 69 pp.

Rusjan, S., Brilly, M., Mikoš, M., 2008. Flushing of nitrate from a forested watershed: An insight into hydrological nitrate mobilization mechanisms through seasonal high-frequency stream nitrate dynamics. Journal of Hydrology 354, 187-202. doi: 10.1016/j.jhydrol.2008.03.009.

Russ, G.R., 1991. Coral reef fisheries: effects and yields. In: Sale, P.F. (Ed.), The Ecology of Fishes on Coral Reefs. Academic Press, San Diego, California, pp. 601-635.

Russell, M.J., Montagna, P.A., 2007. Spatial and temporal variability and drivers of net ecosystem metabolism in western Gulf of Mexico estuaries. Estuaries and Coasts 30, 137-153.

Russell, M.J., Montagna, P.A., Kalke, R.D., 2006. The effect of freshwater inflow on net ecosystem metabolism in Lavaca Bay, Texas. Estuarine, Coastal and Shelf Science 68, 231-244. doi: 10.1016/j.ecss.2006.02.005.

Ryther, J.H., 1969. Photosynthesis and fish production in the sea. Science 166, 72-76.

S-

Sagert, S., Rieling, T., Eggert, A., Schubert, H., 2008. Development of a phytoplankton indicator system for the ecological assessment of brackish coastal waters (German Baltic Sea Coast). Hydrobiologia 611, 91-103.

Saila, S.B., 2005. Neural networks used in classification with emphasis on biological populations. In: Cadrin, S.X., Friedland, K.D., Waldman, J.R. (Eds.), Stock Identification Methods: Applications in Fishery Science. Elsevier Academic Press, Burlington, MA, pp. 553-569.

Sanders, J.G., Cibik, S.J., D'Elia, C.F., Boynton, W.R., 1987. Nutrient enrichment studies in a coastal plain estuary: changes in phytoplankton species composition. Canadian Journal of Fisheries and Aquatic Sciences 44, 83-90.

Santoro, A.E., 2009. Microbial nitrogen cycling at the saltwater-freshwater interface. Hydrogeology Journal 18, 187-202. http://dx.doi.org/10.1007/s10040-009-0526-z.

SAS Institute Inc., 2004. SAS/STAT® 9.1 User's Guide. SAS Institute Inc., Cary, NC.

SAS Institute Inc., 2006. SAS® 9.1.3 Language Reference: Dictionary, Fifth Edition, Volumes 1-4. SAS Institute Inc., Cary, NC.

Saveliev, A.A., Mukharamova, S.S., Chizhikova, N.A., Budgey, R., Zuur, A.F., 2007. Spatially continous data analysis and modelling. In: Zuur, A.F., Leno, E.N., Smith, G.M. (Eds.), Analysing Ecological Data. Springer, New York, pp. 341-372.

Scavia, D., Field, J.C., Boesch, D.F., Buddemeier, R.W., Burkett, V., Cayan, D.R., Fogarty, M., Harwell, M.A., Howarth, R.W., Mason, C., Reed, D.J., Royer, T.C., Sallenger, A.H., Titus, J.G., 2002. Climate change impacts on U.S. coastal and marine ecosystems. Estuaries 25, 149-164. 

Schelske, C.L., Odum, E.P., 1962. Mechanisms maintaining high productivity in Georgia estuaries. Proceedings-Gulf and Caribbean Fisheries Institute 14, 75-80.

Schlesinger, W.H., Cole, J.J., Finzi, A.C., Holland, E.A., 2011. Introduction to coupled biogeochemical cycles. Frontiers in Ecology and the Environment 9, 5-8. http://dx.doi.org/10.1890/090235.

Schmidt, M.W.I., Rumpel, C., Kogel-Knabner, I., 1999. Evaluation of an ultrasonic dispersion procedure to isolate primary organomineral complexes from soils. European Journal of Soil Science 50, 87-94. doi: 10.1046/j.1365-2389.1999.00211.x.

Schuett, M.A., Jacob, J.S., Lu, J., Respess, L., 2008. Keeping our charm: residents, growth, and quality of life issues in a small but growing Texas coastal community. Journal of Extension 46, 1-13.

Seager, R., Ting, M.F., Held, I., Kushnir, Y., Lu, J., Vecchi, G., Huang, H.P., Harnik, N., Leetmaa, A., Lau, N.C., Li, C.H., Velez, J., Naik, N., 2007. Model projections of an imminent transition to a more arid climate in southwestern North America. Science 316, 1181-1184.

Seitzinger, S.P., Pilson, M.E.Q., Nixon, S.W., 1983. Nitrous oxide production nearshore marine sediments. Science 222, 1244-1246.

Seliger, H.H., Tyler, M.A., McKinley, K.R., 1979. Phytoplankton distributions and red tides resulting from frontal circulation patterns. In: Taylor, D.L., Seliger, H.H. (Eds.), Toxic Dinoflagellate Blooms: Proceedings of the Second International Conference on Toxic Dinoflagellate Blooms, Key Biscayne, Florida. Elsevier, New York, pp. 239-248.

Shanks, A.L., Graham, W.M., 1988. Chemical defense in a scyphomedusa. Marine Ecology Progress Series 45, 81-86.

Sharp, J.M. Jr., Raymond, R.H., Germiat, S.J., Paine, J.G., 1991. Re-evaluation of the causes of subsidence along the Texas Gulf of Mexico coast and some extrapolations of future trends. Land Subsidence: Proceedings of the Fourth International Symposium on Land Subsidence. IAHS-AISH publication 200, International Association of Hydrological Sciences, Delft, The Netherlands, pp. 397-405.

Shaunessy, E., Page, C., 2006. Promoting inquiry in the gifted classroom through GPS and GIS technologies. Gifted Child Today 29, 42-53.

Shaw, T.J., Moore, W.S., Kloepfer, J., Sochaski, M.A., 1998. The flux of barium to the coastal waters of the southeastern USA: the importance of submarine groundwater discharge. Geochimica et Cosmochimica Acta 62, 3047-3054. http://dx.doi.org/10.1016/S0016-7037(98)00218-X.

Shepherd, A., Wingham, D., 2007. Recent sea-level contributions of the Antarctic and Greenland Ice Sheets. Science 315, 1529-1532.

Sherr, B.F., Sherr, E.B., Andrew, T.L., Fallon, R.D., Newell, S.Y., 1986. Trophic interactions between heterotrophic protozoa and bacterioplankton in estuarine water analyzed with selective metabolic inhibitors. Marine Ecology Progress Series 32, 169-179.

Sherrod, C.L., 1980. Present and Past Distribution of Black Mangrove (Avicennia germinans [L.] L.) on the Texas Gulf coast. M.A. Thesis, The University of Texas at Austin. 66 pp.

Sherrod, C.L., McMillan, C., 1981. Black mangrove, Avicennia germinans, in Texas: past and present distribution. Contributions in Marine Science 24, 115-131. UTDR

Sherrod, C.L., McMillan, C., 1985. The distributional history and ecology of mangrove vegetation along the Northern Gulf of Mexico coastal region. Contributions in Marine Science 28, 129-140. UTDR

Shideler, G.L., 1984. Suspended sediment responses in a wind-dominated estuary of the Texas Gulf Coast. Journal of Sedimentary Petrology 54, 731-745.

Shiller, A.M., 1997. Dissolved trace elements in the Mississippi River: seasonal, interannual, and decadal variability. Geochimica et Cosmochimica Acta 61, 4321-4330. http://dx.doi.org/10.1016/S0016-7037(97)00245-7.

Shine, C., Klemm, C., 1999. Wetlands, Water, and the Law: Using Law to Advance Wetland Conservation and Wise Use. IUCN, Gland, Switzerland. 332 pp.

Sholkovitz, E.R. 1976. Flocculation of dissolved organic and inorganic matter during the mixing of river water and seawater. Geochimica et Cosmochimica Acta 40, 831-845. doi: 10.1016/0016-7037(76)90035-1.

Short, F.T., Burdick, D.M., Kaldy, J.E., 1995. Mesocosm experiments quantify the effects of eutrophication on eelgrass, Zostera marina. Limnology and Oceanography 40, 740-749.

Short, F.T., Wyllie-Echeverria, S., 1996. Natural and human-induced disturbance of seagrasses. Environmental Conservation 23, 17-27. doi: 10.1017/S0376892900038212.

Short, J.W., Harris, P.M., 1996. Chemical sampling and analysis of petroleum hydrocarbons in the near-surface seawater of Prince William Sound after the Exxon Valdez oil spill. In: Rice, S.D., Spies, R.B., Wolfe, D.A., Wright, B.A. (Eds.), Proceedings of the Exxon Valdez Oil Spill Symposium, vol. 18. American Fisheries Society, Bethesda, Maryland, pp. 17-28.

Shuter, B.J., 1990. Population-level indicators of stress. American Fisheries Society symposium 8. In: Adams, S.M. (Ed.), Biological indicators of stress in fish. American Fisheries Society, Bethesda, Md. pp. 145-166.

Siddiky, M.R.K., Schaller, J., Caruso, T., Rillig, M.C., 2012. Arbuscular mycorrhizal fungi and collembola non-additively increase soil aggregation. Soil Biology and Biochemistry 47, 93-99. http://dx.doi.org/10.1016/j.soilbio.2011.12.022.

Sievers, A.M., 1969. Comparative toxicity of Gonyaulax monilata and Gymnodinium breve to annelids, crustaceans, molluscs and a fish. Journal of Protozoology 16, 401-404.

Silberstein, K., Chiffings, A.W., McComb, A.J., 1986. The loss of seagrass in Cockburn Sound, Western Australia. III. The effect of epiphytes on productivity of Posidonia australis Hook. F. Aquatic Botany 24, 355-371.

Simersky, B., 1971. Competition and Nesting Success of Four Species of Herons on Spoil Islands in thae Laguna Madre, Texas. [abstract] Texas Journal of Science 23, 599.

Simersky, B.L., 1971. Competition and Nesting Success of Four Species of Herons on Four Spoil Islands in the Laguna Madre. M.A. Thesis, Texas A&I University, Kingsville, 92 pp.

Simmons, E.G., Hoese, H.D., 1959. Studies on the hydrography and fish migration of Cedar Bayou, a natural tidal inlet on the central Texas coast. Publications of the Institute of Marine Science 6, 56-80.

Sin, Y., Wetzel, R.L., Anderson, I.C., 2000. Seasonal variations of size-fractionated phytoplankton along the salinity gradient in the York River estuary, Virginia (USA). Journal of Plankton Research 22, 1945-1960.

Sinclair, D.J., McCulloch, M.T., 2004. Corals record low mobile barium concentrations in the Burdekin River during the 1974 flood: evidence for limited Ba supply to rivers? Palaeogeography, Palaeoclimatology, Palaeoecology 214, 155-174. http://dx.doi.org/10.1016/j.palaeo.2004.07.028.

Smith, E.H., Dilworth, S.J., 1999. Mission/Aransas Watershed Wetland Conservation Plan. Texas General Land Office, Coastal Division, Austin, Texas, 99 pp.

Smith, J., Snyder, K., 2011. Bridging the Divide Between Science and Planning: Lessons From Ecosystem-Based Management Approaches to Local and Regional Planning in the United States. http://www.placematters.org/.

Smayda, T.J., 1997. Harmful algal blooms: their ecophysiology and general relevance to phytoplankton blooms in the sea. Limnology and Oceanography 42, 1137-1153.

Smyth, A.R., Thompson, S.P., Siporin, K.N., Gardner, W.S., McCarthy, M.J., Piehler, M.F., 2013. Assessing nitrogen dynamics throughout the estuarine landscape. Estuaries and Coasts 36, 44-55. http://dx.doi.org/10.1007/s12237-012-9554-3.

Snider, R. (Ed.), 1986. Red Tide in Texas: An Explanation of the Phenomenon. Texas A & M Sea Grant College Program, College Station, Texas, 4 pp.

Solis, R.S., Powell, G.L., 1999. Hydrography, mixing characteristics, and residence times of Gulf of Mexico estuaries. In: Bianchi, T.S., Pennock, J.R., Twilley, R.R. (Eds.), Biogeochemistry of Gulf of Mexico Estuaries. John Wiley, New York, pp. 29-61.  

Solow, A., Davis, C., Hu, Q., 2001. Estimating the taxonomic composition of a sample when individuals are classified with error. Marine Ecology Progress Series 216, 309-311.

Somboon, J.R.P., 1990. Palynological study of mangrove and marine sediments of the Gulf of Thailand. Journal of Southeast Asian Earth Sciences 4, 85-97.

Sørensen, J., Jørgensen, B.B., Revsbech, N.P., 1979. A comparison of oxygen, nitrate, and sulfate respiration in coastal marine sediments. Microbial Ecology 5, 105-115.

Sosik, H.M., Olson, R.J., 2007. Automated taxonomic classification of phytoplankton sampled with imaging-in-flow cytometry. Limnology and Oceanography: Methods 5, 204-216.

Sosik, H.M., Olson, R.J., Armbrust, E.V., 2010. Flow cytometry in plankton research. In: Suggett, D.J., Prášil, O., Borowitzka, M.A. (Eds.), Chlorophyll a Fluorescence in Aquatic Sciences: Methods and Applications. Springer, Dordrecht, The Netherlands, pp. 171-185.

Spalding, M., Kainuma, M., Collins, L., 2009. World Atlas of Mangroves. Earthscan, London, Washington, DC, 304 pp.

Staehr, P.A., Testa, J.M., Kemp, W.M., Cole, J.J., Sand-Jensen, K., Smith, S.V., 2012. The metabolism of aquatic ecosystems: history, applications, and future challenges. Aquatic Science 74, 15-29. http://dx.doi.org/10.1007/s00027-011-0199-2.

Stalker, J.C., Price, R.M., Swart, P.K., 2009. Determining spatial and temporal inputs of freshwater, including submarine groundwater discharge, to a subtropical estuary using geochemical tracers, Biscayne Bay, South Florida. Estuaries and Coasts 32, 694-708. http://dx.doi.org/10.1007/s12237-009-9155-y.

Statham, P.J., Connelly, D.P., German, C.R., Brand, T., Overnell, J.O., Bulukin, E., Millard, N., McPhail, S., Pebody, M., Perrett, J., Squire, M., Stevenson, P., Webb, A., 2005. Spatially complex distribution of dissolved manganese in a fjord as revealed by high-resolution in situ sensing using the autonomous underwater vehicle Autosub. Environmental Science Technology 24, 9440-9445.

Stecher, H.A., Kogut, M.B., 1999. Rapid barium removal in the Delaware estuary. Geochimica et Cosmochimica Acta 63, 1003-1012. http://dx.doi.org/10.1016/S0016-7037(98)00310-X.

Steele, P., Bert, T.M., 1994. Population Ecology of the Blue Crab, Callinectes sapidus Rathbun, in a Subtropical Estuary: Population Structure, Aspects of Reproduction, and Habitat Partitioning. Florida Marine Research Publications no. 51. State of Florida, Dept. of Environmental Protection, Florida Marine Research Institute, St. Petersburg, 24 pp. 

Stehn, T., 2009. Whooping Crane Recovery Activities: October, 2008-October, 2009. WWW Page, http://www.bringbackthecranes.org/technicaldatabase/recovery/recv2009.html. Accessed November 5, 2012.

Stehn, T., 2010. Whooping Crane Recovery Activities: October, 2009-September, 2010.  U.S. Fish and Wildlife Service, Aransas National Wildlife Refuge, Austwell, Texas.

Stehn, T.V., Johnson, E.F., 1987. The distribution of winter territories of the whooping crane on the Texas coast. Proceedings of 1985 International Crane Workshop. JPlatte River Whooping Crane Habitat Maintenance Trust and USFWS, International Crane Foundation, Baraboo, Wis. pp. 180-195.

Steidinger, K.A., 1975. Basic factors influencing red tides. Proceedings of the First International Conference on Toxic Dinoflagellate Blooms, Boston. Massachusetts Science and Technology Foundation, pp. 153-162.

Steidinger, K.A., Ingle, R.M., 1972. Observations on the 1971 summer red tide in Tampa Bay, Florida. Environmental Letters 3, 271-278. DOI: 10.1080/00139307209435473.

Steidinger, K.A., Vargo, G.A., 1988. Marine dinoflagellate blooms: dynamics and impacts. In: Lembi, C.A., Waaland, J.R. (Eds.), Algae and Human Affairs. Cambridge University Press, New York, pp. 373-401.

Stein, B.A., 2007. Bridging the gap: incorporating science-based information into land use planning. In: Kihslinger, R., Wilkinson, J. (Eds.), Lasting Landscapes: Reflections on the Role of Conservation Science in Land Use Planning. Environmental Law Institute, Washington, D.C. pp. 52-58.

Stenert, C., Bacca, R.C., Mostardeiro, C.C., Maltchik, L., 2008. Environmental predictors of macroinvertebrate communities in coastal wetlands of southern Brazil. Marine and Freshwater Research 59, 540-548. http://dx.doi.org/10.1071/MF07220.

Stevens, P.W., Blewett, D.A., Casey, J.P., 2006. Short-term effects of a low dissolved oxygen event on estuarine fish assemblages following the passage of Hurricane Charley. Estuaries and Coasts 29, 997-1003.

Stevenson, J.O., Griffith, R.W., 1946. Winter life of the whooping crane. Condor 48, 178.

Stewart, R.E., 1951. Clapper rail populations of the Middle Atlantic States. Transactions of the North American Wildlife Conference 16, 421-430.

Stickney, R.R., White, D.B., 1974. Effects of salinity on the growth of Paralichthys lethostigma postlarvae reared under aquaculture conditions. Proceedings of the Twenty-Seventh Annual Conference, Southeastern Association of Game and Fish Commissioners. Columbia, S.C., pp. 532-540.

Stockwell, D.A., 1989. Effects of Freshwater Inflow on the Primary Production of a Texas Coastal Bay System. Final Report. University of Texas Marine Science Institute, Port Aransas, Texas, 180 pp.

Stockwell, D.A., Buskey, E.J., Whitledge, T.E., 1993. Studies on conditions conducive to the developmental and maintenance of a persistent 'brown tide' in Laguna Madre, Texas. In: Smayda, T.J., Shimizu, Y. (Eds.), Toxic Phytoplankton Blooms in the Sea. Proceedings of the Fifth International Conference on Toxic Marine Phytoplankton. Elsevier Science Publishers, Amsterdam, pp. 693-698.

Stokes, G.M., 1977. Life History Studies of Southern Flounder (Paralichthys lethostigma) and Gulf Flounder (P. albigutta) in the Aransas Bay Area of Texas. Technical Series Number 25. Texas Parks and Wildlife Department, Austin, 37 pp.

Stoms, D.M., Davis, F.W., Andelman, S.J., Carr, M.H., Gaines, S.D., Halpern, B.S., Hoenicke, R., Leibowitz, S.G., Leydecker, A., Madin, E.M.P., Tallis, H., Warner, R.R., 2005. Integrated coastal reserve planning: making the land-sea connection. Frontiers in Ecology and the Environment 3, 429-436.

Stoner, A.W., Manderson, J.P., Pessutti, J.P., 2001. Spatially explicit analysis of estuarine habitat for juvenile winter flounder: combining generalized additive models and geographic information systems. Marine Ecology Progress Series 213, 253-271. http://dx.doi.org/10.3354/meps213253.

Strickland, J.D.H., Parsons, T.R., 1972. A Practical Handbook of Seawater Analysis, 2nd ed. Bulletin 167, Fisheries Research Board of Canada, Ottawa, 310 pp.

Strom, S.L., 2008. Microbial ecology of ocean biogeochemistry: a community perspective. Science 320, 1043-1045.

Stunz, G.W., Linton, T.L., Colura, R.L., 2000. Age and growth of southern flounder in Texas waters, with emphasis on Matagorda Bay. Transactions of the American Fisheries Society 129, 119-125.

Sugg, L.M., VanDolah, F.M., 1999. No evidence for an allelopathic role of okadaic acid among ciguatera-associated dinoflagellates. Journal of Phycology 35, 93-103. DOI: 10.1046/j.1529-8817.1999.3510093.x.

Sun, C.C., Wang, Y.S., Wu, M.L., Dong, J.D., Wang, Y.T., Sun, F.L., Zhang, Y.Y., 2011. Seasonal variation of water quality and phytoplankton response patterns in Daya Bay, China. International Journal of Environmental Research and Public Health 8, 2951-2966.

Sun, M.Y., Aller, R.C., Lee, C., Wakeham, S.G., 2002. Effects of oxygen and redox oscillation on degradation of cell-associated lipids in surficial marine sediments. Geochimica et Cosmochimica Acta 66, 2003-2012. http://dx.doi.org/10.1016/S0016-7037(02)00830-X.

Suryanarayana, I., Braibanti, A., Sambasiva Rao, R., Anantha Ramam, V., Sudarsan, D., Nageswara Rao, G., 2008. Neural networks in fisheries research. Fisheries Research 92, 115-139.

Suttle, C.A., 1993. Enumeration and isolation of viruses. In: Kemp, P.F., Sherr, B.F., Sherr, E.B., Cole, J.J. (Eds.), Handbook of Methods in Aquatic Microbial Ecology. Lewis Publishers, Boca Raton, pp. 121-134.

Sutton, G., Wagner, T., 2007. Stock Assessment of Blue Crab (Callinectes sapidus) in Texas coastal waters. Management Data Series No. 249. Texas Parks and Wildlife Department, Coastal Fisheries Division, Austin, Texas, 45 pp.

Swanson, K.M., 2008. The 2008 Texas Dinophysis acuminata Bloom: Distribution and Toxicity. M.S. Thesis, The University of Texas at Austin, 101 pp.

Swanson, R.L., Thurlow, C.I., 1973. Recent subsidence rates along the Texas and Louisiana coasts as determined from tide measurements. Journal of Geophysical Research 78, 2665-2671. DOI:10.1029/JC078i015p02665.

T-

Tallaksen, L.M., Madsen, H., Clausen, B., 1997. On the definition and modelling of streamflow drought duration and deficit volume. Hydrological Sciences Journal 42, 15-33.

Tango, P., Butler, W., Lacouture, R., Goshorn, D., Magnien, R., Michael, B., Hall, S., Browhawn, K., Wittman, R., Betty, W., 2004. An unprecedented bloom of Dinophysis acuminata in Chesapeake Bay. Harmful Algae 2002: Proceedings of the 10th International Conference on Harmful Algae. Florida Fish and Wildlife Conservation Commission, Florida Institute of Oceanography, St. Petersburg, Florida, and IOC-UNESCO, Paris, pp. 358-363.

Taylor, P.H., 2008. Gulf of Maine Ecosystem-Based Management Toolkit Survey Report. Gulf Maine Council on the Marine Environment. http://www.gulfofmaine.org/ebm. 35 pp.

Teegarden, G.J., 1999. Copepod grazing selection and particle discrimination on the basis of PSP toxin content. Marine Ecology Progress Series 181, 163-176. DOI:10.3354/meps181163.

Teegarden, G.J., Campbell, R.G., Durbin, E.G., 2001. Zooplankton feeding behavior and particle selection in natural plankton assemblages containing toxic Alexandrium spp. Marine Ecology Progress Series 218, 213-226.

Teeri, J.A., Stowe, L.G., 1976. Climatic patterns and the distribution of C4 grasses in North America. Oecologia 23, 1-12. doi:10.1007/BF00351210.

Tester, P.A., Steidinger, K.A., 1997. Gymnodinium breve red tide blooms: initiation, transport, and consequences of surface circulation. Limnology and Oceanography 42, 1039-1051.

Texas Commission on Environmental Quality (TCEQ), 2008. Texas Water Quality Inventory and 303(d) List. WWW Page, www.tceq.state.tx.us/compliance/monitoring/water/quality/data/wqm/305_303.html#y2008. Accessed 15 October 2009.

Texas Commission on Environmental Quality (TCEQ), 2009a. 2000 Texas Surface Water Quality Standards. WWW Page, www.tceq.state.tx.us/permitting/water_quality/wq_assessment/standards/WQ_standards_2000.html. Accessed 19 November 2009.

Texas Commission on Environmental Quality (TCEQ), 2009b. Find a TMDL Program by County. WWW Page, www.tceq.state.tx.us/implementation/water/tmdl/nav/tmdlcounties.html. Accessed 15 October 2009.

Texas Department of Water Resources (TDWR), 1982. The Influence of Freshwater Inflows Upon the Major Bays and Estuaries of the Texas Gulf Coast: Executive Summary. 2nd ed. Report LP-115. Texas Department of Water Resources, Austin, Texas, 1 v.

Texas General Land Office, 2005. Coastal Texas 2020: A Clear Vision for the Texas Coast: Executive Summary. Texas General Land Office, Austin, 17 pp.

Texas Natural Resource Conservation Commission (TNRCC), 1994. Water Quality of the Nueces Coastal Basins.

Texas Parks and Wildlife Department (TPWD), 1999. Seagrass Conservation Plan for Texas. Texas Parks and Wildlife Department, Resource Protection Division, Austin, 79 pp.

Texas Parks and Wildlife Department (TPWD), 2000. Annotated County Lists of Rare Species. Wildlife Diversity Program, Wildlife Division, Austin, Texas.

Texas Parks and Wildlife Department (TPWD), 2009a. Land and Water. WWW Page, http://www.tpwd.state.tx.us. Accessed October 2009.

Texas Parks and Wildlife Department (TPWD), 2009b. Wildlife Facts Sheets. WWW Page, http://www.tpwd.state.tx.us/huntwild/wild/species. Accessed November 5, 2012.

Texas Parks and Wildlife Department (TPWD), 2010. Freshwater Inflow and Estuaries. WWW Page, http://www.tpwd.state.tx.us/landwater/water/conservation/freshwater_inflow/. Accessd January 25, 2010.

Texas State Historical Association (TSHA), 2010a. The Handbook of Texas Online. WWW Page, http://www.tshaonline.org/handbook/online/index.html. Accessed 7 April 2010.

Texas State Historical Association (TSHA), 2010b. Texas Almanac. WWW Page, http://www.texasalmanac.com. Accessed May 7, 2010.

Texas Water Development Board (TWDB), 2007a. 2007 State Water Plan. WWW Page, http://twdb.state.tx.us/wrpi/swp/swp.asp. Accessed 18 August 2010.

Texas Water Development Board (TWDB), 2007b. Water for Texas, 2007. Document GP-8-1. Texas Water Development Board, Austin, Texas. 2 v.

Thamdrup, B., Glud, R.N., Hansen, J.W., 1994. Manganese oxidation and in situ manganese fluxes from a coastal sediment. Geochimica et Cosmochimica Acta 58, 2563-2570.

Thompson, S., Eglinton, G., 1978. The fractionation of a recent sediment for organic geochemical analysis. Geochimica et Cosmochimica Acta 42, 199-207. http://dx.doi.org/10.1016/0016-7037(78)90132-1.

Thuiller, W., 2007. Biodiversity: climate change and the ecologist. Nature 448, 550-552. http://dx.doi.org/10.1038/448550a.

Tietje, W.D., Teer, J.G., 1996. Winter feeding ecology of northern shovelers on freshwater and saline wetlands in south Texas. The Journal of Wildlife Management 60, 843-855.

Tolan, J., Nelson, J., German, D., Kuhn, N., 2011. Multivariate Methodology Assessment of Two Tidal Streams Within the San Antonio-Nueces Coastal Basin: Final Report on the Mission and Aransas Rivers. Texas Parks and Wildlife Department, Austin, Texas, 258 pp.

Tolan, J.M., 2007. El Niño-Southern Oscillation impacts translated to the watershed scale: estuarine salinity patterns along the Texas Gulf Coast, 1982 to 2004. Estuarine, Coastal and Shelf Science 72, 247-260. http://dx.doi.org/10.1016/j.ecss.2006.10.018.

Tolan, J.M., 2013. Estuarine fisheries community-level response to freshwater inflows. In: Wurbs, R. (Ed.), Water Resources Planning, Development and Management. InTech, pp. 73-94.

Tomasko, D.A., Lapointe, B.E., 1991. Productivity and biomass of Thalassia testudinum as related to water column nutrient availability and epiphyte levels: field observations and experimental studies. Marine Ecology Progress Series 75, 9-17.

Tomlinson, P.B., 1986. The Botany of Mangroves. Cambridge University Press, Cambridge, UK, New York, 413 pp.

Trebatoski, B., 1988. Observations on the 1986-1987 Texas Red Tide (Ptychodiscus brevis). Report 88-02. Texas Water Commission, Austin, Texas, 48 pp.

Trefry, J.H., Presley, B.J., 1982. Manganese fluxes from Mississippi Delta sediments. Geochimica et Cosmochimica Acta 46, 1715-1726. http://dx.doi.org/10.1016/0016-7037(82)90112-0.

Tremblay, J.E., Legendre, L., 1994. A model for the size-fractionated biomass and production of marine phytoplankton. Limnology and Oceanography 39, 2004-2014.

Tremblay, T.A., Vincent, J.S., Calnan, T.R., 2008. Status and Trends of Inland Wetland and Aquatic Habitat in the Corpus Christi Area. Publication CBBEP-55. Bureau of Economic Geology, The University of Texas at Austin, 89 pp.

Tunnell Jr., J.W., 2002. The Environment. In: Tunnell Jr., J.W., Judd, F.W. (Eds.), The Laguna Madre of Texas and Tamaulipas, Texas A&M University Press, College Station, pp. 73-84.

Tunnell Jr., J.W., Dokken, Q.R., Smith, E.H., Withers, K., 1996. Current Status and Historical Trends of the Estuarine Living Resources Within the Corpus Christi Bay National Estuary Program Study Area, Volume 1. Publication CCBNEP 06-A. Texas Natural Resource Conservation Commission, Austin, 1 v.

Turner, J.T., Roff, J.C., 1993. Trophic levels and trophospecies in marine plankton: lessons from the microbial food web. Marine Microbial Food Webs 7, 225-248.

Turner, R.E., Rabalais, N.N., 2003. Linking landscape and water quality in the Mississippi River basin for 200 years. BioScience 53, 563-572.

Turriff, N., Runge, J.A., Cembella, A.D., 1995. Toxin accumulation and feeding behaviour of the planktonic copepod Calanus finmarchicus exposed to the red-tide dinoflagellate Alexandrium excavatum. Marine Biology 123, 55-64. doi:10.1007/BF00350323.

Twilley, R.R., Barron, E.J., Gholz, H.L., Harwell, M.A., Miller, R.L., Reed, D.J., Rose, J.B., Siemann, E.H., Wetzel, R.G., Zimmerman, R.J., 2001. Confronting Climate Change in the Gulf Coast Region: Prospects for Sustaining Our Ecological Heritage. Union of Concerned Scientists, Cambridge, Massachusetts, and Ecological Society of America, Washington, D.C., 82 pp.

Twilley, R.R., Cowan, J., Miller-Way, T., Montagna, P.A., Mortazavi, B., 1999. Benthic nutrient fluxes in selected estuaries in the Gulf of Mexico.   In: Bianchi, T.S., Pennock, J.R., Twilley, R.R. (Eds.), Biogeochemistry of Gulf of Mexico Estuaries. John Wiley, New York, pp. 163-209.

Twomey, L.J., Piehler, M.F., Paerl, H.W., 2005. Phytoplankton uptake of ammonium, nitrate and urea in the Neuse River Estuary, NC, USA. Hydrobiologia 533, 123-134. http://dx.doi.org/10.1007/s10750-004-2403-z.

U-

U.S. Census Bureau, 2000. Census 2000 Summary File 1 and 3, Texas.

U.S. Census Bureau, 2007. Population Estimates.

U.S. Census Bureau, 2008. 2008 American Community Survey, Data Profile, Texas.

U.S. Dept. of Agriculture, National Resources Conservation Service (USDA-NRCS), 1986. Urban Hydrology for Small Watersheds. Technical release no. 55 (TR-55). U.S. Dept. of Agriculture, Soil Conservation Service, Engineering Division, Washington, D.C.

U.S. Dept. of Commerce, NOAA National Ocean Service, Office of Ocean and Coastal Resource Management, Estuarine Reserves Division, 2006. Final Programmatic Environmental Impact Statement: Federal Approval of the Texas National Estuarine Research Reserve and Management Plan, the Mission-Aransas Estuary. National Oceanic and Atmospheric Administration, Silver Spring, MD, 1 v.

U.S. Environmental Protection Agency, 1986. Ambient Water Quality Criteria for Bacteria. EPA 440/5-84-002. Office of Water Regulations and Standards, Criteria and Standards Division, U.S. Environmental Protection Agency, Washington, D.C., 18 pp.

U.S. Environmental Protection Agency, 2009. Water discharge permits (PCS). WWW Page, http://www.epa.gov/enviro/html/pcs/adhoc.html. Accessed 18 April 2008.

Uhrin, A.V., Holmquist, J.G., 2003. Effects of propeller scarring on macrofaunal use of the seagrass Thalassia testudinum. Marine Ecology Progress Series 250, 61-70.

Union of Concerned Scientists (UCS), 2009. Gulf Coast's Ecological Heritage at Risk, The Gulf States. WWW Page, http://www.ucsusa.org/gulf/gcstatetex_cli.html. Accessed May 24, 2011.

University of Queensland, 2008. Systematic Conservation Planning with Marxan and Marzone. University of Queensland, Brisbane, Australia.

University of Utah Climatology Database, 2009. Department of Meteorology, National normal monthly rainfall. WWW
 Page, http://www.met.utah.edu/jhorel/html/wx/climate/normrain.html. Accessed 28 June 2009.

Uye, S., 1986. Impact of copepod grazing on the red-tide flagellate Chattonella antiqua. Marine Biology 92, 35-43.

V-

Valiela, I., Foreman, K., LaMontagne, M., Hersh, D., Costa, J., Peckol, P., Demeo-Anderson, B., D'Avanzo, C., Babione, M., Sham, C.-H., Brawley, J., Lajtha, K., 1992. Couplings of watersheds and coastal waters: sources and consequences of nutrient enrichment in Waquoit Bay, Massachusetts. Estuaries 15, 443-457.

Valiela, I., McClelland, J., Hauxwell, J., Behr, P.J., Hersh, D., Foreman, K., 1997. Macroalgal blooms in shallow estuaries: controls and ecophysiological and ecosystem consequences. Limnology and Oceanography 42, 1105-1118.

van der Veer, H.W., Berghahn, R., Miller, J.M., Rijnsdorp, A.D., 2000. Recruitment in flatfish, with special emphasis on North Atlantic species: progress made by the Flatfish Symposia. ICES Journal of Marine Science 57, 202-215.

VanderKooy, S.J., 2000. The Flounder Fishery of the Gulf of Mexico, United States: A Regional Management Plan. Gulf States Marine Fisheries Commission (Series) No. 83. Gulf States Marine Fisheries Commission, Ocean Springs, Mississippi, 1 v.

Vaquer-Sunyer, R., Duarte, C.M., 2008. Thresholds of hypoxia for marine biodiversity. Proceedings of the National Academy of Sciences 105, 15452-15457. http://dx.doi.org/10.1073/pnas.0803833105.

Vaulot, D., 1992. Estimate of phytoplankton division rates by the mitotic index method: the fmax approach revisited. Limnology and Oceanography 37, 644-649.

Venner, M., Cox, S., Batt, L., Denbow, T., 2009. Integration of Conservation, Highway Planning, and Environmental Permitting Using an Outcome-Based Ecosystem Approach. Phase I Interim Report. Transportation Research Board of the National Acadamies.

Verardo, D.J., Froelich, P.N., McIntyre, A., 1990. Determination of organic carbon and nitrogen in marine sediments using the Carlo Erba NA-1500 analyzer. Deep-Sea Research Part A. Oceanographic Research Papers 37, 157-165. doi: 10.1016/0198-0149(90)90034-S.

Verity, P.G., 2002. A decade of change in the Skidaway River Estuary. I. Hydrography and nutrients. Estuaries 25, 944-960.

Vigil, P., Countway, P.D., Rose, J., Lonsdale, D.J., Gobler, C.J., Caron, D.A., 2009. Rapid shifts in dominant taxa among microbial eukaryotes in estuarine ecosystems. Aquatic Microbial Ecology 54, 83-100.

Vitousek, P.M., Aber, J.D., Howarth, R.W., Likens, G.E., Matson, P.A., Schindler, D.W., Schlesinger, W.H., Tilman, D.G., 1997. Human alteration of the global nitrogen cycle: sources and consequences. Ecological Applications 7, 737-750. http://dx.doi.org/10.1890/1051-0761(1997)007[0737:HAOTGN]2.0.CO;2.

Vitousek, P.M., Cassman, K., Cleveland, C., Crews, T., Field, C.B., Grimm, N.B., Howarth, R.W., Marino, R., Martinelli, L., Rastetter, E.B., Sprent, J.I., 2002. Towards an ecological understanding of biological nitrogen fixation. Biogeochemistry 57/58, 1-45. http://dx.doi.org/10.1023/A:1015798428743.

W-

Wakeham, S.G., Canuel, E.A., Lerberg, E.J., Mason, P., Sampere, T.P., Bianchi, T.S., 2009. Partitioning of organic matter in continental margin sediments among density fractions. Marine Chemistry 115, 211-225. http://dx.doi.org/10.1016/j.marchem.2009.08.005.

Wakeham, S.G., Lee, C., 1993. Production, transport, and alteration of particulate organic matter in the marine water column. In: Engel, M.H., Macko, S.A. (Eds.), Organic Geochemistry: Principles and Applications. Plenum Press, New York, pp. 145-169. 

Walker, D., Daniels, T.L., 2011. The Planners Guide to CommunityViz: The Essential Tool for a New Generation of Planning. American Planning Association, Chicago. 274 pp.

Walker, S.P., Garfield, N.H., 2005. Recommended Guidelines for Adoption and Implementation of the NERRS Comprehensive Habitat and Land Use Classification System. Companion document to: A Recommendation for a Comprehensive Habitat and Land Use Classification System for the National Estuarine Research Reserve System (NERRS).

Walling, D.E., 1999. Linking land use, erosion and sediment yields in river basins. Hydrobiologia 410, 223-240. http://dx.doi.org/10.1023/A:1003825813091

Walsh, H.J., Peters, D.S., Cyrus, D.P., 1999. Habitat utilization by small flatfishes in a North Carolina estuary. Estuaries 22, 803-813. http://www.jstor.org/stable/1353113.

Walters, J., Breiland, C., Jimenez, G., Lee, R., Roth, N., Porter, R., 2012. Improved Data and Tools for Integrated Land Use-Transportation Planning in California. Final overview report. Urban Land Use and Transportation Center, Institute of Transportation Studies, University of California, Davis. http://ultrans.its.ucdavis.edu/projects/improved-data-and-tools-integrated-land-use-transportation-planning-california.

Walther, B.D., Nims, M.K., 2014. Spatiotemporal variation of trace elements and stable isotopes in subtropical estuaries: I. Freshwater endmembers and mixing curves. Estuaries and Coasts. http://dx.doi.org/ 10.1007/s12237-014-9881-7.

Wang, Y.S., Lou, Z.P., Sun, C.C., Wu, M.L., Han, S.H., 2006. Multivariate statistical analysis of water quality and phytoplankton characteristics in Daya Bay, China, from 1999 to 2002. Oceanologia 48, 193-211.

Wang, Z.D., Fingas, M., Page, D.S., 1999. Oil spill identification. Journal of Chromatography A 843, 369-411. http://dx.doi.org/10.1016/S0021-9673(99)00120-X.

Ward, G.H., 2010. Inflows to San Antonio Bay. Center for Research in Water Resources, University of Texas at Austin, Texas, 91 pp.

Ward, G.H., 2011. Water resources and water supply. In: Schmandt, J., North, G.R., Clarkson J. (Eds.), The Impact of Global Warming on Texas. 2nd ed. University of Texas Press, Austin, TX, pp. 69-95. 

Ward, G.H., Armstrong, N.E., 1997. Ambient Water, Sediment, and Tissue Quality of the Corpus Christi Bay Study Area: Present Status and Historical Trends. Publication CCBNEP-23. Texas Natural Resource Conservation Commission, Austin, Texas, 807 pp.

Wardle, W.J., Ray, S.M., Aldrich, A.S., 1975. Mortality of marine organisms associated with offshore summer blooms of the toxic dinoflagellate Gonyaulax monilata Howell at Galveston, Texas. Proceedings of the First International Conference on Toxic Dinoflagellate Blooms, Boston, Massachusetts, pp. 257-263.

Warner, C.A., 1939. Texas Oil and Gas Since 1543. Gulf Publishing Co., Houston, 487 pp.

Water Resources Authority, 2008. Accessed 3/3/2008. WWW Page, http://www.wra-ja.org/glossary/index.htm.

Watts, M.E., Ball, I.R., Stewart, R.S., Klein, C.J., Wilson, K., Steinback, C., Lourival, R., Kircher, L., Possingham, H.P., 2009. Marxan with Zones: software for optimal conservation based land- and sea-use zoning. Environmental Modelling & Software 24, 1513-1521. http://dx.doi.org/10.1016/j.envsoft.2009.06.005.

Webster, P.J., Holland, G.J., Curry, J.A., Chang, H.-R., 2005. Changes in tropical cyclone number, duration, and intensity in a warming environment. Science 309, 1844-1846.

Weigle, S.M., Smith, L.D., Carlton, J.T., Pederson, J., 2005. Assessing the risk of introducing exotic species via the live marine species trade. Conservation Biology 19, 213-223.

Weiher, E., Keddy, P., 1999. Ecological Assembly Rules: Perspectives, Advances, Retreats. Cambridge University Press, Cambridge, New York, 418 pp.

Wen, L.-S., Santschi, P., Gill, G., Paternostro, C., 1999. Estuarine trace metal distributions in Galveston Bay: importance of colloidal forms in the speciation of the dissolved phase. Marine Chemistry 63, 185-212. http://dx.doi.org/10.1016/S0304-4203(98)00062-0.

Wentz, F.J., Ricciardulli, L., Hilburn, K., Mears, C., 2007. How much more rain will global warming bring? Science 317, 233-235.

West Coast Governors Alliance on Ocean Health, 2006. West Coast Governor's Agreement on Ocean Health. http://www.westcoastoceans.org/index.cfm?content.display&pageID=71.

Weston, N.B., Giblin, A.E., Banta, G.T., Hopkinson, C.S., Tucker, J., 2010. The effects of varying salinity on ammonium exchange in estuarine sediments of the Parker River, Massachusetts. Estuaries and Coasts 33, 985-1003. http://dx.doi.org/10.1007/s12237-010-9282-5.

Wetz, M.S., Hutchinson, E.A., Lunetta, R.S., Paerl, H.W., Taylor, J.C., 2011. Severe droughts reduce estuarine primary productivity with cascading effects on higher trophic levels. Limnology and Oceanography 56, 627-638. http://dx.doi.org/10.4319/lo.2011.56.2.0627.

Wetz, M.S., Paerl, H.W., 2008. Estuarine phytoplankton responses to hurricanes and tropical storms with different characteristics (trajectory, rainfall, winds). Estuaries and Coasts 31, 419-429. http://dx.doi.org/10.1007/s12237-008-9034-y. 

Wetzel, R.G., 2001. Fundamental processes within natural and constructed wetland ecosystems: short-term versus long-term objectives. Water Science and Technology 44, 1-8.

Whaley, S.D., Burd, J.J., Robertson, B.A., 2007. Using estuarine landscape structure to model distribution patterns in nekton communities and in juveniles of fishery species. Marine Ecology Progress Series 330, 83-99. PDF (OA)

White, D.H., Cromartie, E., 1985. Bird use and heavy metal accumulation in waterbirds at dredge disposal impoundments, Corpus Christi, Texas. Bulletin of Environmental Contamination and Toxicology 34, 295-300. DOI: 10.1007/BF01609738.  

White, W.A., Calnan, T.R., Morton, R.A., Kimble, R.S., Littleton, T.G., McGowen, J.H., Nance, H.S., 1989. Submerged Lands of Texas, Port Lavaca Area: Sediments, Geochemistry, Benthic Macroinvertebrates, and Associated Wetlands. Bureau of Economic Geology, The University of Texas at Austin, 165 pp.

White, W.A., Calnan, T.R., Morton, R.A., Kimble, R.S., Littleton, T.G., McGowen, J.H., Nance, H.S., Schmedes, K.E., 1983. Submerged Lands of Texas, Corpus Christi Area: Sediments, Geochemistry, Benthic Macroinvertebrates and Associated Wetlands. Bureau of Economic Geology, The University of Texas at Austin, 154 pp.

White, W.A., Morton, R.A., Holmes, C.W., 2002. A comparison of factors controlling sedimentation rates and wetland loss in fluvial-deltaic systems, Texas Gulf coast. Geomorphology 44, 47-66.

White, W.A., Morton, R.A., Kerr, R.S., Kuenzi, W.D., Brogden, W.B., 1978. Land and Water Resources, Historical Changes, and Dune Criticality: Mustang and North Padre Islands, Texas. Bureau of Economic Geology, The University of Texas at Austin, 46 pp.

White, W.A., Tremblay, T.A., Hinson, J., Moulton, D.W., Pulich Jr., W.J., Smith, E.H., Jenkins, K.V., 1998. Current Status and Historical Trends of Selected Estuarine and Coastal Habitats in the Corpus Christi Bay National Estuary Program Study Area. Publication CCBNEP 29. Texas Natural Resource Conservation Commission, Austin, Texas, 161 pp.

White, W.A., Tremblay, T.A., Waldinger, R.L., Calnan, T.R., 2002. Status and Trends of Wetland and Aquatic Habitats on Texas Barrier Islands, Matagorda Bay to San Antonio Bay. Final Report prepared for the Texas General Land Office and National Oceanic and Atmospheric Association, GLO Contract No. 01-241-R, 66 pp.

White, W.A., Tremblay, T.A., Waldinger, R.L., Calnan, T.R., 2006. Status and Trends of Wetland and Aquatic Habitats on Texas Barrier Islands Coastal Bend. Final report, No. NA04NOS4190058, Bureau of Economic Geology, The University of Texas at Austin, 64 pp.

Whitfield, P.E., Kenworthy, W.J., Hammerstrom, K.K., Fonseca, M.S., 2002. The role of a hurricane in the expansion of disturbances initiated by motor vessels on seagrass banks. Journal of Coastal Research, Special Issue 37, 86-99. http://www.jstor.org/stable/25736345.

Whitledge, T.E., 1993. The nutrient and hydrographic conditions prevailing in Laguna Madre, Texas before and during a brown tide bloom. In: Smayda, T.J., Shimizu, Y. (Eds.), Toxic Phytoplankton Blooms in the Sea. Proceedings of the Fifth International Conference on Toxic Marine Phytoplankton. Elsevier Science Publishers, Amsterdam, pp. 711-716.

Whitledge, T.E., Stockwell, D.A., 1995. Effects of nutrient distributions on phytoplankton in lower Laguna Madre: with particular reference to brown tide. Technical report No. 95-004. University of Texas Marine Science Institute, Port Aransas, Texas, 49 pp.

Wigglesworth, J.C., 2003. What is the best route? Route-finding strategies of middle school students using GIS. Journal of Geography 102, 282-291.

Wilks, D.S., 2006. Statistical Methods in the Atmospheric Sciences: An Introduction. Academic Press, Oxford, 627 pp.

Williams, H.F.L., 1999. Sand-spit erosion following interruption of longshore sediment transport: Shamrock Island, Texas. Environmental Geology 37, 153-161.

Williams, P.J.leB., 1981. Microbial contribution to overall marine plankton metabolism: direct measurements of respiration. Oceanologica Acta 4, 359-364.

Wilson, A.D., Lester, D.G., 2002. Trench inserts as long-term barriers to root transmission for control of oak wilt. Plant Disease 86, 1067-1074. http://dx.doi.org/10.1094/PDIS.2002.86.10.1067.

Wilson, J.G., 2002. Productivity, fisheries and aquaculture in temperate estuaries. Estuarine, Coastal and Shelf Science 55, 953-967.

Witek, M., 1998. Annual changes of abundance and biomass of planktonic ciliates in the Gdańsk Basin, southern Baltic. International Review of Hydrobiology 83, 163-182.

Withers, K., 2002. Wind-tidal flats. In: Tunnell Jr., J.W., Judd, F.W. (Eds.), The Laguna Madre of Texas and Tamaulipas, Texas A&M University Press, College Station, pp. 114-126.

Withers, K., Tunnell Jr., J.W., 1998. Identification of Tidal Flat Alterations and Determination of Effects on Biological Productivity of These Habitats within the Coastal Bend. Publication CCBNEP-26. Texas Natural Resource Conservation Commission, Austin, 171 pp.

Woodin, M.C., 1994. Use of saltwater and freshwater habitats by wintering redheads in southern Texas. Hydrobiologia 279/280, 279-287. DOI: 10.1007/BF00027861.

Woodward, G., Gessner, M.O., Giller, P.S., Gulis, V., Hladyz, S., Lecerf, A., Malmqvist, B., McKie, B.G., Tiegs, S.D., Cariss, H., Dobson, M., Elosegi, A., Ferreira, V., Graça, M.A.S., Fleituch, T., Lacoursière, J.O., Nistorescu, M., Pozo, J., Risnoveanu, G., Schindler, M., Vadineanu, A., Vought, L.B.-M., Chauvet, E., 2012. Continental-scale effects of nutrient pollution on stream ecosystem functioning. Science 336, 1438-1440. http://dx.doi.org/10.1126/science.1219534.

Woodwell, G.M., Rich, P.H., Hall, C.A.S., 1973. Carbon in estuaries. In: Woodwell, G.M., Pecan, E.V. (Eds.), Carbon and the Biosphere: Proceedings of the 24th Brookhaven Symposium in Biology, Upton, N.Y., pp. 221-240.

Woods and Poole Economics, Inc. (W&PE), 2003. 2003 Desktop Data Files. Woods and Poole Economics, Washington, DC.

World Resources Institute (WRI), 2000. World Resources: 2000-2001. World Resources Institute, Washington, DC.

Worm, B., Barbier, E.B., Beaumont, N., Duffy, J.E., Folke, C., Halpern, B.S., Jackson, J.B.C., Lotze, H.K., Micheli, F., Palumbi, S.R., Sala, E., Selkoe, K.A., Stachowicz, J.J., Watson, R., 2006. Impacts of biodiversity loss on ocean ecosystem services. Science 314, 787-790. DOI: 10.1126/science.1132294.

Worm, B., Lotze, H.K., 2009. Changes in marine biodiversity as an indicator of climate change. In: Letcher, T.M.(Ed.), Climate Change : Observed Impacts on Planet Earth. Elsevier, Amsterdam, Boston, pp. 263-279.

Wright, J.P., Jones, C.G., 2006. The concept of organisms as ecosystem engineers ten years on: progress, limitations, and challenges. BioScience 56, 203-209.

X-

 Xue, J.H., Lee, C., Wakeham, S.G., Armstrong, R.A., 2011. Using principal components analysis (PCA) with cluster analysis to study the organic geochemistry of sinking particles in the ocean. Organic Geochemistry 42, 356-367. http://dx.doi.org/10.1016/j.orggeochem.2011.01.012.

Y-

Yasumoto, T., Murata, M., Oshima, Y., Sano, M., Matsumoto, G.K., Clardy, J., 1985. Tetrahedron 41, 1019-1025.

Yasumoto, T., Oshima, Y., Sugawara, W., Fukuyo, Y., Oguri, H., Igarashi, T., Fujita, N., 1980. Identification of Dinophysis fortii as the causative organism of diarrhetic shellfish poisoning. Bulletin of the Japanese Society of Scientific Fisheries 46, 1405-1411.

Yeager, K.M., Santschi, P.H., Schindler, K.J., Andres, M.J., Weaver, E.A., 2006. The relative importance of terrestrial versus marine sediment sources to the Nueces-Corpus Christi Estuary, Texas: an isotopic approach. Estuaries and Coasts 29, 443-454.

Yu, C.P., Ahuja, R., Sayler, G., Chu, K., 2005. Quantitative molecular assay for fingerprinting microbial communities of wastewater and estrogen-degrading consortia. Applied and Environmental Microbiology 71, 1433-1444.

Yunker, M.B., Belicka, L.L., Harvey, H.R., Macdonald, R.W., 2005. Tracing the inputs and fate of marine and terrigenous organic matter in Arctic Ocean sediments: a multivariate analysis of lipid biomarkers. Deep Sea Research Part II: Topical Studies in Oceanography 52, 3478-3508. http://dx.doi.org/10.1016/j.dsr2.2005.09.008.

Yunker, M.B., Macdonald, R.W., Veltkamp, D.J., Cretney, W.J., 1995. Terrestrial and marine biomarkers in a seasonally ice-covered Arctic estuary -- integration of multivariate and biomarker approaches. Marine Chemistry 49, 1-50. http://dx.doi.org/10.1016/0304-4203(94)00057-K.

Z-

Zedler, J.B., 1990. A Manual for Assessing Restored and Natural Coastal Wetlands: With Examples From Southern California. California Sea Grant Report No. T-CSGCP-021. California Sea Grant College, La Jolla, California, 105 pp.

Zedler, J.B., 2000. Handbook for Restoring Tidal Wetlands. CRC Press, Boca Raton, Florida, 439 pp.

Zeileis, A., Hothorn, T., 2002. Diagnostic checking in regression relationships. R News 2, 7-10.

Zerger, A., Bishop, I.D., Escobar,F., Hunter, G.J., 2002. A self-learning multimedia approach for enriching GIS education. Journal of Geography in Higher Education 26, 67-80.

Zervas, C.E., 2001. Sea Level Variations of the United States, 1854-1999. U.S. Dept. of Commerce, National Oceanic and Atmospheric Administration, National Ocean Service, Silver Spring, Md. 66 pp.

Zhang, J., 1995. Geochemistry of trace metals from Chinese river/estuary systems: an overview. Estuarine, Coastal and Shelf Science 41, 631-658. http://dx.doi.org/10.1006/ecss.1995.0082.

Zhang, Y.L., Wang, K.F., Li, Z., Liu, L.F., 1997. Studies on pollen morphology of Sonneratia genus in China and its paleoecological environment significance. [In Chinese with English abstract.] Marine Geology & Quaternary Geology 17, 47-52. 

Zhou, S., Smith, A.D.M., Punt, A.E., Richardson, A.J., Gibbs, M., Fulton, E.A., Pascoe, S., Bulman, C., Bayliss, P., Sainsbury, K., 2010. Ecosystem-based fisheries management requires a change to the selective fishing philosophy. Proceedings of the National Academy of Sciences 107, 9485-9489. http://dx.doi.org/10.1073/pnas.0912771107.

Zieman, J.C., 1975. Tropical sea grass ecosystems and pollution. In. Wood, E.J.F., Johannes, R.E. (Eds.), Tropical Marine Pollution. Elsevier Scientific Publishing, New York, pp. 63-74.

Zieman, J.C., 1976. The ecological effects of physical damage from motor boats on turtle grass beds in southern Florida. Aquatic Botany 2, 127-139. doi: 10.1016/0304-3770(76)90015-2.

Zimmerman, R.J., Minello, T.J., Klima, E.F., Nance, J.M., 1991. Effects of accelerated sea-level rise on coastal secondary production. Coastal zone '91: Proceedings of the Seventh Symposium on Coastal and Ocean Management, Long Beach, California. American Society of Civil Engineers, New York. pp. 110-124.

Zomlefer, W.B., Judd, W.S., Giannasi, D.E., 2006. Northernmost limit of Rhizophora mangle (Red mangrove; Rhizophoraceae) in St. Johns County, Florida. Castanea 71, 239-244. http://www.jstor.org/stable/4034146.

Zonick, C.A., 2000. The Winter Ecology of Piping Plovers (Charadrius melodus) along the Texas Gulf Coast. Ph.D. Thesis, University of Missouri-Columbia, Missouri, 169 pp.

Zonneveld, K.A.F., Versteegh, G.J.M., Kasten, S., Eglinton, T.I., Emeis, K.-C., Huguet, C., Koch, B.P., de Lange, G.J., de Leeuw, J.W., Middelburg, J.J., Mollenhauer, G., Prahl, F.G., Rethemeyer, J., Wakeham, S.G., 2010. Selective preservation of organic matter in marine environments; processes and impact on the sedimentary record. Biogeosciences 7, 483-511.

Zuur, A.F., Ieno, E.N., Smith, G.M., 2007. Analysing Ecological Data. Springer, New York, 672 pp.

Zwolsman, J.J.G., van Eck, G.T.M., 1999. Geochemistry of major elements and trace metals in suspended matter of the Scheldt estuary, southwest Netherlands. Marine Chemistry 66, 91-111. http://dx.doi.org/10.1016/S0304-4203(99)00026-2.