DMCS Publications 2009

Weis, Judith S. and Carol A. Butler 2009. Salt Marshes: A Natural and Unnatural History. Rutgers University Press

Reichmuth, J.M., R. Roudez, T. Glover and J.S. Weis 2009. Differences in prey capture behavior in populations of blue crab (Callinectes sapidus Rathbun) from contaminated and clean estuaries in New Jersey. Estuaries and Coasts 32: 298-308.

Bass, C.S. and J.S. Weis 2009. Conspicuous behavior of Fundulus heteroclitus associated with high digenean metacercariae gill abundances. J. Fish Biol. 74: 763-772.

Weis, J.S., P. Weis, L. Pearson, J. MacDonald.2009 Rapid changes in fish utilization of mangrove habitat in Western Madagascar. Wetland Ecol. Management 17: 345-354

MacDonald, J., S. Shahrestani and J.S. Weis 2009. Behavior and space utilization of two common fishes within Caribbean mangroves: implications for the protective function of mangrove habitats. Estuarine, Coastal and Shelf Science, 84: 195-201

Weis, J.S. 2009. Reproductive, Developmental, and Neurobehavioral Effects of Methylmercury in Fishes. Journal of Environmental Science and Health, Part C 27: 212-225.

Hunter, K. L., Fox, M. G., Able, K. W. 2009. Influence of flood frequency, temperature and population density on migration of Fundulus heteroclitus in semi-isolated marsh pond habitats . Marine Ecology Progress Series. 391: 85-96. doi: 10.3354/meps08211

Grassle, J. F., Ramey, P. A., Petrecca, R. F. 2009. Temporal and spatial variation in infaunal community structure in physically active continental shelf sediments at a long-term ecosystem observatory (LEO-15) off New Jersey, USA . Journal of Marine Research. 67: 869-897.

Godfrey, L. V., Falkowski, P. G. 2009. The cycling and redox state of nitrogen in the Archaean ocean . Nature Geoscience. DOI: 10.1038/NGEO633

Ramey, P. A., Grassle, J. P., Grassle, J. F., Petrecca, R. M. 2009. Small-scale, patchy distributions of infauna in hydrodynamicall mobile continental shelf sands: Do ripple crests and troughs support different communities? Continental Shelf Research. doi: 10.1016/j.csr.2009.08.020.

Moline, M. A., Schofield, O. 2009. Remote video assisted docking of untended underwater vehicles. Journal of Atmosphere and Ocean Technology. DOI 10.1175/2009JTECH0666.1

Dubinsky, Z., Schofield, O. 2009. Photosynthesis under extreme low and high light in the world’s oceans . Hydrobiologia. DOI 10.1007/s10750-009-0026-0

Hofmann, E., Bushek, D., Ford, S., Guo, X., Haidvogel, D., Hedgecock, D., Klinck, J., Milbury, C., Narvaez, D., Powell, E., Wang, Y., Wang, Z., Wilkin, J., Zhang, L. 2009. Understanding how disease and environment combine to structure resistance in estuarine bivalve populations . Oceanography 22(12): 212-231. 

Broquet, G., Moore, A. M., Arango, H. G., Edwards C. A., and Powell, B. S. 2009. Ocean State and Surface Forcing Correction using the ROMS-IS4DVAR Data Assimilation System . Mercator Ocean Quarterly Newsletter, 34, 5-13.

Han, W., A.M. Moore, J. Levin, B. Zhang, H.G. Arango, E. Curchitser, E. Di Lorenzo, A.L. Gordon, J. Lin. 2009. Seasonal surface ocean circulation and dynamics in the Philippine Archipelago region during 2004–2008 . Dynamics of Atmospheres and Oceans, 47(1), 114-137.

Moore, A.M., H.G. Arango, E. Di Lorenzo, A.J. Miller, and B.D. Cornuelle. 2009. An Adjoint Sensitivity Analysis of the Southern California Current Circulation and Ecosystem . Journal of Physical Oceanography, 39(3), 702-720.

Powell, B.S., A.M. Moore, H.G. Arango, E. Di Lorenzo, R.F. Milliff, R.R. Leben. 2009. Near real-time ocean circulation assimilation and prediction in the Intra-Americas Sea with ROMS . Dynamics of Atmospheres and Oceans. 48(1), 46-68.

Hermann, A. J., E. N. Curchitser, D. B. Haidvogel and E. L. Dobbins. 2009. A comparison of remote versus local influence of El Nino on the coastal circulation of the Northeast Pacific. Deep-Sea Research Part II: Topical Studies in Oceanography, 56(24), 2427-2443.

Hermann, A.J., S. Hinckley, E. L. Dobbins, D. B. Haidvogel, N. A. Bond, C. Mordy, N. Kachel and P. J. Stabeno. 2009. Quantifying cross-shelf and vertical nutrient flux in the Gulf of Alaska with a spatially nested, coupled biophysical model. Deep-Sea Research Part II: Topical Studies in Oceanography, 56(24), 2474-2486.

Vardi,A., Van Mooy, B. A. S., Fredricks, H. F., Popendorf, K. J., Ossolinski, J. E., Haramaty, L., Bidle, K. D. 2009. Viral glycosphingolipids induce lytic infection and cell death in marine phytoplankton . Science 326, 861, DOI: 10.1126/science.1177322

Oppo, D. W., Rosenthal, Y., Linsley, B. K. 2009. 2,000-year-long temperature and hydrology reconstructions from the Indo-Pacific warm pool . Nature. Vol 460|27 August 2009| doi:10.1038/nature08233

Previdi, M., Fennel, K., Wilkin, J., Haidvogel, D. 2009. Interannual variability in atmospheric CO2 uptake on the northeast U.S. continental shelf . Journal of Geophysical Research Vol 114, G04003, doi:10.1029/2008JG000881

Sullivan, M. C., Wuenschel, M. J., Able, K. W. 2009. Inter and intra-estuary variability in ingress, condition and settlement of the American eel Anguilla rostrata: implications for estimating and understanding recruitment . Journal of Fish Biology. 74: 1949-1969.

Wang, Y., Y. Shi and X. Guo. 2009. Identification and characterization of 66 EST-SSR markers in the eastern oyster Crassostrea virginica (Gmelin) . Journal of Shellfish Research, 28(2):227-234.

Guo, X., Y. Wang, Z. Xu and H. Yang. 2009. Chromosome set manipulation in shellfish. Pp 165 - 195 in: New Technologies in Aquaculture: Improving Production Efficiency, Quality and Environmental management, G. Burnell and G. Allan (eds). Woodhead Publishing.

Kucuktas, H., S. Wang, S, P. Li, C. He, P. Xu, Z. Sha, H. Liu, Y. Jiang, P. Baoprasertkul, B. Somridhivej, Y. Wang, J. Abernathy, X. Guo, L. Liu, W. Muir & Z. Liu. 2009. Construction of genetic linkage maps and comparative genome analysis of catfish using gene-associated markers . Genetics, Genetics 181: 1649-1660.

Wang, Y., A. Wang and X. Guo. 2009. Development and characterization of 30 polymorphic microsatellite markers for the Atlantic surfclam, Spisula solidissima (Dillwyn, 1817) . Molecular Ecology Research, 9(4):1264-1267.

Liu, X., F. Wu, H. Zhao, G. Zhang and X. Guo. 2009. A novel shell color variant of the Pacific abalone Haliotis discus hannai Ino subject to genetic control and dietary influence . Journal Shellfish Reseach 28(2):419-424.

Xu, F. G. Zhang, X. Liu, S. Zhang, B. Shi and X. Guo. 2009. Laboratory hybridization between Crassostrea ariakensis and C. sikamea. Journal Shellfish Research 28(3):453-458.

Ren, J., X. Liu, G. Zhang, B. Liu and X. Guo. 2009. "Tandem duplication-random loss" is not a real feature of oyster mitochondrial genomes . BMC Genomics, 10:84.

Shi, Y., Y. Wang, K. Hong, Z. Hou, A. Wang and X. Guo. 2009. Characterization of 31 EST-derived microsatellite markers for the pearl oyster Pinctada martensii (Dunker) . Molecular Ecology Resources 9:177-179.

Shi, Y., H. Kui, X. Guo, Z. Gu, Y. Wang and A. Wang. 2009. Genetic linkage map of the pearl oyster, Pinctada martensii (Dunker) . Aquatic Research doi:10.1111/j.1365-2109.2009.02299.x

Wang, L, L. Song, J. Zhao, L. Qiu, H. Zhang, W. Xu, H. Li, C. Li, L. Wu, and X. Guo. Expressed sequence tags from the zhikong scallop (Chlamys farreri): Discovery and annotation of host-defense genes . Fish & Shellfish Immunology 26: 744-750.

Francis, J. A., Chan, W., Leathers, D. J., Miller, J. R., Vernon, D. E. 2009. Winter northern hemisphere weather patterns remember summer Arctic sea-ice extent . Geophysical Research Letter. Vol. 36 L0750, doi: 10.1029/2009GL037274.

Skific, N., Francis, J. A., Cassano, J. J. 2009. Attribution of projected changes in atmospheric moisture transport in the Arctic: A self-organizing map perspective . American Meteorlogical Society. DOI: 10.1175/2009JCLI2645.1

Skific, N., Francis, J. A., Cassano, J. J. 2009. Attribution of seasonal and regional changes in Arctic moisture convergence . American Meteorological Societ. DOI: 10.1175/2009JCLI2829.1

Gruber, D. F., Tuorto, S., Taghon, G. 2009. Growth phase and elemental stoichiometry of bacterial prey influences ciliate grazing selectivity . J. Eukaryot. Microbiol., 56(5), 2009 pp. 466–471. DOI: 10.1111/j.1550-7408.2009.00428

Kerkhof, L. J., Goodman, R. M. 2009. Ocean microbial metagenomics . Deep Sea Research I. doi:10.1016/j.dsr2.2009.05.005

Krumins, V., Park, J., Son, E., Rodenburg, L. A., Kerkhof, L. Haggblom, Fennell, D. E. 2009. PCB dechlorination enhancement in Anacostia River . Water Research. doi:10.1016/j.watres.2009.08.003

Ahn, Y., Kerkhof, L. J., Haggblom, M. M. 2009. Desulfoluna spongiiphila sp. nov., a dehalogenating bacterium in the Desulfobacteraceae from the marine sponge Aplysina aerophoba .International Journal of Systematic and Evolutionary Microbiology, 59, 2133–2139. DOI 10.1099/ijs.0.005884-0


 Chassignet, E., H. Hurlburt, E. Metzger, O. Smedstad, J. Cummings, G. Halliwell, R. Bleck, R. Baraille, A. Wallcraft, C. Lozano, H. Tolman, A. Srinivasan, S. Hankin, P. Cornillon, R. Weisberg, A. Barth, R. He, F. Werner and J. Wilkin (2009), U.S. GODAE: Global Ocean Prediction with the HYbrid Coordinate Ocean Model (HYCOM) , Oceanography, 21, 64-75.

Fennel, K., J. Wilkin, M. Previdi, and R. Najjar (2008), Denitrification effects on air-sea CO2 flux in the coastal ocean: Simulations for the northwest North Atlantic , Geophysical Research Letters, 35, L24608, doi:10.1029/2008GL036147.

Fennel, K., and J. Wilkin (2009), Quantifying biological carbon export for the northwest North Atlantic continental shelves, Geophysical Research Letters, 36, L18605, doi:10.1029/2009GL039818 (2009)

Cermeno, P., Falkowski, P. G. 2009. Controls on diatom biogeography in the ocean . Science vol 325: 1539 doi: 10.1126/science.1174159

Rona, P. A., Seilacher, A., de Vargas, C., Goodjay, A., Bernhard, J. M., Bowser, S., Vetriani, C., Wirsen, C. O., Mullineauz, L., Sherrell, R., Grassle, J., Lowh, S., Lutz, R. A. 2009. Paleodictyon nodosum: A living fossil on the deep-sea floor . Deep-Sea Research II 56 (2009) 1700–1712. doi:10.1016/j.dsr2.2009.05.015

Smith, L. M., Reinfelder, J. R. 2009. Mercury volatilization from salt marsh sediments . Journal of Geophysical Research. Vol: 114 G00C09 doi:10.1929/2009JG000979

Montes-Hugo, M. Ducklow, H., Schofield, O. 2009. Contribution by different marine bacterial communities to particulate beam attenuation . Marine Ecology Progress Series. 379: 13-22. doi:10.3354/MEPS07883.

Grothues, T. M., Able, K. W., Carter, J., Arienti, T. 2009. Migration patterns of striped bass through nonnatal estuaries of the U. S. Atlantic coast . American Fisheries Society Symposium 69: 135-150.

Mafra L. Jr., V.M. Bricelj, C. Ouellette, J. E. Ward, C. Léger, S. S. Bates, 2009. Mechanisms contributing to low domoic acid uptake by oysters feeding on Pseudo-nitzschia cells I. Filtration and pseudofeces production. Theme Section: Directions in bivalve feeding , Aquatic Biology 6(3): 201-212.

Mafra, L.L., V.M. Bricelj, J.E. Ward, 2009. Mechanisms contributing to low domoic acid uptake by oysters feeding on Pseudo-nitzschia multiseries cells. II. Selective rejection. Theme Section: Directions in bivalve feeding , Aquatic Biol. 6(3): 213-226.

Oppo, D. W., Rosenthal, Y., Linsley, B. 2009. 2,000-year-long temperature and hydrology reconstructions from the Indo-Pacific warm pool . Nature Vol 460|27 August 2009| doi:10.1038/nature08233

Liu H., Probert I., Uitz J., Claustre H., Aris-Brosou S., Frada M., Not F., de Vargas C. 2009. Extreme diversity in noncalcifying haptophytes explains a major pigment paradox in open oceans. Proceedings of the National Academy of Sciences USA. 106:12803-12808.

Falkowski, P. G., Goodman, R. (2009). Editorial: Future energy institutes . Science. 325: 10.1126/science.1176998

Richier, S., Kerros, M., de Vargas, Co., Haramaty, L., Falkowski, P. G., Gattuso, J. (2009). Light-dependent transcriptional regulation of genes of biogeochemical interest in the diploid and haploid life cycle stages of Emiliania huxleyi . Applied and Environmental Microbiology, 75: 3366–3369 doi:10.1128/AEM.02737-08

Lyons T. W., Anbar A. D., Severmann S., Scott C., and Gill B. C. (2009) Tracking Euxinia in the Ancient Ocean: A Multiproxy Perspective and Proterozoic Case Study. Annual Reviews Earth Planetary Science Letters 37: 507-534.

Poulson-Brucker R. L., McManus J., Severmann S., and Berelson W. M. (2009) Molybdenum behavior during early diagenesis: Insights from Mo isotopes. Geochemistry Geophysics Geosystems 10, Q06010.

Homoky W. B., Severmann S., Mills R. A., Statham P. J., and Fones G. R. (2009) Fe isotopes in pore-fluids of deep sea and continental shelf sediments. Geology 37, 751-754.

Sherman, L. S., Blum, J. D., Nordstrom, D. K., McClesky, R. B., Barkay, T., Vetriani, C. 2009. Mercury isotopic composition of hydrothermal systems in the yellowstone volcanic field and Guaymas Basin sea floor-rift . Earth and Planetary Sciences. doi: 10.1016/j.epsl.2008.12.032.

Reed, A. J., Dorn, R., Van Dover, C. L., Lutz, R. A., Vetriani, C. 2009. Phylogentic diversity of methanogenic sulftae-reducing and methanotrophic prokaryotes from deep-sea hydrothermal vents and cold seeps . Deep-Sea Research II. doi: 10.1016/j.dsr2.2009.05.012

Andrianasolo, E. H., Haramaty, L., Rosario-Passapera, R., Bidle, K., White, E., Vetriani, C., Falkowski, P. W., Lutz, R. 2009. Ammonificins A and B, hydroxyethylamine chroman derivatives from a cultured hydrothermal vent bacterium, Thermovibrio ammonificans . Journal of Natural Products. 72: 1216-1219.

Crespo-Medina, M., Chatziefthimiou, A., Cruz-Matos, R., Perez-Rodriguez, I., Barkay, T., Lutz, R. A., Starovoytov, Vertriano, C. 2009. Salinishaera hydrothermalis sp. nov., a mesophilic, halotolerant, facultatively autrophic, thiosulfate oxidizing gammaproteobacterium from deep-sea hydrothermal vents, and emended description of the genus Salinishaera . International Journal of Systematic and Evolutionary Microbiology. DOI: 10.1099/isj.0.005058-0

Sosdian, S., Rosenthal, Y. 2009. Deep-sea temperature and ice volume changes across the Pliocene-Pleistocene climate transitions . Science. 325(17):306-310 doi: 10.1126/science.1169938.

Crespo-Medina, M., Chatziefthimiou, Bloom, N. S., Luther, G., Wright, D. D., Reinfelder, J. R., Vetriani, C., Barkay. 2009. Adaptation of chemosynthetic micro-organisms to elevated mercury concentration in deep-sea mhydrothermal vents. Limnology and Oceanography. 54(1): 41-49.

 Schootbrugge, B., Quan, T. M., Lindstrom, S., Puttmann, W., Heunisch, C. Pross, J., Fiebig, J., Petschick, R., Rohling, H. G., Richoz, S., Rosenthal, Y, Falkowski, P. G. 2009. Floral changes across the Triassic/Jurassic boundary linked to flood basalt volcanism .Nature Geoscience. DOI: 10.1038/NGE0577.

Quan, T. M. and Falkowski, P. G. 2009. Redox control of N:P ratios in aquatic ecosystems . Geobiology, 7(2), 124-139; doi: 10.1111/j.1472-4669.2008.00182.x.

Zhang, Weifeng, John Wilkin, Robert Chant, 2009, Modeling of the pathways and mean dynamics of river plume dispersal in New York Bight , Journal of Physical Oceanography, 39, 1167-1183.

Zhang, Weifeng, John Wilkin, Julia Levin, Hernan Arango, 2009, An Adjoint Sensitivity Study of Buoyancy- and Wind-driven Circulation on the New Jersey Inner Shelf , Journal of Physical Oceanography, 39, 1652-1668.

Ramey, P.A., Teichman, E., Oleksiak, J. and Balci, F. 2009. Spontaneous alternation in marine crabs: an invasive versus a native species . Behavioral Processes, 82: 51-55.

Avery, L., Ramey, P.A. and Wilson, R. 2009. New Polygordiidae (Polychaeta) from the Australian Region . Zootaxa, 2068: 59-68.

Thamatrakoln, K. Kustka, A. B. 2009. When to say when: can excessive drinking explain silicon uptake in diatoms? BioEssays 31:322–32, DOI 10.1002/bies.200800185

Kraeuter, J. N., G. Flimlin, M. J. Kennish, R. Macaluso, and J. Viggiano. 2009. Sustainability of northern quahogs (= hard clams) Mercenaria mercenaria, Linnaeus in Raritan Bay, New Jersey: Assessment of size specific growth and mortality. Journal of Shellfish Research, 28(2): 273-287. 

Able, K.W., K.M.M. Jones and D.A. Fox. 2009. Large nektonic fishes in marsh creek habitats in the Delaware Bay estuary . Northeastern Naturalist 16(1):27-44.

Altieri, K. E., turpin, B. J., Seitzinger, S. P. 2009. Oligomers, organosulfates, and nitrooxy organosulfates in rainwater identified by ultra-high resolution electrospray ionization FT-ICR mass spectrometry . Atmospheric Chemistry Physics 9: 2533–2542.

Sikes, E. L., W. R. Howard, C. R. Samson, T S. Mahan, L. G. Robertson, and J. K. Volkman 2009. Southern Ocean seasonal temperature and Subtropical Front movement on the South Tasman Rise in the late Quaternary , Paleoceanography, 24, PA2201, doi:10.1029/2008PA001659

Sikes, E. L., Uhle, M. E., Nodder, S. D., Howard, M. E. 2009. Sources of organic matter in a coastal marine environment: Evidence from n-alkanes and their 13C distributions in the Hauraki Gulf, New Zealand Marine Chemistry 113, 149-163.

Johnson, M. D., Volker, J. V., Moellera, H. V., Lawsc, E., Breslauer, J., Falkowski, P. G. 2009. Universal constant for heat production in protists . Proceedings of National Academy of Sciences.

Rangwala, I., Miller, J. R., Xu, M. 2009. Warming in the Tibetan Plateau: Possible influences of the changes in surface water vapor . Geophysical Research Letters. Vol. 36, L06703, doi:10.1029/2009GL037245

Montes-Hugo, M., Doney, S. C., Ducklow, H. W., Fraser, W., Martinson, D., Stammerjohn, S., Schofield, O. 2009. Recent changes in phytoplankton communities associated with rapid regional climate change along the West Antarctic Peninsula . Science. 323:1470-1474. 10.1126/science.1164533.

Sebastian, M and JW Ammerman. The alkaline phosphatase PhoX is more widely distributed in marine bacteria than the classical PhoA . The ISME Journal doi:10.1038/ismej.2009.10

Able, K. W., G. Sakowicz, and J. Lamonaca. 2009. Scale formation in selected fundulid and cyprinodontid fishes.  Ichthyological Research 56:1-9.

Able, K. W. and M. C. Curran. 2008. Winter mortality in some temperate young-of-the-year fishes. Bulletin of the New Jersey Academy of Science 53(2):1-5.

Vasslides, J. and K. W. Able. 2008. Abundance and diet of three sciaenid fishes in southern New Jersey: an assessment of habitat value for shoreface sand ridges . Bulletin New Jersey Academy of Science 53(1):1-8.

Brun N., V.M. Bricelj, T. MacRae, N. Ross, 2009. Acquisition of thermotolerance in bay scallops, Argopecten irradians irradians, via differential induction of heat shock proteins. Journal Experimental Marine Biology Ecology 371: 77-83.

Kristiansen, T., R.G. Lough, F.E. Werner, E.A. Broughton, L.J. Buckley. 2009. Individual-based modeling of feeding ecology and prey selection of larval cod on Georges Bank. Marine Ecology Progress Series 376:227-243. 

Wiebe, P.H., R.P. Harris, M.A. St. John, F.E. Werner and B. de Young. (Eds.) 2009. BASIN: Basin scale Analysis, Synthesis, and INtegration. Science Plan and Implementation Strategy. GLOBEC Report 27: 43pp.

Lachmayr, K. L., Kerhof, L., DiRienzo, A. G., Cavanaugh, C. M., Ford, T. E. 2009. Quantifying nonspecific TEM B-Lactamase (blaTEM) genes in a wastewater stream. Applied and Environmental Microbiology 75: 203-211. 0099-2240/09/$08.00+0 doi:10.1128A/AEM.01254-08.