Publications 2005

Robertson, T. and J. S. Weis 2005 A comparison of epifaunal communities associated with the stems of salt marsh grasses Phragmites australis and Spartina alterniflora. Wetlands 25: 1-7.

Weis, J. and P. Weis 2005. Use of two different intertidal habitats by coral reef fishes in the Wakatobi Marine Park, Indonesia. Raffles Bulletin of Zoology 53: 119-124.

Weis, J.S. 2005. Diet and food web support of the white perch, Morone americana in the Hackensack Meadowlands. Environ. Biol. of Fishes 74: 109-113

Yuhas, C., J.M. Hartman and J.S. Weis 2005. Benthic communities associated with Spartina alterniflora and Phragmites australis in the Hackensack Meadowlands of NJ. Urban Habitats 3 #1: 158-191

Jonsson, L. M., Dighton, J., Lussenhop, J., Koide, R. T. 2005. The effect of mixing ground leaf litters to soil on the development of pitch pine ectomycorrhizal and soil arthopod communities in natural soil microcsm systems. Soil biology and Biochemistry. doi:10.1016/j.soilbio.2005.04.027

Baxter, J. W., Dighton, J. 2005. Phosphorus source laters host plant response to ectomycorrhizal diversity. Mycorrhiza 15: 513-523

Harrison , J., S. P. Seitzinger , N. Caraco , A.F. Bouwman , A. Beusen , and C. Vörösmarty . 2005. Dissolved inorganic phosphorous export to the coastal zone: results from a new, spatially explicit, global model (NEWS-SRP). Global Biogeochemical Cycles 19(4): GB4S03.

Wang, Y., Z. Xu and X. Guo. 2005. Chromosomal mapping of 5S ribosomal RNA genes in the eastern oyster, Crassostrea virginica Gmelin by fluorescence in situ hybridization. J. Shellfish Res. , 24(4):959-964.

Wilkin, J., and L. Lanerolle, (2005), Ocean Forecast and Analysis Models for Coastal Observatories, In: Ocean Weather Forecasting, An Integrated View of Oceanography, E. Chassignet and J. Verron, Eds., 549-572, Springer.

Kroeze, C., E. Dumont, and S.P. Seitzinger . 2005. New estimates of global emissions of N2O from rivers and estuaries. Environmental Sciences: 2(2-3): 159-165.

Harrison , J.H. , N.F. Caraco, and S.P. Seitzinger . 2005. Global patterns and sources of dissolved organic matter export to the coastal zone: results from a spatially explicit, global model. Global Biogeochemical Cycles 19(4): GBS406.

Sherman, K., M. Sissenwine, V. Christensen, A. Duda, G. Hempel, C. Ibe, S. Levin, D. Lluch-Belda, G. Matishov, J. McGlade, M. O’Toole, S.P. Seitzinger, R. Serra, H.R. Skjoldal, Q. Tang, J. Thulin, V. Vandeweerd, and K. Zwanenburg. 2005. A global movement toward an ecosystem approach to management of marine resources. Marine Ecology Progress Series 300: 241-296.

Dumont , E., J.A. Harrison *, C. Kroeze , E.J. Bakker , and S.P. Seitzinger . 2005. Global distribution and sources of dissolved inorganic nitrogen export to the coastal zone: results from a spatially explicit, global model. Global Biogeochemical Cycles 19:19 (4): GB4S02.

Seitzinger, S.P. , J.A. Harrison *, E. Dumont, A.H.W. Beusen , and A.F. Bouwman . 2005. Sources and delivery of carbon, nitrogen and phosphorous to the coastal zone: An overview of global nutrient export from watersheds (NEWS) models and their application. Global Biogeochemical Cycles 19(4):GB4S01.

Glibert, P.M., S. P. Seitzinger, C. A. Heil, J. Burkholder, M. Parrow, L.A. Codispoti, and V. Kelly. 2005. Eutrophication – new perspectives on its role in the global proliferation of HABs. Oceanography 18:198.

Brown, J.J., R. Hildreth and S.E. Ford. 2005. When the world is not your oysters. Science 309:244.

Jackson, N.L., K.F. Nordstrom and D.R. Smith. 2005. Influence of waves and horseshoe crab spawning on beach morphology and sediment grain size characteristics on a sandy estuarine beach. Sedimentology, 52: 1097-1108.

Matos, A, L. Kerkhof , and J.L. Garland. (2005) Effects of Microbial Community Diversity on the Survival of Pseudomonas aeruginosa in the Wheat Rhizosphere. Microbial Ecology 49: 257?264

Wawrik, B., L. Kerkhof , J. Kukor, and G. Zylstra. (2005). Effect of Different Carbon Sources on Community Composition of Bacterial Enrichments from Soil Applied Environmental Microbiology. 71: 6776-6783.

Francis, J.A., E. Hunter, and C.-Z. Zou, 2005: Arctic tropospheric winds derived from TOVS satellite retrievals. J. Clim., 18, 2270-2285.

Overpeck, J.T., M. Sturm, J.A. Francis, D.K. Perovich, M.C Serreze, and 16 others, 2005: Arctic system on trajectory to new, seasonally ice-free state. Eos Trans., 86.

Francis, J.A., E. Hunter, J. Key, and X. Wang, 2005: Clues to variability in Arctic minimum sea ice extent. Geophys. Res. Lett., 32, L21501, doi:10.1029/2005GL024376.

Fennel, K., Follows, M., Falkowski, P. G. 2005. The co-evolution of the nitrogen, carbon, and oxygen cycles in the proterozoic ocean. American Journal of Science 305: 526-545.

Nemerson, D.M. and K.W. Able. 2005. Juvenile sciaenid fishes respond favorably to marsh restoration in Delaware Bay. Ecological Engineering. 25: 260-274.

Able, K.W., L.S. Hales Jr., and S.M. Hagan. 2005. Movement and growth of juvenile (age 0 and 1+) of tautog (Tautoga onitis) and cunner (Tautogolabrus adspersus) in a southern New Jersey estuary. Journal of Experimental Marine Biology and Ecology 327(1): 22-35.

Able, K.W., K.J. Smith and S.M. Hagan. 2005. Fish composition and abundance in New Jersey salt marsh pools: to sampling technique effects. Northeastern Naturalist 12(4): 485-502.

Xiao, J., S.E. Ford, H. Yang, G. Zhang, F. Zhang and Guo, X. 2005. Studies on mass summer mortality of cultured zhikong scallops ( Chlamys farreri Jones et Preston) in China. Aquaculture , 250:602-615.

Hedgecock, D. P.M. Gaffney, P. Goulletquer, X. Guo, K. Reece and G. Warr. 2005. A case for sequencing the Pacific oyster genome. J. Shellfish Res. , 24(2):429-441.

Wang, Y., Z. Xu. J.C. Pierce and X. Guo. 2005. Characterization of eastern oyster ( Crassostrea virginica Gmelin) chromosomes by fluorescence in situ hybridization with bacteriophage P1 clones . Marine Biotechnology , 7:207-214 .

Frost, P., MA Evans-White, ZV Finkel , TC Jensen, V Matzek. 2005. Are you what you eat? Physiological constraints on organismal stoichiometry in an elementally imbalanced world. Oikos 109: 18-28.

van de Schootbruge, B, TR Bailey, Y Rosenthal, ME Katz, JD Wright, KG Miller, S Faust-Burkhardt and PG Falkowski (2005) Early Jurassic climate change and the radiation of organic walled phytoplankton in the Tethys ocean. Paleobiol. 31:73-97

Deng, Y., X. Liu, G. Zhang and X. Guo. 2005. Inbreeding depression and maternal effects on early performance of Pacific abalone. North American Journal of Aquaculture , 67:231-236.

Toline, A. C., Kenny, P., Bushek, D. 2005. Cement-coated stakes enhance recruitment of damaged oyster reefs (South Carolina). Ecological Restoration 23(4): 277-278

Gallagher, E. L. McGuinness, C. Phelps, L. Y. Young, and L. J. Kerkhof . 2005. 13 C-carrier DNA shortens the incubation time needed to detect benzoate utilizing, denitrifying bacteria using stable isotope probing (SIP). Appl. Environ. Microbiol. 71: 5192-5196.

Ananayev, G., Z.S. Kolber, D. Klimov, P.G. Falkowski, J.A. Berry, U. Rascher, R. Martin, B. Osmond. 2005. Remote sensing of heterogeneity in photosynthetic efficiency, electron transport and dissipation of excess light in Populus deltoids stands under ambient and elevated CO 2 concentrations, and in a tropical forest canopy, using a new laser-induced fluorescence transient device. Global Change Biology 11: 1195-1206.

Mikkelsen, O. A. Hill, P. S., Milligan, T. G., Chant, R. J. 2005. In situ particle size distributions and volume concetrations from a LISST-100 laser particle sizer and a digital floc camera. Continental Shelf Research 25: 1959-1978.

Reilly, T.J., Walker, C., Baehr, A.L., Schrock, R.M. and J.R. Reinfelder (2005) Diatoms as indicators of surface-water influence on domestic wells at Cranberry Lake and Lake Lackawanna, Sussex County, New Jersey: U.S. Geological Survey Scientific Investigative Report 2005-5263, 18 p.

Falkowski, P. G., Katz, M. E., Milligan, A. J., Fennel, K., Cramer, B. S., Aubry, M. P., Berner, R. A., Novacek, M. J., Zapol, W. M. 2005. The rise of oxygen over the past 205 million years and the evolution of large placental mammals. Science 309: 2202- 2204.

Shi, T., Bibby, T. S., Jiang, L., Irwin, A. J., Falkowski, P. G. 2005. Protein interactions limit the rate of evolution of photosynthetic genes in cyanobacteria. Molecular Biolgy Evolution. 22(11): 2179-2189.

Jiang, L., Schofield , O ., Falkowski, P. G. 2005. Adaptive evolution of phytoplankton cell size. American Naturalist. 166(4): 496-505.

Laursen, A., and S. Seitzinger. 2005. Limitations to measuring riverine denitrification at the whole reach scale: effects of channel geometry, wind velocity, sampling interval, and temperature inputs of N2-enriching groundwater. Hydrobiologia 545:225-236.

Sikes, E. L., T. O’Leary, S. D. Nodder, and J. K. Volkman, 2005, Alkenone temperature records and biomarker flux at the subtropical front on the Chatham Rise SW Pacific Ocean Deep Sea Research , 52(5), 721-748.

Grothues, T. M., Able, K., McDonnell, J. Sisak M. M. 2005. An estuarine observatory for real-time telemetry of migrant macrofauna: Design, performance, and constraints. Limnology and Oceanography: Methods. 3: 275-289

Bushek, D. and D.M. Allen. 2005. Motile suspension feeders in estuarine and marine ecosystems. In: The Comparative Role of Suspension Feeders in Ecosystems, RF Dame and S Olenin (eds), NATO Science Series: IV – Earth and Environmental Sciences, Vol. 47. Springer, Dordrecht, The Netherlands. pp 53-71.

Able, K.W., M.J. Neuman and H. Wennhage. 2005. Ecology of the adult and juvenile stages: distribution and dynamics of habitat associations. pp. 164-184. In: R.N. Gibson (editor), Flatfishes: Biology and Exploitation Blackwell Publishing, Oxford, U.K.

Able, K.W. 2005. A reexamination of fish estuarine dependence: evidence for connectivity between estuarine and ocean habitats. Est Coast Shelf Sci. 64: 5-17.

Fugate, D.A. and R. J. Chant . 2005 Near bottom shear stresses in a small highly stratified estuary. J. Geophys. Res., C03022, doi:10.1029/2004JC002563

Geyer, W.R. and R.J. Chant , 2005. Physical processes in the Hudson River, in The Hudson River Estuary. Levinton, J. S. and J.R. Waldman (ed.) Oxford University Press, 608 pages

Kennish,M. J. 2005. Environmental quality, in/ Schwartz, M., ed., Encyclopedia of Coastal Science. Springer, Dordrecht, The Netherlands, pp. 419-426.

Kennish, M. J. 2005. Estuaries, anthropogenic impacts, in Schwartz, M., ed., Encyclopedia of Coastal Science. Springer, Dordrecht, The Netherlands, pp. 434-436.

Kennish, M. J. 2005. Trends of PCBs in New Jersey’s estuarine and coastal marine environments: a literature review and update of findings. Bulletin of the New Jersey Academy of Science, 50: 1-15.

Ma, H. 2005. Spatial and temporal variation in surfclam (Spisula solidissima) larval supply and settlement on the New Jersey inner shelf during summer upwelling and downwelling. Estuarine, Coastal and Shelf Science 62: 41-53.

Seitzinger, S.P., H. Hartnett, R. Lauck, M. Mazurek, T. Minegishi, G. Spyres, R. Styles. 2005. Molecular level chemical characterization and bioavailability of dissolved organic matter in streamwater using ESI mass spectrometry. Limnology & Oceanography 50(1): 1-12.

Warner, J. C., C. R. Sherwood, H. G. Arango, Richard P. Signell, 2005, Performance of Four Turbulence Closure Methods Implemented Using a Generic Length Scale Method, Ocean Modelling 8: 8 1-113

Wilkin, J.L, H.G. Arango, D.B. Haidvogel, C.S. Lichtenwalner, S.M. Glenn, and K.S. Hedstrom, 2005, A Regional Ocean Modeling System for the Long-term Ecosystem Laboratory, Journal of Geophysical Research , 110 C06S91, doi:10.1029/2003JC002218

Brown, J. D., Hildreth, R., Ford, S. E. 2005. When the world is not your oyster. Science 309: 244

Voordeckers, J.W., Starovoytov, V., and Vetriani, C. 2005. Caminibacter mediatlanticus sp. nov., a thermophilic, chemolithoautotrophic, nitrate ammonifying bacterium isolated from a deep-sea hydrothermal vent on the Mid-Atlantic Ridge. Intl. J. Syst. Evol. Microbiol. 55:773-779.

Vetriani, C. Chew, Y.S., Miller, S.M., Yagi, J., Coombs, J., Lutz, R.A., and Barkay, T. 2005. Mercury adaptation among bacteria from a deep-sea hydrothermal vent. Appl. Environ. Microbiol. 71:220-226.

Perez-Jimenez, J. R. and L. J. Kerkhof. 2005. Phylogeography of sulfate-reducing bacteria among disturbed sediments disclosed by analysis of the dissimilatory sulfite reductase genes (dsrAB). Appl. Environ. Microbiol. 71: 1004-1011

Wawrik, B., L. Kerkhof, G. Zylstra, and J. Kukor. 2005 Identification of unique type II polyketide synthase genes in soil.Appl. Environ. Microbiol. 71: 2232–2238

Iskandarani, M., J. Levin, B-J Choi, D.B. Haidvogel, 2005. Comparison of Advection Schemes for high order h-p Finite Element and Finite Volume Methods, Ocean Modelling, 10: 233-252.

Yu, Z. and X. Guo . 2005. Genetic analysis of selected strains of the eastern oyster ( Crassostrea virginica Gmelin) using AFLP and microsatellite markers. Marine Biotechnology , 6:575-586.

Bissett, W.P., R. Arnone, S. DeBra, D.A. Dieterle, D. Dye, G. Kirkpatrick, O. Schofield , G.A. Vargo 2005. Predicting the optical properties of the West Florida Shelf: Resolving the potential impacts of a terresetria boundary condition on the distribution of colored dissolved and particulate matter . Marine Chemistry, doi: 10.1016/j.marchem.2004.09.007: 1-35.

Finkel, Z.V., M.E. Katz, J.D. Wright, O. Schofield , P.G. Falkowski 2005. Climatically-driven macroevolutionary patterns in the size of marine diatoms over the Cenozoic. Proceedings of National Academy of Sciences , 102 (25): 2927-2932.

Kerfoot, J ., G. Kirkpatrick, S. Lohrenz, K. Mahoney, O. Schofield 2005 Vertical Migration of a Karenia brevis Bloom: Implications for Remote Sensing of Harful Algal Blooms, in: Harmful Algae 2002: Proceedings of the 10th International Conference of Harfmul Algae, Steidinger, K.A., J.H. Landserber, C.R. Tomas, and G.A. Vargo (eds) 2004. Florida Fish and Wildlife Commission, Florida Institute of Oceanography and Intergovernmental Oceanographic Commission of UNESCO, St. Petersburg, Florida, USA. 279-283.

Wolfe, F. D. Grzebyk, O. Schofield , P.G. Falkowski (2005) The role and evolution of superdioxide dismutases in algae. Journal of Phycology DOI: 10.1111/j.-1529-8817.2005.00086: 1-13.

Schofield , O ., Tivey, M. 2005. Ocean Research Interactive Observatory Networks (ORION). National Science Foudation. 295 pp.

Wang, L., L. Song, Y. Chang, W. Xu, D. Ni and X. Guo. 2005. A preliminary genetic map of zhikong scallop (Chlamys farreri, Jones et Preston 1904). Aquaculture Research , 36:643-653.