Publications 2004

Weis, J.S. and P. Weis. 2004. Metal uptake, transport, and release by wetland plants: Implications for phytoremediation and restoration. Environ. Internat. 30: 685-700.

Windham, L., J. Weis and P. Weis 2004. Metal dynamics of plant litter of Spartina alterniflora and Phragmites australis in metal-contaminated marshes. Part 1. Patterns of decomposition and metal uptake. Envir. Toxicol. Chem. 23: 1520-1528.

Weis, J. and P. Weis 2004. Behavior of four species of fiddler crabs, genus Uca, in Southeast Sulawesi, Indonesia. Hydrobiologia 523: 47-58.

Weis, J.S., T. Glover and P. Weis. 2004 Interactions of metals affect their distribution in tissues of Phragmites australis. Environ. Pollution 131: 409-415.

Weis, J.S., J. Skurnick and P. Weis. 2004 Studies of a contaminated brackish marsh in the Hackensack Meadowlands of New Jersey: Metal contamination and benthic community. Marine Pollution Bulletin, 49: 1025-1035

Zhdanova, N. N., Tugay, T., Dighton, J., Zheltonozhsky, V., McDermott, P. 2004. Ionizing radiation attracts soil fungi. Mycologia Research 108: 1089-1096.

Lafferty, K.D, J. A. Porter, and S. E. Ford. 2004. Are diseases increasing in the ocean? Annual Review of Ecology and Systematics 35:31-54.

Galloway, J.N., F.J. Dentener, D.G. Capone, E.W. Boyer, R.W. Howarth, S.P. Seitzinger, G.P. Asner, C. Cleveland, P. Green, E. Holland, D. M. Karl, A.F. Michaels, J.H. Porter, A. Townsend, and C. Vorosmarty. 2004. Nitrogen cycles: past, present and future. Biogeochemistry 70:153-226.

Burreson, E. M. and S. E. Ford. 2004. A review of recent information on the phylum Haplosporidia, with special reference to Haplosporidium nelsoni (MSX disease). Aquatic Living Resources: 17:499-517.

Katz, M. E., Finkel, Z. V, Grzebyk D., Knoll, A. H. Falkowski, P. G. 2004. Evolutionary trjectories and biogeochemical impacts of marine eukaryotic phytoplankton. Ann. Rev. Ecol. Evol. Syst. 35: 523-556.

Reimers, C. E., I. Stecher, Hilmar A., G. L. Taghon, C. M. Fuller, M. Huettel, A. Rusch, N. Ryckelynck, and C. Wild. 2004. In situ measurements of advective solute transport in permeable shelf sands.
Continental Shelf Research 24:183-201.

Guo, X. 2004. Oyster breeding and the use of biotechnology. Bull. Aquacult. Assoc. Canada 104:26-33.

Sabaa, A. T., E. L. Sikes, B. W. Hayward, and W. R. Howard, 2004 Pliocene sea surface temperature changes in ODP Site 1125, Chatham Rise, east of New Zealand, Marine Geology, 205 (1-4) 113-125.

Bushek, D., A.M. Lohrer, and M.J. Hartman. 2004. Using the National Estuarine Research Reserve System as a platform to prevent and control invasions by exotic decapod crabs. NOAA Technical report NA17OR2494.

Bushek, D., D Richardson, M.Y. Bobo and L.D. Coen. 2004. Short-Term Shell Pile Quarantine Reduces the Abundance of Perkinsus marinus Remaining in Tissues Attached to Oyster Shell. J. Shellfish Research, 23(2):369-373.

Bushek, D. and L.D. Coen. 2004. Oysters, Clams, and other Bivalves. In Grolier’s The New Book of Knowledge, Danbury, CT, Scholastic Library Publishing, Inc., Vol. O, pp. 290-91.

Able, K.W., D.M. Nemerson and T.M. Grothues. 2004. Evaluating salt marsh restoration in Delaware Bay: analysis of fish response at former salt hay farms. Estuaries 27(1): 58-69.

Correia, A.T., K.W. Able, C. Antunes, and J. Coimbra. 2004. Early life history of the American conger eel ( Conger oceanicus ) as revealed by otolith microstructure and microchemistry of metamophosing leptocephali. Mar. Biol. 145: 477-488.

Nemerson, D.M. and K.W. Able. 2004. Spatial patterns in diet and distribution of juveniles of four fish species in Delaware Bay marsh creeks: factors influencing fish abundance. Mar. Ecol. Prog. Ser.
276: 249-262

Neuman, M.J., G. Ruess and K.W. Able. 2004. Species composition and food habitats of dominant predators in salt marshes in an urbanized estuary, the Hackensack Meadowlands, New Jersey. Urban Habitats: History, Ecology and Restoration of a Degraded Urban Wetland 2(1): 3-22.

Hentschel, B.T. 2004. Sediment resuspension and boundary layer flow dramatically increase the growth rates of interface-feeding spionid polychaetes. J. Mar. Systems 49: 209-224

Chitty, J.D. and K.W. Able. 2004. Habitat use, movements and growth of the sheepshead minnow, Cyprinodon variegatus, in a restored salt marsh. The Bulletin of the New Jersey Academy of Science 49(2): 1-8.

Scharf, F.S., J.P. Manderson, M.C. Fabrizio, J.O. Pessutti, J.E. Rosendale, R.J. Chant , A.J. Bejda 2004. Seasonal and interannual patterns of distribution and diet of bluefish within a Middle Atlantic Bight estuary in relation to abiotic and biotic factors. Estuaries 2 427-436

Fries, J.S. 2004. General threshold for sediment transport induced by mounds. J. Sedimentary Res. 74 (1): 144-147.

Hunt, H.L. 2004. Effects of epibenthic predators in flow: transport and mortality of juveniles of the soft shell clam Mya arenaria. MEPS 279: 151-160.

Hunt, H.L. 2004. Transport of juvenile clams: effects of species and sediment grain size. JEMBE 312: 271-284.

Chant, R. J.; Glenn, Scott; Kohut, Josh 2004, Flow reversals during upwelling conditions on the New Jersey inner shelf J. Geophys. Res., Vol. 109, No. C12, C12S03. 10.1029/2003JC001941

Lomas, M. W., A. Swain, R. Shelton, and J.W. Ammerman. 2004. Taxonomic Variability of Phosphorus Stress in Sargasso Sea Pphytoplankton. Limnology and Oceanography 49: 2303-2310.

Van Dover, C. L., and R. A. Lutz. 2004. Experimental ecology at deep-sea hydrothermal vents: A perspective. Journal of Experimental Marine Biology and Ecology, 300:273-307.

Hurtado, L.A. , P. Chevaldonne, R.A. Lutz, R.C. Vrijenhoek. 2004. Evolutionary age of vestimentiferan tubeworm lineages (Annelida: Siboglinidae). J. Evolutionary Biology (In Review).

Hurtatdo, L.A. , R.A. Lutz, R.C. Vrijenhoek. 2004. Distinct patterns of genetic differentiation among annelids of Eastern Pacific hydrothermal vents. Molecular Ecology, 13:2603-2615.

Lutz, R.A. 2004. Exploring volcanoes of the deep sea. Asian Geographic Magazine, 25(3):26-35.

Kennish, M. J., S. M. Haag, and G. P. Sakowicz, and J. B. Durand. 2004. Benthic macrofaunal community structure along a well-defined salinity gradient in the Mullica River-Great Bay Estuary. Journal of Coastal Research, SI 45: 229-226.

Kennish, M. J., S. M. Haag, G. P. Sakowicz, and R. Tidd. 2004. Side-scan sonar imaging of subtidal benthic habitats in the Mullica River-Great Bay Estuarine system. Journal of Coastal Research, SI 45: 227-24

Kennish, M. J. 2004. NERRS Research and monitoring: summary and conclusions. Journal of Coastal Research, SI 45: 241-243.

Kennish, M. J. (ed.). 2004. NERRS Research and Monitoring: A Nationally Integrated Program. Journal of Coastal Research, Special Issue No. 45, 243 pp.

Kennish, M. J. 2004. Estuarine Research, Monitoring, and Resource Protection. CRC Press, Boca Raton, Florida, 297 p.

Kennish, M. J. 2004. NERRS Research and Monitoring: A Nationally Integrated Program. Journal of Coastal Research, Special Issue No. 45, 243 pp.

Kennish, M. J. 2004. NERRS Research and monitoring initiatives. Journal of Coastal Research, SI 45: 1-8.

Ma, H. and J.P. Grassle. 2004. Invertebrate larval availability during summer upwelling and downwelling on the inner continental shelf off New Jersey. Journal of Marine Research 62: 837-865.

Wiegner, T. N., and S. P. Seitzinger. 2004. Seasonal bioavailability of dissolved organic carbon and nitrogen from pristine and polluted freshwater wetlands. Limnology and Oceanography 49(5):

Sharp, J.H., A.Y. Beauregard, D. Burdige, G. Cauwet, S.E. Curless, R. Lauck, K. Nagel, H. Ogawa, A.E. Parker, O. Primm, M. Pujo-Pay, W.B. Savidge, S. Seitzinger, G. Spyres, R. Styles. 2004. A direct instrument comparison for measurement of total dissolved nitrogen in seawater. Marine Chemistry 84: 181-193.

Galloway, J.N., F.J. Dentener, D.G. Capone, E.W. Boyer, R.W. Howarth, S.P. Seitzinger, G.P. Asner, C. Cleveland, P. Green, E. Holland, D. M. Karl, A.F. Michaels, J.H. Porter, A. Townsend, and C. Vorosmarty. 2004. Nitrogen cycles: past, present and future. Biogeochemistry 70:153-226 .

Laursen, A. E. and S.P. Seitzinger. 2004. Diurnal patterns of denitrification, oxygen consumption, and nitrous oxide production in rivers. Freshwater Biology49:1448-1458.

Berman-Frank, I., K. Bidle, L. haramaty, P. G. Falkowski. 2004. The demise of the marine cyanobacterium, Trichodesnesium spp., via an autocatalyzed cell death pathway. Limnol. Oceanogr. 49: 997-1005.

Choi, B-J, M. Iskandarani, J. Levin and D.B. Haidvogel, 2004, A spectral finite volume method for the shallow water equations, Monthly Weather Review (MWR) 132: 1777-1791

Choi, B., D. B. Haidvogel, Y. Cho, 2004, Nonseasonal sea level variations in the Japan/East Sea from satellite altimeter data, Journal of Geophysical Research, 109 C12028, doi:10.1029/2004JC002387

Durski, S.M., S.M. Glenn, D.B. Haidvogel, 2004, Vertical mixing schemes in the coastal ocean: Comparison of the Level 2.5 Mellor-Yamada scheme with an enhanced version of the K-profile parameterization,
Journal of Geophysical Research 109 C01015, doi:10.1029/2002JC001702

Moline, M. A., Blackwell, S., Chant, R., Oliver, M. J., Bergmann, T., Glenn, S., Schofield, O. 2004. Episodic physical forcing and the structure of phytoplankton communities in the coastal waters of New Jersey.
Journal of Geophysical Research VOL. 110, C12S05, doi:10.1029/2003JC001985.

Moore, A.M., H.G. Arango, A.J. Miller, B.D. Cornuelle, E. Di Lorenzo and D.J. Neilson, 2004, A Comprehensive Ocean Prediction and Analysis System Based on the Tangent Linear and Adjoint Components of a Regional Ocean Model, Ocean Modelling 7 : 227-258

Vetriani, C., Speck, M.D., Ellor, S.V., Lutz, R.A., and Starovoytov,V. (2004) Thermovibrio ammonificans sp. nov., a thermophilic, chemolithotrophic, nitrate ammonifying bacterium from deep-sea hydrothermal vents. Intl. J. Syst. Evol. Microbiol. 54:175-181.

Reimers, C. E., I. Stecher, Hilmar A., G. L. Taghon, C. M. Fuller, M. Huettel, A. Rusch, N. Ryckelynck, and C. Wild. 2004. In situ measurements of advective solute transport in permeable shelf sands. Continental Shelf Research 24:183-201.

Syamsudin, F., A. Kaneko, D. B. Haidvogel, 2004, Numerical and observational estimates of Indian Ocean Kelvin wave intrusion into Lombok Strait, Geophysical Research Letters, 31 L24307, doi:10.1029/2004GL021227

Corredor, J. Wawrik, B., Paul, J. Tran, H., Kerkhof, L, Lopez, J., Dieppa, A. and O. Cardenas. 2004. Geochemical Rate-RNA integration study: Ribulose 1,5 Bisphosphate Carboxylase/Oxygenase Gene Transcription and Photosynthetic Capacity of Planktonic Photoautotrophs. Appl. Environ. Microbiol. 70: 5459–5468

Fennel, D. E, S. K. Rhee, Y. B. Ahn, M. M. Häggblom, and L. J. Kerkhof. 2004. Detection and Characterization of a Dehalogenating Microorganism by Terminal Restriction Fragment Length Polymorphism Fingerprinting of 16S rRNA in a Sulfidogenic, 2-Bromophenol-Utilizing Enrichment. Appl. Environ. Microbiol. 70: 1169-1175

Bidle, KD and PG Falkowski. 2004. Cell death in planktonic, photosynthetic microorganisms. Nature Reviews Microbiology 2:643-655.

Boyer, D. L., D.B. Haidvogel, N. Pérenne , 2004, Laboratory-Numerical Model Comparisons of Canyon Flows: A Parameter Study, Journal of Physical Oceanography (JPO) , 34 : 1599-1609

Katz , ME , ZV Finkel, D. Grzebyk, AH Knoll and PG Falkowski. 2004. Evolutionary trajectories and biogeochemical impacts of marine eukaryotic phytoplankton. Ann. Rev. Ecol. Evol. Syst. 35:523-556.

Falkowski, PG, ME Katz, AH Knoll, A Quigg, JA Raven, O Schofield, FJR Taylor. 2004. The evolution of modern eukaryotic phytoplankton. Science 305: 354-360.

Falkowski, P.G. and C. Davis. 2004. Natural proportions. Nature 431:131.

Sun, Y, EW Castner Jr., CL Lawson, and PG Falkowski. 2004. Biophysical characterization of natural and mutant fluorscent proteins cloned from zooxanthellate corals. FEBS Letters 570: 175-183.

Falkowski, PG, O Schofield, ME Katz, B van de Schootbrugge , and A Knoll. 2004. Why is the land green and the ocean red? In Coccolithophorids. Ed. H. Thierstein and J. Young. Springer-Verlag. Berlin.

Tchernov, D . et al. 2004. Membrane lipids of symbiotic algae are diagnostic of sensitivity to thermal bleaching in corals. Proc. Nat. Acad. Sci. doi: 10 :1073 PNAS 0402907101

Falkowski, PG , and C. de Vargas. 2004. Shotgun sequencing in the Sea: A blast from the past? Sciencexpress

Tozzi, S., O. Schofield, PG Falkowski. 2004. Historical climate change and ocean turbulence as selective agents for two key phytoplankton functional groups. Marine Ecology Progress Series. 274: 123-132.

Wang, Y. and X. Guo , 2004. Chromosomal rearrangement in Pectinidae revealed by rRNA loci and implications for bivalve evolution. Biol. Bull. , 207:247-256.

Wang, H. X. Guo , G. Zhang and F. Zhang. 2004. Classification of jinjiang oysters Crassostrea rivularis (Gould, 1861) from China , based on morphology and phylogenetic analysis. Aquaculture, 242:137-155

Tanguy, A., X. Guo and S.E. Ford. 2004. Discovery of genes expressed in response to Perkinsus marinus challenge in eastern ( Crassostrea virginica ) and Pacific ( C. gigas ) oysters. Gene , 338:121-131.

Gong, N., H. Yang, G. Zhang, B.J. Landau and X. Guo . 2004. Chromosome inheritance in autotriploid Pacific oyster Crassostrea gigas Thunberg. Heredity , 93:408-415.

Yang, H. and X. Guo . 2004. Tetraploid induction by meiosis inhibition in the dwarf surfclam Mulinia lateralis : effects of cytochalasin B duration. Aquaculture Res. , 35:1187-1194.

Li, L. and X. Guo . 2004. AFLP-based genetic linkage maps of the Pacific oyster Crassostrea gigas Thunberg. Marine Biotechnology 6:26–36.

Wang, Y., Z. Xu and X. Guo . 2004. Differences in the rDNA-bearing chromosome divide the Asian-Pacific and Atlantic species of Crassostrea (Bivalvia, Mollusca). Biol. Bull. , 206:46-54.

Bergmann, T., G. Fahnenstiel, S. Lohrenz, D. Millie, O. Schofield . 2004. Impacts of a resuspension event and variable phytoplankton community composition on remote sensing reflectance. Journal of Geophysical Research . Vol. 109, C10S15, doi: 10.1029/2002JC001575.

Finkel, ZV , AJ Irwin, and O Schofield 2004. Resource limitation alters the 3/4 size scaling of metabolic rates in phytoplankton . Marine Ecology Progress Series . 273: 269-279.

Glenn, S., R. Arnone, T. Bergmann, W. P. Bissett, M. Crowley, J. Cullen, J. Gryzmski, D. Haidvogel, J. Kohut, M. Moline, M. Oliver, C. Orrico, R. Sherrell, T. Song, A. Weidemann, R. Chant, and O. Schofield. 2004. Biogeochemical impact of summertime coastal upwelling on the New Jersey Shelf. JGR, Vol. 109, C12S02, doi:10.1029/2003JC002265.

Glenn, S., O. Schofield, T. Dickey, R. Chant, J. Kohut, H. Barrier, J. Bosch, L. Bowers, L. Creed, C. Haldemann, E. , Hunter, J. Kerfoot, C. Mudgal, M. Oliver, H. Roarty, E. Romana, M. Crowley, D. Barrick, and C. Jones, 2004. The Expanding Role of Ocean Color & Optics in the Changing Field of
Operational Oceanography. Oceanography. 107:86-95.

Gryzebyk, D., M.E. Katz, A.H. Knoll, A. Quigg, J.A. Raven, O. Schofield , F.J.R. Taylor 2004. Response to comment on “The evolution of modern eukaryotic phytplankton” Science , 306 (5705)

Kohut, J. T. , Glenn, S. M., Chant, R. J. 2004. Seasonal current variability on the New Jersey inner shelf. Journal of Geophysical Research . 109, C07S07, doi: 10.1029/2003JC001963.

Lohrenz, S.E., G.L. Fahnenstiel, D.F. Millie, O. Schofield , T. Johengen, T. Bergmann 2004. Bio-Optical properties of psring phytoplankton communities in southeastern Lake Michigan and implications for regional primary production. Journal of Geophysical Research , Vol. 109, C10S14, doi: 10.1029/2004JC002383.

Moline, M., R . Arnone, T. Bergmann, S. Glenn, M. Oliver, C. Orrico, O. Schofield , S. Tozzi, 2004. Variability in Spectral Backscatter Estimated from Satellite and its Relation to In Situ Measurements in Optically Complex Coastal Waters . Journal of International Remote Sensing. 25:1,465-1,468

Moline, M.A., S. Blackwell, R. Chant , M.J. Oliver , T. Bergmann, S. Glenn , O. Schofield 2004. Episodic physical forcing and the structure of phytoplankton communities in the coastal waters of New Jersey. Journal of Geophysical Research , Vol. 110, C12S05, doi: 10.1029/2003JC001985.

Moline, M.A., H. Claustre, T.K. Frazer, M. Vernet, O. Schofield 2004. Environmental forcing of phytoplankton community composition and potential impact on zooplankton in Antarctic coastal waters. Global Change Biology , doi: 10.1111/j.1365-2486.2004.00825. 1-8.

Oliver, M., Kohut, J. , Irwin, A., Schofield. O. , Glenn, S.M. , Moline, M. A. and Bissett, W.P. 2004. Bioinformatic Approaches for Objective detection of water masses . Journal Geophysical Research Vol 109 C07S04 doi: 10.1029/2003JC002072.

Oliver, M. J ., Schofield, O. , Bergmann, T., Glenn, S. M. , Moline, M. A., Orrico, C. 2004. In-situ optically derived phytoplankton absorptioin properties in coastal waters and its utility for estimating primary productivity rates. Journal of Geophysical Research. 109, C07S11, doi: 10.1029/2002JC001627.

Schofield, O. , T. Bergmann, M. Oliver, A. Irwin, G. Kirkpatrick, W.P. Bissett, C. Orrico, M. Moline 2004. Inverting inherent optical signatures in the nearshore coastal waters at the Long Term Ecosystem Observatory: Journal of Geophysical Research Vol. 109, C12S04, doi: 10.1029/2003JC002071.

Schofield, O., S. M. Glenn 2004. On the evolution of coastal ocean observatories. Journal of Geophysical Research, 109, C12S01, doi: 10.1029/2004JC002577.

Schofield, O., Arnone, R., Bissett, W. P., Dickey, T., Davis, C., Finkel, Z., Oliver, M., Moline, M. A. 2004. Watercolors in the coastal zone: What can we see? Oceanography. 107: 28-37.

Schofield, O. , Tivey, M. 2004. Building a window to the sea: O cean R esearch I nteractive O bserving N etworks (ORION). Oceanography. 17: 105-111.

Tozzi, S., Schofield, O., Falkowski, P. 2004. Historical climate change and ocean turbulence as selective agents for two key phytoplankton functional groups. Marine Ecology Progress Series. 274: 123 – 132.

Tozzi, S., Schofield , O ., Moline, M. A., Bergmann, T., Crowley, M., Arnone, R. 2004. Variability in measured and modeled remote sensing reflectance and comparison of SeaWiFS and in situ chloyophyll a distribution for coastal waters at LEO-15. International Journal of Remote Sensing. 5: 1469-1472.

Zheng, H. , G. Zhang, X. Liu, F. Zhang, and X. Guo . 2004. Different responses to selection in two stocks of the bay scallop, Argopecten irradians irradians Lamarck (1819). Journal Experimental Marine Biology Ecology, 313:213-223.