DMCS Publications 2007

Di Lorenzo, E., Moore, A. M., Arango, H. G., Cornuelle, B. D., Miller, A. J., Powell, B., Chua, B. S., Bennett, A. F. 2007. Weak and strong constraint data assimilation in the inverse Regional Ocean Modeling System (ROMS): Development and application for a baroclinic coastal upwelling system. Ocean Modelling, 16(3-4), 160-187.

Robertson, T.A. and J.S. Weis 2007. Interactions between the grass shrimp, Palaemonetes pugio and the salt marsh grasses Phragmites australis and Spartina alterniflora. Biol Invasions 9: 25-30.

Mac Donald, J., R. Roudez, T. Glover and J.S. Weis. 2007 The invasive green crab and Japanese shore crab: behavioral interactions with a native crab species, the blue crab. Biol Invasions 9: 837-848.

Bass, C.S. , S. Khan and J.S. Weis.2007. Associations of gill branching with gill parasite infections in Fundulus heteroclitus. J. Fish Biol. 71: 920-925.

Bergey, L. and J.S. Weis 2007. Molting as a mechanism of depuration of metals in the fiddler crab, Uca pugnax. Marine Environmental Research 64 556-562

Miller, A. J., Neilson, D. J., Luther, D. S., Hendershott, M. C., Cornuelle, B. D., Worcester, P. F., Dzieciuch, M. A., Dushaw, B. D., Howe, B. A., Levin, J. C., Arango, H. G., Haidvogel, D. B. 2007. Barotropic Rossby wave radiation from a model Gulf Stream. Geophysical Research Letters, 34(L23), L23613.

Kim, Y. and E.N. Powell. 2007. Distribution of parasites and pathologies in sentinel bivalves: NOAA Status and Trends 'Mussel Watch' Program. Journal of Shellfish Research 26:1115-1151.

Sackett, D.K., K.W. Able and T.M. Grothues. 2007. Dynamics of summer flounder, Paralichthys dentatus, seasonal migrations based on ultrasonic telemetry. Estuarine Coastal and Shelf Sciences 74:119-130.

Ng, C., K. W. Able and T. M. Grothues. 2007. Habitat use, site fidelity and movement of adult striped bass in a southern New Jersey estuary based on mobile acoustic telemetry. Transactions of the American Fisheries Society 136:1344-1355.

Able, K.W., P.J. Clarke, R.C. Chambers and D.A. Witting. 2007. Transitions in the morphological features, habitat use, and diet of young-of-the-year goosefish Lophius americanus. Fishery Bulletin 105:457-469.

Grothues, T. M. and K. W. Able. 2007. Scaling acoustic telemetry of bluefish /Pomatomus saltatrix /in an estuarine observatory: detection and habitat use patterns. Transactions of the American Fisheries Society 136:1511-1510.

Kimball, M.E. and K. W. Able. 2007. Tidal utilization of nekton in Delaware Bay restored and reference intertidal salt marsh creeks. Estuaries and Coasts 30(6):1075-1087.

Carlton, A.G., B.J. Turpin, K. E. Altieri, S. Seitzinger, A. Reff, H. Lim, and B. Ervans. 2007. Atmospheric Oxalic Acid and SOA Production from glyoxal: Results of aqueous photooxidation experiments. Atmospheric Environment 41:7588-7602

Cardona-Marek, T., Schaefer, J., Ellickson, K., Barkay, T., Reinfelder, J. R. 2007. Mercury speciation, reactivity, and bioavailability in a highly contaminated esturay, Berry's creek, New Jersey Meadowlands. Environmental Science Technology. 41: 8268-8274.

Castelao, R., Barth, J. A. 2007. The role of wind stress curl in jet seperation at a Cape. Journal of Physical Oceanography 37: 2652-2671.

Qin, Y., X. Liu, H. Zhang, G. Zhang and X. Guo. 2007. Genetic mapping of size-related quantitative trait loci (QTL) in the bay scallop ( Argopecten irradians ) using AFLP and microsatellite markers. Aquaculture , 272:281-290.

Wang, L., H. Zhang, L. Song and X. Guo. 2007. Loss of allele diversity in introduced populations of the hermaphroditic bay scallop Argopecten irradians . Aquaculture , 271:252-259.

Hunt, H., M.J. Maltais, D. Fugate and R.J. Chant 2007. Spatial and temporal variability in juvenile bivalve dispersal: effects of sediment transport and flow regime. Marine Ecology Progress Series. 352 145-150 doi: 10.3354/meps07131

Gaas, B. M., Ammerman, J. W. 2007. Automated high resolution ectoenzyme measurements: instrument development and deployment in three trophic regimes. Limnology and Oceanography Methods 5: 463-473.

Liu, Y., J. R. Key, J. A. Francis and X. Wang, 2007: Possible causes of decreasing cloud cover in the Arctic winter, 1982-2000,Geophysical Research Letters, 34, L14705,doi:10.1029/2007GL030042

White, D., Hinzman, L., Alessa, L., Cassano, J., Chamber, M., Falkner, K., Francis, J., Gutowski, W. J., Holland, M., Holmes, M. R., Hunington, H., Kane, D., Kliskey, A., Lee, C., McClelland, J., Peterson, B., Rupp, S. T., Straneo, F., Steele, M., Woodgate, R., Yang, D., Yoshikawa, Zhang, T. 2007. The arctic freshwater system: Changes and impacts. Journal of Geophysical Research vol 122, G04S54, doi: 10.1029/2006JG000353

Francis, J.A. and E. Hunter, 2007: Changes in the fabric of the Arctic’s greenhouse blanket, Environ. Res. Lett., 2, doi:10.1088/1748-9326/2/4/045011.

Miller, J. R., Chen, Y., Russell, G. L., Franccis, J. A. 2007. Future regime shift in feedbacks during Arctic winter. Geophysical Research Letters 34, L23707, doi:10.1029/2007GL03826

Finkel, Z. V., Sebbo, J., Feist-Burkhardt, S., Irwin, A. J., Katz, M. E., Schofield , O ., Young, J. R., Falkowski, P. G. 2007. A universal driver of macroevolutionary change in the size of marine phytoplankton over the Cenozoic. Proceedings of the National Academy of Sciences 104(51): 20416-20420 . doi/10.1073/pnas.0709381104.

Dagg, M. J., Ammerman, J. W., Amon, R. M., Gardner, W. S., Green, R. E., Lohrenz, S. E. 2007. A review of water column processes influencing hypoxia in the northern Gulf of Mexico. Estuaries and Coasts 30(5): 735-752.

Oliver, M. J., M. Moline, C. Mobley, L. K. Sundman, and O . Schofield 2007. Bioluminescence in a complex coastal environment: 2. Prediction of bioluminescent source depth from spectral water-leaving radiance, Journal of Geophysical Research doi:10.1029/2007JC004136

Moline, M. A. , M. J. Oliver, C. D. Mobley, L. Sundman, S. M. Blackwell, T. Bergmann, W. P. Bissett, J. Case, E. H. Raymond, Schofield , O . 2007. Bioluminescence in a complex coastal environment I: Temporal dynamics of night-time water-leaving radiance . Journal of Geophysical Research. 112, DOI:10.1029/2007JC004138

Litchman E., Klausmeier C. A., Schofield O ., Falkowski P. G. 2007. The role of functional traits and trade-offs in structuring phytoplankton communities: scaling from cellular to ecosystem level. Ecology Letters. 10: 1170-1181

Sylvan, J. B., Quigg, A., Tozzi, S., Ammermann, J. W. 2007. Eutrophication-induced phosphorus limitation in the Mississippi River plume: Evidence from fast repetition rate fluorometry. Limnology and Oceanography 52(6); 2679-2685.

Francis, J., Hunter, E. 2007. Drivers of declining sea ice in the Arctic winter: A tale of two seas. Geophysical Research Letters Vol. 34, L17503, doi:10.1029/2007GL030995.

Falkowski, P. G., Oliver, M. J. 2007. Errantum. Mix and match: how climate selects phytoplankton. 5: 813-815 doi: 10.1038/nmicro1751

Berman-Frank, I., Rosenberg, G., Levitan, O., Haramaty, L., Mari, X. 2007. Coupling between autocatalytic cell death and transparent exopolymeric particle production in the marine cyanobacteria Trichodesmium. Environmental Microbiology. 9: 1415-1422.

Berman-Frank, I., Quigg, A., Finkel, Z., Irwin, A., Haramaty, L. 2007. Nitrogen-fixation strategies and Fe requirements in cyanobacteria. Limnology and Oceanography. 52(5): 2260-2269.

Andrianasolo, E. H., Haramaty, L., Degenhardt, K., Mathew, R., White, E., Lutz, R., Falkowski, P. 2007. Induction of apoptosis by diterpenes from the soft coral Xenia elongata. Journal of Natural Products. 70: 1551-1557.

Shi, T., Sun, Y., Falkowski, P. G. 2007. Effects of iron limitation on the expression of metabolic genes in the marine cyanobacterium Trichodesmium erythraeum IMS101. Environmental Microbiology 9(12): 2945-2956.

Jenny, M. J., R. W. Chapman, A. Mancia, Y.A. Chen, D. J. McKillen, H. Trent, P. Lang, J.-M. Escoubas, E. Bachere, V. Boulo, Z. J. Liu, P. S. Gross, C. Cunningham, P. M. Cupit, A. Tanguy, X. Guo, D. Moraga, I. Boutet, A. Huvet, S. D. Guise, J. S. Almeida, G. W. Warr. A cDNA microarray for Crassostrea virginica and C. gigas . Marine Biotechnology , 9, 577–591.

Qin, Y., X. Liu, H. Zhang, G., Zhang, X. Guo. 2007. Identification and mapping of AFLP markers linked to shell color in bay scallop, Argopecten irradians (Lamarck, 1819). Marine Biotechnology , 9:66-73.

Quilang, J., S. Wang, P. Li, J. Abernathy, E. Peatman, Y. Wang, L. Wang, Y. Shi, R. Wallace, X. Guo, and Z. Liu. 2007. Generation and analysis of ESTs from the eastern oyster, Crassostrea virginica Gmelin and identification of microsatellite and SNP markers. BMC Genomics , 8:157.

Wang, L., L. Song, H. Zhang, Q. Gao and X. Guo. 2007. Genetic linkage map of bay scallop, Argopecten irradians irradians (Lamarck 1819). Aquaculture Research 38 (4):409-419.

Wang, Y. and X. Guo. 2007. Chromosomal mapping of major ribosomal rRNA genes in the hard clam ( Mercenaria mercenaria ) using fluorescence in situ hybridization. Marine Biology , 150:1183-1189.

Wang, Y. and X. Guo. Development and characterization of EST-SSR markers in the eastern oyster Crassostrea virginica . Marine Biotechnology , 9, 500–511.

National research Council Report (Falkowski one of many authors) 2007. The Role of Theory in Advancing 21st Centry Biology: Catalyzing Transformative Research. National Academy of Sciences Report in Brief/main/media/downloads

Falkowski, P. G., Oliver, M. J. 2007. Mix and match: How climate slects phytoplankton. Nature Reviews Microbiology 5: 813-818.

Kennish, M. J. and A. R. Townsend. 2007. Nutrient enrichment and estuarine eutrophication. Ecological Applications, 17(5) Supplement: 1-2.

Kennish, M. J., S. B. Bricker, W. C. Dennison, P. M. Glibert, R. J. Livingston, K. A. Moore, R. T. Noble, H. W. Paerl, J. M. Ramstack, S. Seitzinger, D. A. Tomasko, and I. Valiela. 2007. Barnegat Bay-Little Egg Harbor Estuary: case study of a highly eutrophic coastal bay system. Ecological Applications, 17(5) Supplement: 3-16.

Gao, Y., M. J. Kennish, and A. McGuirk-Flynn. 2007. Atmospheric deposition of nitrogen to New Jersey coastal waters and its implications for nutrient enrichment and biotic impacts. /Ecological Applications/, 17(5) Supplement: 31-41.

Kennish, M. J. (Editor). 2007. Eutrophication of estuarine and shallow coastal marine systems. Ecological Applications, 17(5) Supplement. 196 pp.

Kustka, A., Allen, A., Morel, F. M. M. 2007. Sequence analysis and transcriptional regulation of iron acquistion genes in two marine diatoms. Journal of Phycology 43: 715-729.

Bushek, D., Heidenreich M., Porter D. 2007. The effects of several common anthropogenic contaminats on proliferation of the parasitic oyster pathogen. Marine Environmental Research 64: 535-540.

Able, K.W. and T.M. Grothues. 2007. Diversity of estuarine movements of striped bass (/Morone saxatilis/): a synoptic examination of an estuarine system in southern New Jersey. Fishery Bulletin 105:426-435.

Chant, R.J., W.R. Geyer, R.H Houghton, E. Hunter and J. Lerzcak 2007. Estuarine boundary layer mixing processes: insights from dye experiments. Journal of Physical Oceanography Vol. 37 No 7 1859-1877

Dyhrman, S., Ammerman, J. W., Van Mooy, B. A. S. 2007. Microbes and the marine phosphorus cycle. Oceanography 20: 110-117

Choi, B.-J. and J. L. Wilkin, 2007. The effect of wind on the dispersal of the Hudson River plume. Journal of Physical Oceanography, 37, 1878-1897.

Bidle, K. D., Lee, S., Marchant, D. R., Falkowski, P. G. 2007. Fossil genes and microbes in the oldest ice on Earth. Proceedings of national Academy of Sciences. 104(33):13455-13460.

Reur, M., Barnett, B. A., Bender, M. L., Falkowski, P. G., Hendricks, B. 2007. New estimates of Southern Ocean biological rates from O2/Ar ratios and the triple isotope composition of O2. Deep Sea Research I 54: 951-974.

Able, K.W. and T.M. Grothues. 2007. An approach to understanding habitat dynamics of flatfishes: advantages of biotelemetry. Journal of Sea Research 58:1-7.

Coen, L. D., Brumbaugh, R. D., Bushek, D., Grizzle, R., Luckenbach, M. W., Posey, M. H., Powers, S. P., Tolley, S. G. 2007. Ecosystem services related to oyster restoration. Marine Ecology Progress Series. 341:303-307.

Taylor, D.L., R. Nichols And K.W. Able. 2007. Habitat selection and quality for multiple cohorts of young of the year Bluefish /Pomatomus
saltatrix/: comparisons between estuarine and ocean beaches in southern NJ
. Estuarine Coastal and Shelf Science 73:667-679.

Kimball, M. E. and K. W. Able. 2007. Nekton utilization of intertidal salt marsh creeks: tidal influences in natural Spartina, invasive Phragmites, and marshes treated for Phragmites removal. Journal of Experimental Marine Biology and Ecology 346:87-101.

Wawrik, B., Kutliev D., Abdivasiena U. A., Kukor J. J., Zylstra G. J., Kerkhof, L. 2007. Biogeography of actinomycete communities and Type II polyketide synthase genes in soils collected in New Jersey and central Asia. applied and environmental microbiology doi:10.1128/AEM.02611-06 p. 2982-2989.

Benitez-Nelson C. R., Bidigare R. R., Dickey T. D., Landry M. R., Leonard C. L., Brown S. L., Nencioli F., Rii Y. M., Maiti K., Becker J. W., Bibby T. S., Black W., Cai W., Carlson C. A., Chen F., Kuwahara V. S., Mahaffey C., McAndrew P. A., Quay P. D., Rappé M. S., Selph K. E., Simmons M. P., Yang E. J. 2007. Mesoscale Eddies Drive Increased Silica Export in the Subtropical Pacific OceanScience: 316(5827): 1017-1021.

McGillicuddy, Jr. D., Anderson, L. A., Bates N. R., Bibby T., Buesseler K. O., Carlson C. A., Davis C. S., Ewart C., Falkowski P. G., Goldthwait S. A., Hansell D. A., Jenkins W. J., Johnson R., Kosnyrev V. K., Ledwel J. R.l, Li Q. P., Siegel D. A., Steinberg 2007. Eddy/Wind Interactions Stimulate Extraordinary Mid-Ocean Plankton Blooms. Science: 316(5827):1021-1026.

Finkel, Z. V., Quigg, A. S., Chiambi, R., Schofield , O ., Falkowski, P. G. 2007. Phylogenetic diversity in Cd:P regulation by marine phytoplankton. Limnology and Oceanography 52(3): 1131-1138.

Ildefonse, B., Rona, P. A., Blackman, D. 2007. Drilling the crust at Mid-Ocean Ridges: An "in depth" perspective. Oceanography 20(1): 66-77.

Able, K. W., J. H. Balletto, S. M. Hagan, P. R. Jivoff, and K. Strait. 2007. Linkages between salt marshes and other nekton habitats in Delaware Bay, USA. Reviews in Fisheries Science 15:1-61.

Schofield, O., Kohut, J., Aragon , D., Creed, L., Graver, J., Haldeman, C., Kerfoot, J., Roarty, H., Jones, C., Webb, D., Glenn, S. M. 2007. Slocum Gliders: Robust and ready. Journal of Field Robotics. 24(6): 1-14. DOI: 10:1009/rob.20200

Hagan, S.M., S.A. Brown and K.W. Able. 2007. Production of mummichog (Fundulus heteroclitus): response in marshes treated for common reed (Phragmites australis) removal. Wetlands (27) 1: 54-67.

Rountree, R.A. and K.W. Able. 2007. Spatial and temporal habitat use patterns for salt marsh nekton: implications for ecological functions.
Aquatic Ecology 41: 25-45.

Able, K.W., S.M. Hagan, K. Kovitvongsa, S.A. Brown and J.C. Lamonaca/main/media/downloads 2007. Piscivory by the mummichog (Fundulus heteroclitus): Evidence from the laboratory and salt marshes. Journal of Experimental Marine Biology and Ecology 345:26-37.

Edson, J., T. Crawford, J. Crescenti, T. Farrar, N. Frew, G. Gerbi, C. Helmis, T. Hristov, D. Khelif, A. Jessup, H. Jonsson, M. Li, L. Mahrt, W. McGillis, A. Plueddemann, L. Shen, E. Skyllingstad, T. Stanton, P. Sullivan, J. Sun, J. Trowbridge, D. Vickers, S. Wang, Q. Wang, R. Weller, J. Wilkin, A. J. Williams III, D. Yu, and C. Zappa 2007. The Coupled Boundary Layers and Air-Sea Transfer Experiment in Low Winds, Bulletin of the American Meteorological Society, 88(3), 341-356.

Valle-Levinson, A., K. Holderied, C. Li, and R. J. Chant 2007. Subtidal flow structure at the turning region of a wide outflow plume, Journal of Geophysical Research 112, C04004, doi:10.1029/2006JC003746.

Chatziefthimiou, A D., Crespo-Medina, M., Wang, Y., Vetriani, C., Barkay, T. 2007. The isolation and initial characterization of mercury resistant chemolithotrophic thermohilic bacteria from mecury rich geothermal springs. Extremohiles doi 10.1007/s00792-007-0065-2.

Hugler, M., Huber, H., Molyneaux, L., Vetriani, C., Sievert, S. 2007. Autrophic CO2 fixation via the reductive tricarboxylic acid cycle in different lineages within the phylum Aquificae: evidence for two ways of citrate cleavage. Environmental Microbiology 9: 81-92.

Oliver, M., Petrov, D., Ackerley, D., Falkowski, P. G. Schofield , O.2007. The mode and tempo of genome size evolution in eukaryotes. Journal of Genome Research. doi/10.1101/gr.6096207.

Bidle, K. D., Haramaty, L., Barcelos-Ramos, J., Falkowksi, P. G. 2007. Viral activation and recruitment of metacaspases in the unicellular coccolithophore Emiliana huxleyi. Proceedings of the National Academy of Sciences doi:/10.1073/pnas.0701240104 104:6049-6054.

Uhle M. E., E. L. Sikes , S. D Nodder, and C. A. Pilditch, 2007. Sources and diagenetic status of organic matter in the Hauraki Gulf, New Zealand: Evidence from the carbon isotopic composition of D- and L-amino acids. Organic Geochemistry , 38, 440-457.

Schofield, O., Bosch, J., Glenn, S. M., Kirkpatrick, G., Kerfoot, J., Moline, M., Oliver, M., Bissett, W. P. 2007. Bio-optics in integrated ocean observing networks: potential for studying harmful algal blooms. In Real Time Coastal Observing Systems for Ecosystem Dynamics and Harmful Algal Blooms. Babin, M,. Roesler, C. and J. J. Cullen (Eds). UNESCO, Paris. 85-108.

Bissett, W. P., Arnone, R., Debra, S., Dye, D., Kirkpatrick, G., Mobley, C., Schofield , O. 2007. The integration of ocean color remote sensing with coastal nowcast/forecast simulations of Harmful Algal Blooms (HABs). Real Time Coastal Observing Systems for Ecosystem Dynamics and Harmful Algal Blooms. Babin, M. And Cullen, J. J. (Eds) UNESCO, Paris. 695-732.

Pearson, P. N., van Dongen, B.E., Nicholas, C. J., Pancost, R.D., Schouten, S., Singano, J.M. and Wade, B.S. 2007. Stable warm tropical climate through the Eocene epoch. Geology, 35 (3): 211-214.

Wade, B.S., Berggren, W. A. and Olsson, R. K. 2007. The biostratigraphy and paleobiology of Oligocene planktonic foraminifera from the equatorial Pacific Ocean (ODP Site 1218). Marine Micropaleontology, 62: 167-179.

Allen, D. M., haertel-Borer, S. S., Milan, B. J., Bushek, D., Dame, R. F. (2007). Geomorphological determinants of nekton use of intertidal salt marsh creeks. Marine Ecology Progress Series. 329: 57-71.

Hunter, E., R. Chant, L. Bowers, S. Glenn, and J. Kohut (2007), Spatial and temporal variability of diurnal wind forcing in the coastal ocean, Geophysical Research Letters, 34, L03607, doi:10.1029/2006GL028945.

Hare, J.A. and K.W. Able. 2007. Mechanistic links between climate and fisheries along the east coast of the United States: explaining population outbursts of Atlantic croaker (Micropogonias undulatus). Fisheries Oceanography 16:1,