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2008

Kessler, J.D., W.S. Reeburgh, D.L. Valentine, F.S. Kinnaman, E.T. Peltzer, P.G. Brewer, J. Southon, and S.C. Tyler. 2008. A survey of methane isotope abundance (14C, 13C, 2H) from five nearshore marine basins that reveals unusual radiocarbon levels in subsurface waters. Journal of Geophysical Research, 113: 1–13. http://dx.doi.org/10.1029/2008JC004822

Kildow, J. 2008. Phase II Florida's Ocean and Coastal Economies Report: 219.

Kildow, J. 2008. The Influence of Coastal Preservation and Restoration on Coastal Real Estate Value. In The Economic and Market Value of Coasts and Estuaries, Restore America’s Estuaries: 116–131.

Kudela, R.M., J.P. Ryan, M.D. Blakely, J.Q. Lane, and T.D. Peterson. 2008. Linking the physiology and ecology of Cochlodinium to better understand harmful algal bloom events: A comparative approach. Harmful Algae, 7: 278–292. http://dx.doi.org/10.1016/j.hal.2007.12.016

Lapham, L.L., J.P. Chanton, C.S. Martens, P.D. Higgley, H. Jannasch, and J.R. Woolsey. 2008. Measuring temporal variability in pore-fluid chemistry to assess gas hydrate stability: Development of a continuous pore-fluid array. Environmental Science and Technology, 42: 7368–7373.

McCann, M., and K. Gomes. 2008. Oceanographic data provenance tracking with the Shore Side Data System. Proceedings of the Second International Provenance and Annotation Workshop: 309–322.

McGann, C., F. Py, K. Rajan, H. Thomas, R. Henthorn, and R. McEwen. 2008. A deliberative architecture for AUV control. Proceedings of the International Conference on Robotics and Automation: 1049–1054.

McGann, C., F. Py, K. Rajan, H. Thomas, R. Henthorn, and R. McEwen. 2008. Automated decision making for a new class of AUV science. Proceedings of the American Society of Limnology and Oceanography / Ocean Sciences Meeting.

McGann, C., F. Py, K. Rajan, H. Thomas, R. Henthorn, and R. McEwen. 2008. Preliminary results for model-based adaptive control of an autonomous underwater vehicle. Proceedings of the International Symposium on Experimental Robotics.

McGann, C., F. Py, K. Rajan, J. Ryan, and R. Henthorn. 2008. Adaptive control for autonomous underwater vehicles. Proceedings of the Association for the Advancement for Artificial Intelligence National Conference, 1319–1324.

Meduna, D., S.M. Rock, and R. McEwen. 2008. Low-cost terrain-relative navigation for long-range AUVs. Proceedings of the Marine Technology Society / Institute of Electrical and Electronics Engineers Oceans Conference.

Mikulski, C.M., Y.T. Park, K.L. Jones, C.K. Lee, W.A. Lim, C.A. Scholin, and G.J. Doucette. 2008. Development and field application of rRNA-targeted probes for the detection of Cochlodinium ploykrikoides in Korean coastal waters using whole cell and sandwich hybridization formats. Harmful Algae, 7: 347–359.

Monterey Bay Aquarium Research Institute. 2008. Ocean Science Summit Report: Climate Change and Ocean Health: 82.

Moore, W.S., W. Ussler III, and C.K. Paull. 2008. Short-lived radium isotopes in the Hawaiian margin: Evidence for large fluid fluxes through the Puna Ridge. Marine Chemistry, 109: 421–430. http://dx.doi.org/10.1016/j.marchem.2007.09.010

Moore, W.S., W. Ussler III, and C.K. Paull. 2008. Short-lived radium isotopes in the Hawaiian margin: Evidence for large fluxes through the Puna Ridge. Marine Chemistry, 109: 421–430. http://dx.doi.org/10.1016/j.marchem.2007.09.010

National Oceans Economics Program. 2008. California Ocean and Coastal Investment Study: Final Report: 34.

Nielsen, M.E., C.E. Reimers, H.K. White, S. Sharma, and P.R. Girguis. 2008. Sustainable energy from deep ocean cold seeps. Energy and Environmental Science, 1: 584–593. http://dx.doi.org/10.1039/b811899j

Nyholm, S.V., J. Robidart, and P.R. Girguis. 2008. Coupling metabolite flux to transcriptomics: Insights into the molecular mechanisms underlying primary productivity by the hydrothermal vent tubeworm Ridgeia piscesae. Biological Bulletin, 214: 255–265.

Pane, E.F., M. Grosell, and J.P. Barry. 2008. Hypercapnic tolerance of deep- and shallow-living crabs. Aquatic Biology, 4: 23–32.

Paull, C.K., and W. Ussler III. 2008. Re-evaluation of the significance of seafloor accumulations of methane-derived carbonates: Seepage or erosion indicators? Proceedings of the Sixth International Conference on Gas Hydrates.

Paull, C.K., W. Ussler III, W.R. Normark, and R. Keaten. 2008. Tracking the dispersal of DDT residue-bearing sediments onto the floor of the Santa Monica Basin. Progress in Pesticide Research: 17.

Paull, C.K., W.R. Normark, W. Ussler III, D.W. Caress, and R. Keaten. 2008. Association among active seafloor deformation, mound formation, and gas hydrate growth and accumulation with the seafloor of the Santa Monica Basin, offshore California. Marine Geology, 250: 258–275.

Peltzer, E.T., and P.G. Brewer. 2008. Beyond pH and temperature: Thermodynamic constraints imposed by global warming and ocean acidification on midwater respiration by marine animals. Proceedings of the International Council for the Exploration of the Sea Annual Science Conference.

Potuzak, M., A.R.L. Nichols, D.B. Dingwell, and D.A. Clague. 2008. Hyperquenched volcanic glass from Loihi Seamount, Hawaii. Earth and Planetary Science Letters, 270: 54–62. http://dx.doi.org/10.1016/j.epsl.2008.03.018

Rago, T.A., R. Michisaki, B. Marinovic, M. Blum, and K. Whitaker. 2008. Physical, Nutrient, and Biological Measurements of Coastal Waters off Central California in June 2008: 46.

Rago, T.A., R. Michisaki, B. Marinovic, M. Blum, and K. Whitaker. 2008. Physical, Nutrient, and Biological Measurements of Coastal Waters off Central California in November 2007: 70.

Ramp, S.R., D.E. Barrick, T. Ito, and M.J. Cook. 2008. Variability of the Kuroshio Current south of Sagami Bay as observed by long-range coastal HF radar. Journal of Geophysical Research, 113. http://dx.doi.org/10.1029/2007JC004132

Rienecker, E.R., J.P. Ryan, R. Marin III, M. Blum, C. Dietz, and F.P. Chavez. 2008. Synoptic mapping of the phytoplankton size distribution, with applications to the ecology of red tides and harmful algal blooms. Limnology and Oceanography: Methods, 6: 153–161.

Robbens, S., P. Rouzé, J.M. Cock, J. Spring, A.Z. Worden, and Y.J. Van de Peer. 2008. The FTO gene, implicated in human obesity, is found only in vertebrates and marine algae. Molecular Evolution, 66: 80–84. http://dx.doi.org/10.1007/s00239-007-9059-z

Rouse, G.W., K. Worsaae, S.B. Johnson, W.J. Jones, and R.C. Vrijenhoek. 2008. Acquisition of dwarf male "harems" by recently settled females of Osedax roseus n. sp. (Siboglinidae; Annelida). Biological Bulletin, 214: 67–82. http://dx.doi.org/10.2307/25066661

Ruhl, H.A., J.A. Ellena, and K.L. Smith Jr. 2008. Connections between climate, food limitation, and carbon cycling in abyssal sediment communities. Proceedings of the National Academy of Sciences, 105: 17006–17011. http://dx.doi.org/10.1073/pnas.0803898105

Ryan, J.P., J.F.R. Gower, S.A. King, W.P. Bissett, A.M. Fischer, R.M. Kudela, Z. Kolber, F. Mazzillo, E.R. Rienecker, and F.P. Chavez. 2008. A coastal ocean extreme bloom incubator. Geophysical Research Letters, 35. http://dx.doi.org/10.1029/2008GL034081

Ryan, J.P., M.A. McManus, J.D. Paduan, and F.P. Chavez. 2008. Phytoplankton thin layers within coastal upwelling system fronts. Marine Ecology Progress Series, 354: 21–34.

Saba, V., J. Spotila, F.P. Chavez, and J. Musick. 2008. Bottom-up and climate forcing on the worldwide populations of leatherback turtles. Ecology, 89: 1414–1427.

Schnitzler, C.E., R.J. Keenan, R. McCord, A. Matysik, L.M. Christianson, and S.H.D. Haddock. 2008. Spectral diversity of fluorescent proteins from the anthozoan Corynactis californica. Marine Biotechnology, 10: 328–342. http://dx.doi.org/10.1007/s10126-007-9072-7

Scholin, C.A., G.J. Doucette, and A.D. Cembella. 2008. Prospects for developing automated systems for in situ detection of harmful algae and their toxins. Real-Time Coastal Observing Systems for Ecosystem Dynamics and Harmful Algal Blooms: 413–462.

Smith Jr., K.L., H.A. Ruhl, R.S. Kaufmann, and M. Kahru. 2008. Tracing abyssal food supply back to upper-ocean processes over a 17-year time series in the Northeast Pacific. Limnology and Oceanography, 53: 2655–2667.

Solomon, E.A., M. Kastner, H. Jannasch, G. Robertson, and Y. Weinstein. 2008. Dynamic fluid flow and chemical fluxes associated with a seafloor gas hydrate deposit on the northern Gulf of Mexico slope.. Earth and Planetary Science Letter, 270: 95–105. http://dx.doi.org/10.1016/j.epsl.2008.03.024

Staaf, D.J., S. Camarillo-Coop, S.H.D. Haddock, A.C. Nyack, J. Payne, R. Ramirez-Rojo, C.A. Salinas-Zavala, B.A. Seibel, L. Trueblood, C. Widmer, and W.F. Gilly. 2008. Natural egg mass deposition by the Humboldt squid (Dosidicus gigas) in the Gulf of California and characteristics of hatchlings and paralarvae . Journal of the Marine Biological Association of the United Kingdom, 88: 759–770. http://dx.doi.org/10.1017/S0025315408001422

Strutton, P.G., W. Evans, and F.P. Chavez. 2008. Equatorial Pacific chemical and biological variability, 1997–2003. Global Biogeochemical Cycles, 22. http://dx.doi.org/10.1029/2007GB003045

Turcotte, M.M., M.N. Pires, R.C. Vrijenhoek, and D.N. Reznick. 2008. Maternal provisioning in livebearing fish species and their hybrids (Poeciliidae: Poeciliopsis). Functional Ecology, 22: 1118–1124. http://dx.doi.org/10.1111/j.1365-2435.2008.01461.x

Ussler III, W., and C.K. Paull. 2008. Detection of methane sources along the California continental margin using water column anomalies. Proceedings of the Sixth International Conference on Gas Hydrates.

Ussler III, W., and C.K. Paull. 2008. Rates of anaerobic oxidation of methane and authigenic carbonate mineralization in methane-rich deep-sea sediments inferred from models and geochemical profiles. Earth and Planetary Science Letters, 266: 271–287.

Vrijenhoek, R.C. 2008. Valuing what most will never see. Trends in Ecology & Evolution, 23: 10–11.

Vrijenhoek, R.C., P.C. Collins, and C.L. Van Dover. 2008. Bone-eating marine worms: Habitat specialists or generalists?. Proceedings of the Royal Society B, 275: 1963–1964. http://dx.doi.org/10.1098/rspb.2008.0350

Walz, P.M., W.J. Kirkwood, E.T. Peltzer, K.C. Hester, and P.G. Brewer. 2008. Creating controlled CO2 perturbation experiments on the seafloor — Development of FOCE techniques. Proceedings of the Marine Technology Society / Institute of Electrical and Electronics Engineers Kobe Techno Meeting.

Wang, K., D. Klimov, and Z. Kolber. 2008. Long period grating-based ocean pH sensor in an SMS fiber. Proceedings of SPIE, 6932.

Wheat, C.G., P. Fryer, A.T. Fisher, S. Hulme, H. Jannasch, M.J. Mottl, and K. Becker. 2008. Borehole observations of fluid flow from South Chamorro Seamount, an active serpentinite mud volcano in the Mariana forearc.. Earth and Planetary Science Letters, 267: 401–409. http://dx.doi.org/10.1016/j.epsl.2007.11.057

Won, Y.J., W.J. Jones, and R.C. Vrijenhoek. 2008. Absence of co-speciation between deep-sea mytilids and their thiotrophic endosymbionts. Journal of Shellfish Research, 27: 129–138.

Worden, A.Z., and F. Not. 2008. Ecology and diversity of picoeukaryotes. Microbial Ecology of the Oceans, Second Edition, 159–206.

Zedlitz, J., J. Graybeal, and N. Luttenberger. 2008. Using XML-based formats for marine data. Proceedings of the Ocean Sensors Workshop.

Zeidberg, L. D., and B. Robison. 2008. Reply to Watters et al.: Range expansion by the Humboldt squid. Proceedings of the National Academy of Sciences Online, 105. http://dx.doi.org/10.1073/pnas.0710602105

Zhang, Y., and J.G. Bellingham. 2008. An efficient method of selecting ocean observing locations for capturing the leading modes and reconstructing the full field. Journal of Geophysical Research, 113. http://dx.doi.org/10.1029/2007JC004327

2007

Adams, L., and G.I. Matsumoto. 2007. Investigating coastal processes and nitrate levels in the Elkhorn Slough using real-time data. Oceanography, 20: 200–204.

Allison, N., A.A. Finch, J.M. Webster, and D.A. Clague. 2007. Paleoenvironmental records from fossil corals: The effects of submarine diagenesis on temperature and climate estimates. Geochimica et Cosmochimica Acta, 71: 4693–4703.

Barde, J., D.R. Edgington, and J.C. Desconnets. 2007. A generic approach to manage metadata standards. OSGeo Journal, 3: 24–30.

Barry, J.P., and J.C. Drazen. 2007. Response of deep-sea scavengers to mild hypercapnia and the odor from a dead grenadier. Marine Ecology Progress Series, 350: 193–207.

Barry, J.P., P.J. Whaling, and R.K. Kochevar. 2007. Growth, production, and mortality of the chemosynthetic vesicomyid bivalve, Calyptogena kilmeri, from cold seeps off central California. Marine Ecology, 28: 169–182. http://dx.doi.org/10.1111/j.1439-0485.2007.00119.x

Bird, L.E., A.D. Sherman, and J. Ryan. 2007. Development of an active, large volume, discrete seawater sampler for autonomous underwater vehicles. Proceedings of the Marine Technology Society / Institute of Electrical and Electronics Engineers Oceans Conference.

Bird, L.E., C.K. Paull, and B. Hobson. 2007. Instrumentation for investigating submarine canyons: The development of a self-triggering event detector to investigate sediment transport events. Sea Technology, 48: 17–21.

Braby, C.E., G.W. Rouse, S.B. Johnson, W.J. Jones, and R.C. Vrijenhoek. 2007. Bathymetric and temporal variation among Osedax boneworms and associated megafauna on whale-falls in Monterey Bay, California. Deep-Sea Research Part I, 54: 1773–1791. http://dx.doi.org/10.1016/j.dsr.2007.05.014

Browne, W.E., S.H.D. Haddock, and M.Q.Martindale. 2007. Phylogenetic analysis of lineage relationships among hyperiid amphipods as revealed by examination of the mitochondrial gene, cytochrome oxidase I (COI). Integrative and Comparative Biology, 47: 815–830. http://dx.doi.org/10.1093/icb/icm093

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

Caldeira, K, D. Archer, J.P. Barry, R. Bellerby, P.G. Brewer, L. Cao, A.G. Dickson, S.C. Doney, H. Elderfield, V. Fabry, R.A. Freely, J.P. Gattuso, O. Hoegh-Guldberg, P.M. Haugan, J.A. Kleypas, C. Langdon, J.C. Orr, A. Ridgwell, C.L. Sabine, B.A. Seibel, C. Turley, A. Watson, and R. Zeebe. 2007. Comment on "Modern-age buildup of CO2 and its effects on seawater acidity and salinity". Geophysical Research Letters, 34: 1–3. http://dx.doi.org/10.1029/2006GL027288

Chai, F., M.S. Jiang, Y. Chao, R.C. Dugdale, F.P. Chavez, and R.T. Barber. 2007. Modeling responses of diatom productivity and biogenic silica export to iron enrichment in the equatorial Pacific Ocean. Global Biogeochemical Cycles, 21: 1–16. http://dx.doi.org/10.1029/2006GB002804

Chavez, F.P., T. Takahashi, W.J. Cai, G.E. Friederich, B. Hales, R. Wanninkhof, and R.A. Feely. 2007. Coastal Oceans, Lakes, and Rivers. The First State of the Carbon Cycle Report (SOCCR): The North American carbon budget and implications for the global carbon cycle: 157–166.

Cline, D., D.R. Edgington, and J. Mariette. 2007. An automated visual event detection system for cabled observatory video. Proceedings of the Marine Technology Society / Institute of Electrical and Electronics Engineers Oceans Conference.

Comeau, A.J., M.R. Lewis, J. Cullen, R.S. Adams, J. Andrea, S. Feener, S.D. McLean, K.S. Johnson, L.J. Coletti, H. Jannasch, S. Fitzwater, C. Moore, and A.H. Barnard. 2007. Monitoring the spring bloom in an ice-covered fjord with the Land/Ocean Biogeochemical Observatory (LOBO). Proceedings of the Marine Technology Society / Institute of Electrical and Electronics Engineers Oceans Conference.

Davis, A.S., D.A. Clague, and J.B. Paduan. 2007. Diverse origins of zenoliths from seamounts at the continental margin, offshore central California. Journal of Petrology, 48: 829–852.

Dolenc, D., B. Romanowicz, R. Uhrhammer, P. McGill, D. Neuhauser, and D. Stakes. 2007. Identifying and removing noise from the Monterey ocean bottom broadband seismic station (MOBB) data. Geochemistry, Geophysics, Geosystems, 8: 1–17. http://dx.doi.org/10.1029/2006GC001403

Drazen, J.C., K.R. Reisenbichler, and B.H. Robison. 2007. A comparison of absorption and assimilation efficiencies between four species of shallow- and deep-living fishes. Marine Biology, 151: 1551–1558. http://dx.doi.org/10.1007/s00227-006-0596-6

Edgington, D.R., D. Cline, J. Mariette, and I. Kerkez. 2007. Detecting and tracking events automatically in underwater video. ASLO Aquatic Sciences Meeting.

Foster, M.S., L.M. McConnico, L. Lundsten, T. Wadsworth, T. Kimball, L.B. Brooks, M. Medina-Lopez, R. Riosmena-Rodriguez, G. Hernandez-Carmona, R.M. Vasquez-Elizondo, S. Johnson, and D.L. Steller. 2007. Diversity and natural history of a Lithothamnion muelleri-Sargassum horridum community in the Gulf of California. Ciencias Marinas, 33: 367–384.

Fox, M., D. Long, F. Py, K. Rajan, and J. Ryan. 2007. In-situ analysis for intelligent control. Oceans 2007.

Fujikura, K., K. Amaki, J.P. Barry, Y. Fujiwara, Y. Furushima, R. Iwase, H. Yamamoto, and T. Maruyama. 2007. Direct observations of spawning behavior and synchrony in Calyptogena clams using an observatory and an estimate of fecundity. Marine Ecology Progress Series, 333: 185–193.

Godhea, A., C. Cusack, J. Pedersen, P. Andersen, D. Anderson, E. Bresnan, A. Cembella, E. Dahl, S. Diercks, M. Elbrächter, L. Edler, L. Galluzzi, C. Gescher, M. Gladstone, B. Karlson, D. Kulis, M. LeGresley, O. Lindahl, R. Marin III, G. McDermott, L.K. Medlin, L.J. Naustvoll, A. Penna, and K. Töbef. 2007. Intercalibration of classical and molecular techniques for identification of Alexandrium fundyense (Dinophyceae) and estimation of cell densities. Harmful Algae, 6: 56–72.

Godin, M.A., and J.G. Bellingham. 2007. Data exploration for multidisciplinary research. Proceedings of the Marine Technology Society / Institute of Electrical and Electronics Engineers Oceans Conference.

Goffredi, S.K., S.B. Johnson, and R.C. Vrijenhoek. 2007. Genetic and potential function of microbial symbionts associated with newly discovered species of Osedax polychaete worms. Applied and Environmental Microbiology, 73: 2314–2323. http://dx.doi.org/10.1128/AEM.01986-06

Gomes, K., J. Graybeal, and T.  O'Reilly. 2007. Data management issues on operational ocean observatories. Sea Technology, 48: 17–20.

Graybeal, J., S. Watson, A. Isenor, and L. Bermudez. 2007. Sensor metadata interoperability workshop report. The Marine Metadata Workshop: Sensor Metadata Interoperability.

Grebmeier, J.M., and J.P. Barry. 2007. Benthic processes in polar polynyas. Polynyas: Windows into polar oceans, Elsevier Oceanography Series: 262–290.

Grech, C., and S.M. Rock. 2007. Rediscovery of the USS Macon - First archeological survey of the last flying aircraft carrier using advanced imaging and offshore technology. Proceedings of the Marine Technology Society / Institute of Electrical and Electronics Engineers Oceans Conference.

Haywood, A.J., C.A. Scholin, R. Marin III, K.A. Steidinger, C. Heil, and J. Ray. 2007. Molecular detection of the brevetoxin-producing dinoflagellate Karenia brevis and closely related species using rRNA-targeted probes and a semiautomated sandwich hybridization assay. Journal of Phycology, 43: 1271–1286. http://dx.doi.org/10.1111/j.1529-8817.2007.00407.x

Hester, K.C., R.M. Dunk, P. Walz, E.T. Peltzer, E.D. Sloan, and P.G. Brewer. 2007. Direct measurements of multi-component hydrates on the seafloor: Pathways to growth. Fluid Phase Equilibria, 261: 396–406.

Hester, K.C., R.M. Dunk, S.N. White, P.G. Brewer, E.T. Peltzer, and E.D. Sloan. 2007. Gas hydrate measurements at Hydrate Ridge using Raman spectroscopy. Geochimica et Cosmochimica Acta, 71: 2947–2959. http://dx.doi.org/10.1016/j.gca.2007.03.032

Hobson, B., R. McEwen, J. Erickson, T. Hoover, L.R. McBride, F. Shane, and J.G. Bellingham. 2007. The development and ocean testing of an AUV docking station for a 21-inch AUV. Proceedings of the Marine Technology Society / Institute of Electrical and Electronics Engineers Oceans Conference.

Huffard, C.L. 2007. Ethogram of Abdopus aculeatus (Cephalopoda: Octopodidae): Can behavioral characters inform octopod taxonomy and systematics?. Journal of Molluscan Studies, 73: 185–193.