This is a select list of works produced by the faculty of the USF College of Marine Science. Materials are included when two conditions are satisfied: 1) the creator approves inclusion and 2) the publisher allows the material to be placed in the repository. Please direct questions or requests to expand the list of materials to Jason Boczar.

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Submissions from 2006

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Changes in the Circulation of Tampa Bay Due to Hurricane Frances as Recorded by ADCP Measurements and Reproduced with a Numerical Ocean Model, M. Wilson, S. D. Meyers, and Mark E. Luther

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FastGroupII: A Web-based Bioinformatics Platform for Analyses of Large 16S rDNA Libraries, Yanan Yu, Mya Breitbart, Pat McNairnie, and Forest Rohwer

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Bridging between Seawifs and Modis for Continuity of Chlorophyll-A Concentration Assessments Off Southeastern China, Mingrui Zhang, C. Hu, S. Shang, Frank E. Muller-Karger, Y. Li, M. Dai, B. Huang, X. Ning, and H. Hong

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RNA Viral Community in Human Feces: Prevalence of Plant Pathogenic Viruses, Tao Zhang, Mya Breitbart, Wah Heng Lee, Jin-Quan Run, Chia Lin Wei, Shirlena Wee Ling Soh, Martin Hibberd, Edison Liu, Forest Rohwer, and Yijun Ruan

Submissions from 2005

Multi-Scale Remote Sensing of Coral Reefs, S. Andréfouët, E. J. Hochberg, C. Chevillon, Frank E. Muller-Karger, J. C. Brock, and C. Hu

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PHACCS, An Online Tool for Estimating the Structure and Diversity of Uncultured Viral Communities Using Metagenomic Information, Florent Angly, Beltran Rodriguez-Brito, David Bangor, Patrick McNairnie, Mya Breitbart, Peter Salamon, Ben Felts, James Nulton, Joseph Mahaffy, and Forest Rohwer

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Interannual and Decadal Variability of the Western Pacific Sea Surface Condition for the Years 1787-2000: Reconstruction Based on Stable Isotope Record from a Guam Coral, Ryuji Asami, Tsutomu Yamada, Yasufumi Iryu, Terrence M. Quinn, Christopher P. Meyer, and Gustav Paulay

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Fco2 Variability at the Cariaco Tropical Coastal Upwelling Time Series Station, Y. M. Astor, M. I. Scranton, Frank E. Muller-Karger, R. Bohrer, and J. García

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Eddy Forced Variations in On-And Off-Margin Summertime Circulation along the 1000-M Isobath of the Northern Gulf of Mexico, 2000-2003, and Links with Sperm Whale Distributions along the Middle Slope, D. C. Biggs, A. E. Jochens, M. K. Howard, S. F. Dimarco, K. D. Mullin, R. R. Leben, Frank E. Muller-Karger, and Chuanmin Hu

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Microbial Communities Associated with Skeletal Tumors on Porites compressa, Mya Breitbart, Ranjeet Bhagooli, Sean Griffin, Ian Johnston, and Forest Rohwer

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Phage Ecology and Bacterial Pathogenesis, Mya Breitbart, F. Rohwer, and S. T. Abedon

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Here a Virus, There a Virus, Everywhere the Same Virus?, Mya Breitbart and Forest Rohwer

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Method for Discovering Novel DNA Viruses in Blood Using Viral Particle Selection and Shotgun Sequencing, Mya Breitbart and Forest Rohwer

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Copper Speciation in San Francisco Bay: A Novel Approach Using Multiple Analytical Windows, Kristen N. Buck and Kenneth W. Bruland

Variability of the Sea Surface Temperature around Cuba, S. Cerdeira-Estrada, Frank E. Muller-Karger, and A. Gallegos-García

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COMPS, SEACOOS and Near-Shore Waves, Rick Cole, Neil Trenaman, Robert H. Weisberg, and Kevin Amundsen

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Autobiographical Sketches of Women in Oceanography, Kendra L. Daly

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Auditory Sensitivity of Sergeant Major Damselfish Abudefduf saxatilis from Post-Settlement Juvenile to Adult, Sarah A. Egner and David A. Mann

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Global Change and Modern Coral Reefs: New Opportunities to Understand Shallow-Water Carbonate Depositional Processes, Pamela Hallock

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Interannual Temperature Variability in the Tropical Pacific and Lagrangian Heat Transport Pathways, C. L. Holland and Gary T. Mitchum

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Erratum: Assessment of Estuarine Water-Quality Indicators Using Modis Medium-Resolution Bands: Initial Results from Tampa Bay, Fl (Remote Sensing of Environment (2004) 93 (423-441) Doi: 10.1016/J.Rse.2004.08.007), C. Hu, Z. Chen, T. D. Clayton, P. Swarzenski, J. C. Brock, and Frank E. Muller-Karger

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Mississippi River Water in the Florida Straits and in the Gulf Stream Off Georgia in Summer 2004, Chuanmin Hu, James R. Nelson, Elizabeth Johns, Zhiqiang Chen, Robert H. Weisberg, and Frank E. Muller-Karger

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Red Tide Detection and Tracing Using Modis Fluorescence Data: a Regional Example in Sw Florida Coastal Waters, C. Hu, Frank E. Muller-Karger, C. Taylor, Kendall L. Carder, C. Kelble, E. Johns, and C. A. Heil

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Reduced Horizontal Sea Surface Temperature Gradients under Conditions of Clear Skies and Weak Winds, Kristina B. Katsaros, Alexander Soloviev, Robert H. Weisberg, and Mark E. Luther

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Fe and Zn Effects on the Si Cycle and Diatom Community Structure in Two Contrasting High and Low-silicate HNLC Areas, Karine Leblanc, Clinton Hare, P. W. Boyd, Kenneth Bruland, Bettina Sohst, Stuart Pickmere, Maeve Lohan, Kristen N. Buck, Michael Ellwood, and David Hutchins

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Diffuse Attenuation Coefficient of Downwelling Irradiance: An Evaluation of Remote Sensing Methods, ZhongPing Lee, Miroslaw Darecki, Kendall L. Carder, Curtiss O. Davis, Dariusz Stramski, and W. Joseph Rhea

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Momentum Balance Diagnoses for the West Florida Shelf, Yonggang Liu and Robert H. Weisberg

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Patterns of Ocean Current Variability on the West Florida Shelf Using the Self-Organizing Map, Yonggang Liu and Robert H. Weisberg

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Below-Cloud Ammonia Scavenging in Convective Thunderstorms at a Coastal Research Site in Tampa, FL, USA, Constance A. Mizak, Scott Campbell, Mark E. Luther, Robert P. Carnahan, Robert J. Murphy, and Noreen Poor

The Color of the Coastal Ocean and Applications in the Solution of Research and Management Problems, Frank E. Muller-Karger, C. Hu, S. Andréfouët, R. Varela, and R. Thunell

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The Antares Observation Network, Frank E. Muller-Karger, Chuamin Hu, Brock Murch, and Charles Taylor

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The Importance of Continental Margins in the Global Carbon Cycle, Frank E. Muller-Karger, R. Varela, R. Thunell, R. Luerssen, C. Hu, and John Walsh

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Ocean Observatories Initiative Science Plan: Revealing the Secrets of Our Ocean Planet, ORION Executive Steering Committee and Kendra L. Daly

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GGM02 - An Improved Earth Gravity Field Model from GRACE, B. D. Tapley, J. C. Ries, S. Bettadpur, Don P. Chambers, M. Cheng, F. Condi, B. Gunter, Z. Kang, P. Nagel, R. Pastor, T. Pekker, S. Poole, and F. Wang

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Relative Humidity Over the West Florida Continental Shelf, Jyotika I. Virmani and Robert H. Weisberg

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West Florida Shelf Circulation on Synoptic, Seasonal, and Interannual Time Scales, Robert H. Weisberg, Ruoying He, Yonggang Liu, and Jyotika I. Virmani

Submissions from 2004

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Use of In Situ and Airborne Reflectance for Scaling-Up Spectral Discrimination of Coral Reef Macroalgae from Species to Communities, Serge Andrefouet, Claude Payri, Eric J. Hochberg, Chuanmin Hu, Marlin J. Atkinson, and Frank E. Muller-Karger

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Diversity and Population Structure of a Near–shore Marine–sediment Viral Community, Mya Breitbart, Ben Felts, Scott Kelley, Joseph Mahaffy, James Nulton, Peter Salamon, and Forest Rohwer

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Global Distribution of Nearly Identical Phage-encoded DNA Sequences, Mya Breitbart, Jon Miyake, and Forest Rohwer

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Phage Community Dynamics in Hot Springs, Mya Breitbart, Linda Wegley, Steven Leeds, Tom Schoenfeld, and Forest Rohwer

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Widespread Association of a Rickettsiales‐like Bacterium with Reef‐building Corals, Veronica Casas, David Kline, Linda Wegley, Yanan Yu, Mya Breitbart, and Forest Rohwer

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Preliminary Observations of Global Ocean Mass Variations with GRACE, D. Chambers, J. Wahr, and R Steven Nerem

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Overwintering Growth and Development of Larval Euphausia superba: An Interannual Comparison under Varying Environmental Conditions West of the Antarctic Peninsula, Kendra L. Daly

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Chemical and Biological Sensors for Time-Series Research: Current Status and New Directions, Kendra L. Daly, Robert H. Byrne, Andrew G. Dickson, Scott M. Gallager, Mary J. Perry, and Margaret K. Tivey

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Comparisons of Morphology and Neritic Distributions of Euphausia Crystallorophias and Euphausia Superba Furcilia during Autumn and Winter West of the Antarctic Peninsula, Kendra L. Daly and Jason J. Zimmerman

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Annual Cycles of Gonadal Development of Six Common Gorgonians from Biscayne National Park, Florida, Usa, K. Fitzsimmons-Sosa, Pamela Hallock, J. Wheaton, K. E. Hackett, and Michael K. Callahan

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Evidence for Dissolved Organic Nitrogen and Phosphorus Uptake During a Cyanobacterial Bloom in Florida Bay, P. M. Glibert, Cynthia A. Heil, David J. Hollander, M. Revilla, A. Hoare, J. Alexander, and S. Murasko

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Generation, Transport, and Preservation of the Alkenone-Based U37K' Sea Surface Temperature Index in the Water Column and Sediments of the Cariaco Basin (Venezuela), Miguel A. Goni, Mark P. Woodworth, Heather L. Aceves, Robert C. Thunell, Eric Tappa, David Black, Frank E. Muller-Karger, Yrene Astor, and Ramon Varela

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Biogeographical Regions of the Tropical and Subtropical Atlantic Ocean Off South America: Classification Based on Pigment (Czcs) and Chlorophyll-A (Seawifs) Variability, A. Gonzalez-Silvera, E. Santamaria-Del-Angel, V. M. Garcia, C. A. Garcia, R. Millán-Nuñez, and Frank E. Muller-Karger

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Evolution and Function of Coral Reef Ecosystems, Pamela Hallock

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Coral-Reef Risk Assessment from Satellites to Molecules: A Multi-Scale Approach to Environmental Monitoring and Risk Assessment of Coral Reefs, Pamela Hallock, Kwasi H. Barnes, and Elizabeth M. Fisher

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Coastal Ocean Wind Fields Gauged against the Performance of an Ocean Circulation Model, Ruoying He, Yonggang Liu, and Robert H. Weisberg

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Vertical and Temporal Variability of Redox Zonation in the Water Column of the Cariaco Basin: Implications for Organic Carbon Oxidation Pathways, T. Y. Ho, G. T. Taylor, Y. Astor, R. Varela, Frank E. Muller-Karger, and M. Scranton

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Assessment of Estuarine Water-Quality Indicators Using Modis Medium-Resolution Bands: Initial Results from Tampa Bay, Fl, C. Hu, Z. Chen, T. D. Clayton, P. Swarzenski, J. C. Brock, and Frank E. Muller-Karger

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The Dispersal of the Amazon and Orinoco River Water in the Tropical Atlantic and Caribbean Sea: Observation from Space and S-Palace Floats, C. Hu, E. T. Montgomery, R. W. Schmitt, and Frank E. Muller-Karger

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Linkages between Coastal Runoff and the Florida Keys Ecosystem: a Study of a Dark Plume Event, C. Hu, Frank E. Muller-Karger, G. A. Vargo, M. B. Neely, and E. Johns

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Variability of Bio-Optical Properties at Sampling Stations and Implications for Remote Sensing: a Case Study in the North-East Gulf of Mexico, C. Hu, B. Nababan, D. C. Biggs, and Frank E. Muller-Karger

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Current and Thermal Variations to Westerly Wind Bursts in the Equatorial Pacific Ocean, Ying Jang Yang, Tswen Yung Tang, and Robert H. Weisberg

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Understanding the Trophic Role of the Antarctic Ctenophore, Callianira antarctica, using Lipid Biomarkers, Se-Jong Ju, Kerri M. Scolardi, Kendra L. Daly, and H. R. Harvey

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El Nino Southern Oscillation-Related Salinity Variations Recorded in the Skeletal Geochemistry of a Porites Coral from Espiritu Santo, Vanuatu, K. H. Kilbourne, Terrence M. Quinn, Frederick W. Taylor, Thierry Delcroix, and Yves Gouriou

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A Fossil Coral Perspective on Western Tropical Pacific Climate Similar to 350 Ka, K. H. Kilbourne, Terrence M. Quinn, and F. W. Taylor

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Processes of Coastal Upwelling and Carbon Flux in the Cariaco Basin, Frank E. Muller-Karger, R. Varela, R. Thunell, Y. Astor, Mingrui Zhang, R. Luerssen, and C. Hu

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Synoptic Water Clarity Assessment in the Florida Keys Using Diffuse Attenuation Coefficient Estimated from Landsat Imagery, D. Palandro, C. Hu, S. Andréfouët, and Frank E. Muller-Karger

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Atmospheric Concentrations and Dry Deposition Rates of Polycyclic Aromatic Hydrocarbons (PAHs) for Tampa Bay, Florida, USA, Noreen Poor, Raphael Tremblay, Venkat R. Bhethanabotla, Erick Swartz, Mark E. Luther, and Scott Campbell

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Stability of North Atlantic Water Masses in Face of Pronounced Climate Variability During the Pleistocene, M. E. Raymo, D. W. Oppo, Benjamin P. Flower, D. A. Hodell, J. F. McManus, K. A. Venz, K. F. Kleiven, and K. McIntyre

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On the Seasonal Correlation of Surface Particle Fields with Wind Stress and Mississippi Discharge in the Northern Gulf of Mexico, J. E. Salisbury, J. W. Campbell, E. Linder, L. David Meeker, Frank E. Muller-Karger, and C. Vörösmarty

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Paleoceanographic Change During the Middle Miocene Climate Revolution: An Antarctic Stable Isotope Perspective, Amelia E. Shevenell and James P. Kennett

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Middle Miocene Southern Ocean Cooling and Antarctic Cryosphere Expansion, Amelia E. Shevenell, James P. Kennett, and David W. Lea

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Radionuclide Fluxes and Particle Scavenging in Cariaco Basin, J. M. Smoak, C. Benitez-Nelson, W. S. Moore, R. C. Thunell, Y. Astor, and Frank E. Muller-Karger

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Monthly Variation of Pigment Concentrations and Seasonal Winds in China'S Marginal Seas, D. L. Tang, I. H. Ni, Frank E. Muller-Karger, and I. S. Oh

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Nitrogen Isotope Dynamics of the Cariaco Basin, Venezuela, Robert C. Thunell, Daniel M. Sigman, Frank E. Muller-Karger, Yrene Astor, and Ramon Varela

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Decadal Shifts in Biophysical Forcing of Arctic Marine Food Webs: Numerical Consequences, John J. Walsh, Dwight A. Dieterle, Wieslaw Maslowski, and Terry E. Whitledge

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Phytoplankton Community Structure and Productivity Along the Axis of the Mississippi River Plume in Oligotrophic Gulf of Mexico Waters, Boris Wawrik and John H. Paul

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High Rates of Ammonium Recycling Drive Phytoplankton Productivity in the Offshore Mississippi River Plume, Boris Wawrik, John H. Paul, Deborah A. Bronk, David John, and Mike Gray

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Coral-associated Archaea, Linda Wegley, Yanan Yu, Mya Breitbart, Veronica Casas, David Kline, and Forest Rohwer

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Coastal Ocean Circulation Influences on Remotely Sensed Optical Properties: a West Florida Shelf Case Study, Robert H. Weisberg, Ruoying He, Gary J. Kirkpatrick, Frank E. Muller-Karger, and John J. Walsh

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Bleaching in Amphistegina gibbosa D'Orbigny (Class Foraminifera): Observations from Laboratory Experiments Using Visible and Ultraviolet Light, Dana E. Williams and Pamela Hallock

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Nutrient Stimulation of Lytic Phage Production in Bacterial Populations of the Gulf of Mexico, S. J. Williamson and John H. Paul

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Oceanographic Controls on the Carbon Isotopic Compositions of Sinking Particles from the Cariaco Basin, M. Woodworth, M. Goñi, E. Tappa, K. Tedesco, R. Thunell, Y. Astor, R. Varela, J. Rafael Diaz-Ramos, and Frank E. Muller-Karger

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Tide, Bouyancy, and Wind-Driven Circulation of the Charlotte Harbor Estuary: A Model Study, Lianyuan Zheng and Robert H. Weisberg

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Tide, Buoyancy, and Wind-Driven Circulation of the Charlotte Harbor Estuary: A Model Study, Lianyuan Zheng and Robert H. Weisberg

Submissions from 2003

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A Top–Down, Multidisciplinary Study of the Structure and Function of the Pack-Ice Ecosystem in the Eastern Ross Sea, Antarctica, S. F. Ackley, J. L. Bengtson, P. Boveng, M. Castellini, Kendra L. Daly, S. Jacobs, G. L. Kooyman, J. Laake, L. Quetin, and R. Ross

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Multi-Scale Remote Sensing of Microbial Mats in an Atoll Environment, S. Andréfouët, E. J. Hochberg, C. Payri, M. J. Atkinson, Frank E. Muller-Karger, and H. Ripley

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Multi-Site Evaluation of Ikonos Data for Classification of Tropical Coral Reef Environments, S. Andréfouët, P. Kramer, D. Torres-Pulliza, K. E. Joyce, E. J. Hochberg, R. Garza-Pérez, P. J. Mumby, B. Riegl, H. Yamano, W.H. H. White, M. Zubia, J. Brock, S. R. Phinn, A. Naseer, and B. G. Hatcher

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Influence of the Spatial Resolution of Seawifs, Landsat-7, Spot, and International Space Station Data on Estimates of Landscape Parameters of Pacific Ocean Atolls, S. Andréfouët, J. A. Robinson, C. Hu, G. C. Feldman, B. Salvat, C. Payri, and Frank E. Muller-Karger

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Seasonal and Interannual Variation in the Hydrography of the Cariaco Basin: Implications for Basin Ventilation, Y. Astor, Frank E. Muller-Karger, and M. I. Scranton

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Metagenomic Analyses of an Uncultured Viral Community from Human Feces, Mya Breitbart, Ian Hewson, Ben Felts, Joseph Mahaffy, James Nulton, Peter Salamon, and Forest Rohwer

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Calibration and Verification of Jason-1 Using Global Along-Track Residuals with TOPEX, Don Chambers, J. C. Ries, and T. J. Urban

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Calibration and Verification of Jason-1 Using Global Along-Track Residuals with TOPEX Special Issue: Jason-1 Calibration/Validation, Don Chambers, J. C. Ries, and T. J. Urban

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Ocean Observer Study: A Proposed National Asset to Augment the Future U. S. Operational Satellite System, John D. Cunningham, Don P. Chambers, Curtiss O. Davis, Andrew Gerber, Rosalind Hetz, James P. McGuire, and William Pichel

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Phytoplankton Assemblage Structure and Primary Productivity Along 170° W in the South Pacific Ocean, Giacomo R. DiTullio, Mark E. Geesey, David R. Jones, Kendra L. Daly, Lisa Campbell, and Walker O. Smith

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Biogenic Fluxes in the Cariaco Basin: a Combined Study of Sinking Particulates and Underlying Sediments, M. A. Goñi, H. L. Aceves, R. C. Thunell, E. Tappa, D. Black, Y. Astor, R. Varela, and Frank E. Muller-Karger

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A Synthetic Float Analysis of Upper-Limb Meridional Overturning Circulation Interior Ocean Pathways in the Tropical/Subtropical Atlantic, G. R. Halliwell Jr., Robert H. Weisberg, and D. A. Mayer

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Foraminifera as Bioindicators in Coral Reef Assessment and Monitoring: the Foram Index, Pamela Hallock, Barbara H. Lidz, Elizabeth Cockey-Burkhard, and Kelly B. Donnelly

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Foraminifera as Bioindicators in Coral Reef Assessment and Monitoring: The Foram Index, Pamela Hallock, Barbara H. Lidz, Elizabeth M. Cockey-Burkhard, and Kelly B. Donnelly

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A Loop Current Intrusion Case Study on the West Florida Shelf, Ruoying He and Robert H. Weisberg

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West Florida Shelf Circulation and Temperature Budget for the 1998 Fall Transition, Ruoying He and Robert H. Weisberg

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A Cloud-Free, Satellite-Derived, Sea Surface Temperature Analysis for the West Florida Shelf, Ruoying He, Robert H. Weisberg, Haiying Zhang, Frank E. Muller-Karger, and Robert W. Helber

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Interannual Volume Variability in the Tropical Pacific, Christina L. Holland and Gary T. Mitchum

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The 2002 Ocean Color Anomaly in the Florida Bight: a Cause of Local Coral Reef Decline?, C. Hu, K. E. Hackett, M. K. Callahan, S. Andréfouët, J. L. Wheaton, J. W. Porter, and Frank E. Muller-Karger