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Articles 1351 - 1380 of 2652

Full-Text Articles in Oceanography

A Tribute To Thomas M. Church: Exploring Chemical Oceanography In The Coastal Zone-The History And Future, Gregory A. Cutter, David J. Burdige Aug 2016

A Tribute To Thomas M. Church: Exploring Chemical Oceanography In The Coastal Zone-The History And Future, Gregory A. Cutter, David J. Burdige

OES Faculty Publications

(First paragraph) One can find different historical perspectives on the development of studying the chemistry of oceans as well as names for this study—marine chemistry, chemistry of the sea, marine aquatic chemistry, marine biogeochemistry, or chemical oceanography. It could be argued that chemical oceanography is the most inclusive for an earth science since oceanography itself is an integrated discipline that links the biology, chemistry, geology, and physics together. Regardless of the name, perhaps the first intensive, modern/post-nineteenth century study of the ocean’s chemistry was the GEOSECS Program from ca. 1970–1978. The significance of GEOSECS was that it examined the chemistry …

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Determining The Viability Of Recent Storms As Modern Analogues For North-Central Gulf Of Mexico Paleotempestology Through Sedimentary Analysis And Storm Surge Reconstruction, Joshua Caleb Bregy Aug 2016

Determining The Viability Of Recent Storms As Modern Analogues For North-Central Gulf Of Mexico Paleotempestology Through Sedimentary Analysis And Storm Surge Reconstruction, Joshua Caleb Bregy

Master's Theses

The northern Gulf of Mexico has been devastated by recent intense storms. Camille (1969) and Katrina (2005) are two notable hurricanes that made landfall in virtually the same location in Mississippi. However, fully understanding the risks and processes associated with hurricane impacts is impeded by a short and fragmented instrumental record. Paleotempestology could potentially use modern analogues from intense storms in this region to extend the hurricane record back to pre-observational time. Existing empirically based models can back-calculate surge heights over coastal systems as a function of transport distance, particle settling velocity, and gravitational acceleration. We collected cores in a …

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Is The Detection Of Accelerated Sea Level Rise Imminent?, J. T. Fasullo, R. S. Nerem, B. Hamlington Aug 2016

Is The Detection Of Accelerated Sea Level Rise Imminent?, J. T. Fasullo, R. S. Nerem, B. Hamlington

CCPO Publications

Global mean sea level rise estimated from satellite altimetry provides a strong constraint on climate variability and change and is expected to accelerate as the rates of both ocean warming and cryospheric mass loss increase over time. In stark contrast to this expectation however, current altimeter products show the rate of sea level rise to have decreased from the first to second decades of the altimeter era. Here, a combined analysis of altimeter data and specially designed climate model simulations shows the 1991 eruption of Mt Pinatubo to likely have masked the acceleration that would have otherwise occurred. This masking …

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Sunlight Induced Chlorophyll Fluorescence In The Near-Infrared Spectral Region In Natural Waters: Interpretations Of The Narrow Reflectance Peak Around 761nm, Yingcheng Lu, Linhai Li, Minwei Zhang, Shaojie Sun, Chunguang Lv Jul 2016

Sunlight Induced Chlorophyll Fluorescence In The Near-Infrared Spectral Region In Natural Waters: Interpretations Of The Narrow Reflectance Peak Around 761nm, Yingcheng Lu, Linhai Li, Minwei Zhang, Shaojie Sun, Chunguang Lv

Marine Science Faculty Publications

Sunlight induced chlorophyll a fluorescence (SICF) can be used as a probe to estimate chlorophyll a concentrations (Chl) and infer phytoplankton physiology. SICF at ∼685 nm has been widely applied to studies of natural waters. SICF around 740 nm has been demonstrated to cause a narrow reflectance peak at ∼761 nm in the reflectance spectra of terrestrial vegetation. This narrow peak has also been observed in the reflectance spectra of natural waters, but its mechanism and applications have not yet been investigated and it has often been treated as measurement artifacts. In this study, we aimed to interpret …

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Simulating Bottom Reflectance Retrievals Using An Analytical Solution For The Two-Flow Irradiance Models, Tyler A. Rotkiske Jul 2016

Simulating Bottom Reflectance Retrievals Using An Analytical Solution For The Two-Flow Irradiance Models, Tyler A. Rotkiske

Theses and Dissertations

Existing analytical solutions to the two-flow irradiance equations are used to obtain new relations for simulating hyperspectral bottom reflectance signatures. Synthetic bottom reflectance signatures are compared to measured bottom reflectance signatures in order to test the model equation limitations of the formulations. Measured hyperspectral bottom reflectance signatures for a dead reef, Elkhorn coral, seagrass and sand, sand, and turtle grass are used. Estimated collimated and diffuse irradiances are inputs needed to run model formulations. Also, specific absorption, specific backscattering coefficients, and water depth for ocean, coastal, and estuarine waters are used as inputs to simulate bottom reflectance retrievals. The specific …

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A Compilation Of Global Bio-Optical In Situ Data For Ocean-Colour Satellite Applications, André Valente, Shubba Sathyendranath, Vanda Brotas, Steve Groom, Michael Grant, Malcolm Taberner, David Antoine, Robert A. Arnone Prof, William M. Balch, Kathryn Baker, Ray Barlow, Simon Bélanger, Jean-François Berthon, Sükrü Beşiktepe, Vittorio Brando, Elisabetta Canuti, Francisco Chavez, Hervé Claustre, Richard Crout, Robert Frounin, Carlos García-Soto, Stuart W. Gibb, Richard Gould, Stanford Hooker, Mati Kahru, Holger Klein, Susanne Kratzer, Hubert Loisel, David Mckee, Brian G. Mitchell, Tiffany Moisan, Frank Muller-Karger, Leonie O'Dowd, Michael Ondrusek, Alex J. Poulton, Michel Repecaud, Timothy Smythe, Heidi M. Sosik, Michael Twardowski, Kenneth Voss, Jeremy Werdell, Marcel Wernand, Giuseppe Zibordi Jun 2016

A Compilation Of Global Bio-Optical In Situ Data For Ocean-Colour Satellite Applications, André Valente, Shubba Sathyendranath, Vanda Brotas, Steve Groom, Michael Grant, Malcolm Taberner, David Antoine, Robert A. Arnone Prof, William M. Balch, Kathryn Baker, Ray Barlow, Simon Bélanger, Jean-François Berthon, Sükrü Beşiktepe, Vittorio Brando, Elisabetta Canuti, Francisco Chavez, Hervé Claustre, Richard Crout, Robert Frounin, Carlos García-Soto, Stuart W. Gibb, Richard Gould, Stanford Hooker, Mati Kahru, Holger Klein, Susanne Kratzer, Hubert Loisel, David Mckee, Brian G. Mitchell, Tiffany Moisan, Frank Muller-Karger, Leonie O'Dowd, Michael Ondrusek, Alex J. Poulton, Michel Repecaud, Timothy Smythe, Heidi M. Sosik, Michael Twardowski, Kenneth Voss, Jeremy Werdell, Marcel Wernand, Giuseppe Zibordi

Faculty Publications

A compiled set of in situ data is important to evaluate the quality of ocean-colour satellite-data records. Here we describe the data compiled for the validation of the ocean-colour products from the ESA Ocean Colour Climate Change Initiative (OC-CCI). The data were acquired from several sources (MOBY, BOUSSOLE, AERONET-OC, SeaBASS, NOMAD, MERMAID, AMT, ICES, HOT, GeP&CO), span between 1997 and 2012, and have a global distribution. Observations of the following variables were compiled: spectral remote-sensing reflectances, concentrations of chlorophyll a, spectral inherent optical properties and spectral diffuse attenuation coefficients. The data were from multi-project archives acquired via the open internet …

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Coastal Ocean And Shelf-Sea Biogeochemical Cycling Of Trace Elements And Isotopes: Lessons Learned From Geotraces, Matthew A. Charette, Phoebe J. Lam, Maeve C. Lohan, Eun Young Kwon, Vanessa Hatje, Catherine Jeandel, Alan M. Shiller, Gregory A. Cutter, Alex Thomas, Philip W. Boyd Jun 2016

Coastal Ocean And Shelf-Sea Biogeochemical Cycling Of Trace Elements And Isotopes: Lessons Learned From Geotraces, Matthew A. Charette, Phoebe J. Lam, Maeve C. Lohan, Eun Young Kwon, Vanessa Hatje, Catherine Jeandel, Alan M. Shiller, Gregory A. Cutter, Alex Thomas, Philip W. Boyd

OES Faculty Publications

Continental shelves and shelf seas play a central role in the global carbon cycle. However, their importance with respect to trace element and isotope (TEI) inputs to ocean basins is less well understood. Here, we present major findings on shelf TEI biogeochemistry from the GEOTRACES programme as well as a proof of concept for a new method to estimate shelf TEI fluxes. The case studies focus on advances in our understanding of TEI cycling in the Arctic, transformations within a major river estuary (Amazon), shelf sediment micronutrient fluxes and basin-scale estimates of submarine groundwater discharge. The proposed shelf flux tracer …

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Abundance And Diversity Of Deep-Sea Crustaceans Of Bear Seamount, New England Seamount Chain, Valerie Miranda May 2016

Abundance And Diversity Of Deep-Sea Crustaceans Of Bear Seamount, New England Seamount Chain, Valerie Miranda

HCAS Graduate Science Research Symposium

Bear Seamount (39° 55’ N; 67° 30’ W) is the westernmost peak of extinct undersea volcanoes in the New England Seamount Chain (Moore et al., 2003). It is located on the continental slope off Georges Bank, and is governed by unique environmental factors and currents that may be unlike those of the other seamounts (Moore et al., 2003). Previous cruises to this seamount have been successful in capturing abundant fishes, cephalopods and invertebrates (Moore et al., 2003; Moore et al., 2004; Moore et al., 2008), but only the distribution patterns of the fishes and cephalopods have been examined, leaving a …

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Vision And Bioluminescence In Deep-Sea Crustaceans, Tamara Frank May 2016

Vision And Bioluminescence In Deep-Sea Crustaceans, Tamara Frank

HCAS Graduate Science Research Symposium

Adaptations of the visual systems of deep-sea crustaceans to dim light environments are driven not only by environmental light, but also biologically produced light, or bioluminescence. In the pelagic zone, the relationship is driven, at least in part, by intrinsic bioluminescence. The unusual possession of UV sensitivity, in additional to the expected blue sensitivity, in several species of deep-sea crustaceans appears to be linked to their two modes of bioluminescence. In the benthic zone, the relationship is not so clear. On several NOAA-OER funded research expeditions, electrophysiological studies were conducted on a number of species of decapod crustaceans collected with …

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Monitoring A Problem: Evaluating The Ecological Status Of The Invasive Nile Monitor In Florida And Forecasting Population Expansion Using Computational Gis, Noah Cohen May 2016

Monitoring A Problem: Evaluating The Ecological Status Of The Invasive Nile Monitor In Florida And Forecasting Population Expansion Using Computational Gis, Noah Cohen

HCAS Graduate Science Research Symposium

The state of Florida is an epicenter for the introduction of exotic terrestrial and marine species, often which are attributed to the pet industry. Identifying the threats posed by exotics that may become invasive is critical to manage and protect indigenous species and habitats. One such exotic that is now invasive in Florida is the Nile Monitor (Varanus niloticus). The Nile monitor is a large, predatory lizard native to central and southern Africa that is thought to have been introduced to Florida via both intentional and unintentional releases associated with the exotic pet trade. Since their introduction, Nile monitors have …

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Genomic Assembly Analyses Of Asian Teleost Species Seabass (Lates Calcarifer) And Arowana (Scleropages Formosus), Stephen O'Brien May 2016

Genomic Assembly Analyses Of Asian Teleost Species Seabass (Lates Calcarifer) And Arowana (Scleropages Formosus), Stephen O'Brien

HCAS Graduate Science Research Symposium

The genome assembly and annotation of Asian seabass (Lates calcarifer) , a marine teleost with aquaculture relevance will be described, an initiative of Genome 10K . Though > 500 eukaryotic genome sequences are available in public repositories, the majority are highly fragmented with incomplete assemblies, so considerable effort and resources are often spent to improve their quality. In the present study, PacBio long read sequencing , genetic and optical mapping, and syntenic inference were combined to build a chromosome-length assembly with a contig N50 size over 1 Mb and scaffold N50 size over 25 Mb that span ~90% of the genome …

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If You Build It, Will They Come? Exploring Enhancements To Artificial Structure For Use In Restoration And Mitigation Applications In The Mexican Caribbean, Kirk Kilfoyle May 2016

If You Build It, Will They Come? Exploring Enhancements To Artificial Structure For Use In Restoration And Mitigation Applications In The Mexican Caribbean, Kirk Kilfoyle

HCAS Graduate Science Research Symposium

A study involving standardized artificial reef modules (ReefballsTM) was conducted in Puerto Morelos, Mexico. The purpose was to explore the use of artificial structure in restoration and mitigation projects in a Caribbean coral reef environment similar to South Florida by applying select experimental treatments hypothesized to accelerate their acquisition of a natural coral reef assemblage. Multiple hypotheses on the progression and interaction between artificial structure and the resulting fish, coral, algal, and non-coral invertebrate assemblages were examined. Each of 40 reefball modules received one of 4 treatments (10 modules/treatment): invertebrate substrate pads, coral transplants, settlement plates, or control. Following deployment, …

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On The Variability Of Pacific Ocean Tides At Seasonal To Decadal Time Scales: Observed Vs Modelled, Adam Thomas Devlin May 2016

On The Variability Of Pacific Ocean Tides At Seasonal To Decadal Time Scales: Observed Vs Modelled, Adam Thomas Devlin

Dissertations and Theses

Ocean tides worldwide have exhibited secular changes in the past century, simultaneous with a global secular rise in mean sea level (MSL). The combination of these two factors contributes to higher water levels, and may increase threats to coastal regions and populations over the next century. Equally as important as these long-term changes are the short-term fluctuations in sea levels and tidal properties. These fluctuations may interact to yield locally extreme water level events, especially when combined with storm surge. This study, presented in three parts, examines the relationships between tidal anomalies and MSL anomalies on yearly and monthly timescales, …

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Was 2015 The Summer Of The Shark? Evidence From The Coastal Carolina University Shark Project, Brooke Anderson May 2016

Was 2015 The Summer Of The Shark? Evidence From The Coastal Carolina University Shark Project, Brooke Anderson

Honors Theses

Winyah Bay is a 65-km2 estuary in northeast South Carolina and is considered essential habitat and nursery ground for several shark species of the western North Atlantic. As a result of a number of shark bites/attacks during the summer of 2015, many concluded there was higher abundance of sharks than in previous years. The objective of this study was to test this hypothesis using surveys of shark populations from Winyah Bay in the summer of 2015, and comparing the diversity and abundance of sharks from this survey to those of previous years from the same survey. From July to August …

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Abundance And Distribution Of Microplastic Particles In Winyah Bay, S.C. ‌, Dillon King May 2016

Abundance And Distribution Of Microplastic Particles In Winyah Bay, S.C. ‌, Dillon King

Honors Theses

Plastics are incredibly durable synthetic polymers used in a wide variety of consumer products. Microplastics are generally defined as plastic debris ranging from 0.33 to 5 millimeters in size. Microplastic pollution in the environment is a global concern because of their propensity to serve as a vector for bioaccumlation and the spread of harmful bacteria. This study characterized the concentrations of floating microplastics in Winyah Bay, South Carolina, the surrounding freshwater river systems, and 10 miles offshore of Winyah Bay. Samples were collected according to NOAA standard techniques for microplastic collection in water using a 335 µm and 153 µm …

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Development Of A [2]-Catenane Synthetic Method And A Student Beliefs Survey For A Hybrid Organometallics Course, Jourdan E. Lakes May 2016

Development Of A [2]-Catenane Synthetic Method And A Student Beliefs Survey For A Hybrid Organometallics Course, Jourdan E. Lakes

Honors Theses

In this study, the value-added of a new upper-level chemistry course, CHEM 372-Organometallics, was defined using a Student Beliefs Survey that was answered by students in CHEM 372 and by faculty who teach upper-level chemistry courses at Coastal Carolina University. The laboratory portion of CHEM 372 focused on the synthesis of a [2]-catenane, which is a molecularly interlocked molecule (MIM). The intention was to give the CHEM 372 students a goal to work toward over the course of the semester instead of different, unrelated, experiments each week. Using this style of lab teaching, the students were introduced to graduate school-level …

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Biological Hot Spots And The Accumulation Of Marine Dissolved Organic Matter In A Highly Productive Ocean Margin, Yuan Shen, Cédric G. Fichot, Sheng-Kang Liang, Ronald Benner May 2016

Biological Hot Spots And The Accumulation Of Marine Dissolved Organic Matter In A Highly Productive Ocean Margin, Yuan Shen, Cédric G. Fichot, Sheng-Kang Liang, Ronald Benner

Faculty Publications

Concentrations of dissolved organic carbon (DOC) and major biochemicals (amino acids and carbohydrates) were measured during five cruises (2009–2010) to the Louisiana margin in the northern Gulf of Mexico. Concentrations of amino acids and carbohydrates were elevated at mid-salinities and were indicative of plankton production of dissolved organic matter (DOM) in surface waters. Hot spots of two compositionally distinct types of labile DOM were identified based on the relative abundances of amino acids and carbohydrates. Amino acid-rich hot spots occurred sporadically in regions of high phytoplankton biomass and were mostly observed between dusk and dawn, reflecting a grazing source. In …

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The Marine Cyanate Cycle, Brittany Widner Apr 2016

The Marine Cyanate Cycle, Brittany Widner

OES Theses and Dissertations

Cyanate (OCN-) is a reduced nitrogen compound with the potential to serve as a nitrogen and carbon source for marine microbes. Evidence from genomes and culture studies indicated that several marine cyanobacterial groups, including representatives of the globally important genera Synechococcus and Prochlorococcus, might be capable of cyanate assimilation. However, prior to this study, the distribution, bioavailability, and production pathways of cyanate were unknown in natural systems due to the absence of a sensitive cyanate assay; and the ability of organisms to assimilate cyanate on relevant timescales was unknown because we lacked a suitable tracer for measuring uptake. I developed …

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West Florida Shelf Connectivity: An Exploratory Study, Amanda Sue Reinert Mar 2016

West Florida Shelf Connectivity: An Exploratory Study, Amanda Sue Reinert

USF Tampa Graduate Theses and Dissertations

This Thesis explores the connectiveness of the West Florida Shelf’s various areas of economic and ecological importance by considering five case studies of varying dynamic forcing influences and time. The advection of water about the shelf moves nutrients and has a direct impact on the shelf’s ecology and the determination of whether or not the shelf will be oligotrophic at any given time or location. The case studies are analyzed both quantitatively and qualitatively after quasi-isopycnal particle trajectory calculations are completed for each. The findings support a combination of local and deep-ocean forcing being ideal for the maximum advection and …

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Influence Of The Mississippi River On Pseudo-Nitzschia Spp. Abundance And Toxicity In Louisiana Coastal Waters, Sibel Bargu, Melissa M. Baustian, Nancy N. Rabalais, Ross Del Rio, Benjamin Von Korff, R. Eugene Turner Mar 2016

Influence Of The Mississippi River On Pseudo-Nitzschia Spp. Abundance And Toxicity In Louisiana Coastal Waters, Sibel Bargu, Melissa M. Baustian, Nancy N. Rabalais, Ross Del Rio, Benjamin Von Korff, R. Eugene Turner

Faculty Publications

The presence of domoic acid (DA) toxin from multiple species of Pseudo-nitzschia is a concern in the highly productive food webs of the northern 1,* 2,3 2 1 1,4 1 1 2 3 4 Gulf of Mexico. We documented the Pseudo-­nitzschia presence, abundance, blooms, and toxicity over 3 years along a transect ∼100 km west of the Mississippi River Delta on the continental shelf. Pseudo-nitzschia were present throughout the year and occurred in high abundances (>10 cells l ) in the early spring months during high Mississippi River (MSR) flow (∼20,000 m s ) but were most abundant ( …

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Preferential Depletion Of Zinc Within Costa Rica Upwelling Dome Creates Conditions For Zinc Co-Limitation Of Primary Production, P. Dreux Chappell, Jagruti Vedmati, Karen E. Selph, Heather A. Cyr, Bethany D. Jenkins, Michael R. Landry, James W. Moffett Mar 2016

Preferential Depletion Of Zinc Within Costa Rica Upwelling Dome Creates Conditions For Zinc Co-Limitation Of Primary Production, P. Dreux Chappell, Jagruti Vedmati, Karen E. Selph, Heather A. Cyr, Bethany D. Jenkins, Michael R. Landry, James W. Moffett

OES Faculty Publications

The Costa Rica Dome (CRD) is a wind-driven feature characterized by high primary production and an unusual cyanobacterial bloom in surface waters. It is not clear whether this bloom arises from top-down or bottom-up processes. Several studies have argued that trace metal geochemistry within the CRD contributes to the composition of the phytoplankton assemblages, since cyanobacteria and eukaryotic phytoplankton have different transition metal requirements. Here, we report that total dissolved zinc (Zn) is significantly depleted relative to phosphate (P) and silicate (Si) within the upper water column of the CRD compared with other oceanic systems, and this may create conditions …

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Development Of A Low-Cost Arduino-Based Sonde For Coastal Applications, Grant Lockridge, Brian Dzwonkowski, Reid Nelson, Sean P. Powers Jan 2016

Development Of A Low-Cost Arduino-Based Sonde For Coastal Applications, Grant Lockridge, Brian Dzwonkowski, Reid Nelson, Sean P. Powers

University Faculty and Staff Publications

This project addresses the need for an expansion in the monitoring of marine environments by providing a detailed description of a low cost, robust, user friendly sonde, built on Arduino Mega 2560 (Mega) and Arduino Uno (Uno) platforms. The sonde can be made without specialized tools or training and can be easily modified to meet individual application requirements. The platform allows for internal logging of multiple parameters of which conductivity, temperature, and GPS position are demonstrated. Two design configurations for different coastal hydrographic applications are highlighted to show the robust and versatile nature of this sensor platform. The initial sonde …

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Size-Dependent Top-Down Control On Phytoplankton Growth By Microzooplankton In Eutrophic Lakes, Wai Hing Wong, Nancy N. Rabalais, R. Eugene Turner Jan 2016

Size-Dependent Top-Down Control On Phytoplankton Growth By Microzooplankton In Eutrophic Lakes, Wai Hing Wong, Nancy N. Rabalais, R. Eugene Turner

Faculty Publications

We hypothesized that the grazing on phytoplankton by the microzooplankton community is size-dependent and, therefore, the top-down control on phytoplankton by microzooplankton community could be one possible mechanism explaining why small phytoplankton become less abundant than large phytoplankton in eutrophic waters. We tested this hypothesis using the dilution method to measure microzooplankton grazing rates and phytoplankton growth rates in the eutrophic waters of the Barataria estuary, southeastern Louisiana. Microzooplankton grazing rates on the slower growing, small phytoplankton (\5 lm) were higher than on the large phytoplankton ([20 lm) which had relatively faster growth rates. The proportional loss of the small, …

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Dragon Kings Of The Deep Sea: Marine Particles Deviate Markedly From The Common Number-Size Spectrum, Alexander B. Bochdansky, Melissa A. Clouse, Gerhard J. Herndl Jan 2016

Dragon Kings Of The Deep Sea: Marine Particles Deviate Markedly From The Common Number-Size Spectrum, Alexander B. Bochdansky, Melissa A. Clouse, Gerhard J. Herndl

OES Faculty Publications

Particles are the major vector for the transfer of carbon from the upper ocean to the deep sea. However, little is known about their abundance, composition and role at depths greater than 2000 m. We present the first number-size spectrum of bathy-and abyssopelagic particles to a depth of 5500 m based on surveys performed with a custom-made holographic microscope. The particle spectrum was unusual in that particles of several millimetres in length were almost 100 times more abundant than expected from the number spectrum of smaller particles, thereby meeting the definition of "dragon kings." Marine snow particles overwhelmingly contributed to …

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A Highly Sensitive Underwater Video System For Use In Turbid Aquaculture Ponds, Chin-Chang Hung, Shih-Chieh Tsao, Kuo-Hao Huang, Jia-Pu Jang, Hsu-Kuang Chang, Fred C. Dobbs Jan 2016

A Highly Sensitive Underwater Video System For Use In Turbid Aquaculture Ponds, Chin-Chang Hung, Shih-Chieh Tsao, Kuo-Hao Huang, Jia-Pu Jang, Hsu-Kuang Chang, Fred C. Dobbs

OES Faculty Publications

The turbid, low-light waters characteristic of aquaculture ponds have made it difficult or impossible for previous video cameras to provide clear imagery of the ponds' benthic habitat. We developed a highly sensitive, underwater video system (UVS) for this particular application and tested it in shrimp ponds having turbidities typical of those in southern Taiwan. The system's high-quality video stream and images, together with its camera capacity (up to nine cameras), permit in situ observations of shrimp feeding behavior, shrimp size and internal anatomy, and organic matter residues on pond sediments. The UVS can operate continuously and be focused remotely, a …

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Effects Of Temperature, Irradiance And Pco2 On The Growth And Nitrogen Utilization Of Prorocentrum Donghaiense, Zhangxi Hu, Margaret R. Mulholland, Ning Xu, Shunshan Duan Jan 2016

Effects Of Temperature, Irradiance And Pco2 On The Growth And Nitrogen Utilization Of Prorocentrum Donghaiense, Zhangxi Hu, Margaret R. Mulholland, Ning Xu, Shunshan Duan

OES Faculty Publications

Environmental factors such as temp erature, irradiance, and nitrogen (N) supply affect the growth of Prorocentrum donghaiense, but the interactive effects of these physical factors and the effects of atmospheric CO2 (pCO2) on growth and N uptake have not been examined. We compared growth kinetics of P. donghaiense grown on 4 different N substrates (nitrate [NO3 -], ammonium [NH4 +], urea, and glutamic acid [glu]) with respect to temperature, irradiance, and pCO2. Temperature (15 to 30°C) had a positive effect on growth (max. growth rates: 0.17 to 0.65 d …

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Siderophore-Based Microbial Adaptations To Iron Scarcity Across The Eastern Pacific Ocean, Rene M. Boiteau, Daniel R. Mende, Nicholas J. Hawco, Matthew R. Mcilvin, Jessica N. Fitzsimmons, Peter N. Sedwick Jan 2016

Siderophore-Based Microbial Adaptations To Iron Scarcity Across The Eastern Pacific Ocean, Rene M. Boiteau, Daniel R. Mende, Nicholas J. Hawco, Matthew R. Mcilvin, Jessica N. Fitzsimmons, Peter N. Sedwick

OES Faculty Publications

Nearly all iron dissolved in the ocean is complexed by strong organic ligands of unknown composition. The effect of ligand composition on microbial iron acquisition is poorly understood, but amendment experiments using model ligands show they can facilitate or impede iron uptake depending on their identity. Here we show that siderophores, organic compounds synthesized by microbes to facilitate iron uptake, are a dynamic component of the marine ligand pool in the eastern tropical Pacific Ocean. Siderophore concentrations in iron-deficient waters averaged 9 pM, up to fivefold higher than in iron-rich coastal and nutrient-depleted oligotrophic waters, and were dominated by amphibactins, …

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A Highly Sensitive Underwater Video System For Use In Turbid Aquaculture Ponds, Chin-Chang Hung, Shih-Chieh Tsao, Kuo-Hao Huang, Hsu-Kunag Chang, Fred C. Dobbs Jan 2016

A Highly Sensitive Underwater Video System For Use In Turbid Aquaculture Ponds, Chin-Chang Hung, Shih-Chieh Tsao, Kuo-Hao Huang, Hsu-Kunag Chang, Fred C. Dobbs

OES Faculty Publications

The turbid, low-light waters characteristic of aquaculture ponds have made it difficult or impossible for previous video cameras to provide clear imagery of the ponds' benthic habitat. We developed a highly sensitive, underwater video system (UVS) for this particular application and tested it in shrimp ponds having turbidities typical of those in southern Taiwan. The system's high-quality video stream and images, together with its camera capacity (up to nine cameras), permit in situ observations of shrimp feeding behavior, shrimp size and internal anatomy, and organic matter residues on pond sediments. The UVS can operate continuously and be focused remotely, a …

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The Contribution Of Marine Aggregate-Associated Bacteria To The Accumulation Of Pathogenic Bacteria In Oysters: An Agent-Based Model, Andrew M. Kramer, J. Evan Ward, Fred C. Dobbs, Melissa L. Pierce Jan 2016

The Contribution Of Marine Aggregate-Associated Bacteria To The Accumulation Of Pathogenic Bacteria In Oysters: An Agent-Based Model, Andrew M. Kramer, J. Evan Ward, Fred C. Dobbs, Melissa L. Pierce

OES Faculty Publications

Bivalves process large volumes of water, leading to their accumulation of bacteria, including potential human pathogens (e.g., vibrios). These bacteria are captured at low efficiencies when freely suspended in the water column, but they also attach to marine aggregates, which are captured with near 100% efficiency. For this reason, and because they are often enriched with heterotrophic bacteria, marine aggregates have been hypothesized to function as important transporters of bacteria into bivalves. The relative contribution of aggregates and unattached bacteria to the accumulation of these cells, however, is unknown. We developed an agent-based model to simulate accumulation of vibrio-type bacteria …

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An Alignment-Free "Metapeptide" Strategy For Metaproteomic Characterization Of Microbiome Samples Using Shotgun Metagenomic Sequencing, Damon H. May, Emma Timmins-Schiffman, Molly P. Mikan, H. Rodger Harvey, Elhanan Borenstein, Brook L. Nunn, William S. Noble Jan 2016

An Alignment-Free "Metapeptide" Strategy For Metaproteomic Characterization Of Microbiome Samples Using Shotgun Metagenomic Sequencing, Damon H. May, Emma Timmins-Schiffman, Molly P. Mikan, H. Rodger Harvey, Elhanan Borenstein, Brook L. Nunn, William S. Noble

OES Faculty Publications

In principle, tandem mass spectrometry can be used to detect and quantify the peptides present in a microbiome sample, enabling functional and taxonomic insight into microbiome metabolic activity. However, the phylogenetic diversity constituting a particular microbiome is often unknown, and many of the organisms present may not have assembled genomes. In ocean microbiome samples, with particularly diverse and uncultured bacterial communities, it is difficult to construct protein databases that contain the bulk of the peptides in the sample without losing detection sensitivity due to the overwhelming number of candidate peptides for each tandem mass spectrum. We describe a method for …

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