Marine Biology Commons^™

Genetic Patterns In Peripheral Marine Populations Of The Fusilier Fish Caesio Cuning Within The Kuroshio Current, Amanda S. Ackiss, Christopher E. Bird, Yuichi Akita, Mudjekeewis D. Santos, Katsunori Tachihara, Kent E. Carpenter

Biological Sciences Faculty Publications

Aim: Mayr’s central‐peripheral population model (CCPM) describes the marked differences between central and peripheral populations in genetic diversity, gene flow, and census size. When isolation leads to genetic divergence, these peripheral populations have high evolutionary value and can influence biogeographic patterns. In tropical marine species with pelagic larvae, powerful western‐boundary currents have great potential to shape the genetic characteristics of peripheral populations at latitudinal extremes. We tested for the genetic patterns expected by the CCPM in peripheral populations that are located within the Kuroshio Current for the Indo‐Pacific reef fish, Caesio cuning.

Methods: We used a panel of 2,677 …

Development Of Hurricane Storm Surge Model To Predict Coastal Highway Inundation For South Texas, Sara E. Davila, Adan Garza, Jungseok Ho

School of Earth, Environmental, & Marine Sciences Faculty Publications

Forecasting areas prone to flooding will allow us to send off our information gathered to departments such as TxDOT and the United States Department of Transportation. This would then enable these departments to create appropriate evacuation routes, depicting which roads are clear and which cannot be used in the event of a storm. Simulating hurricanes that have passed through this area such as Dolly in 2008, Beulah in 1967, and Bret in 1999 will display the roads and federal highways that frequently tend to get flooded. Identifying the “danger roads” and which federal highways will ultimately be useful for various …

Ulva Spp. Bloom Dynamics In A Hyper-Eutrophic Estuary: Jamaica Bay, New York, Annesia Lamb

Dissertations, Theses, and Capstone Projects

In this dissertation, I present three studies that further our understanding of macroalgae identity, growth, and proliferation. Eutrophication is prevalent in shallow coastal ecosystems world-wide. One of the ecosystem consequences is the development of a bloom forming green marine macroalgae, Ulva spp. Ulva can have negative effects such as Zostera spp. degradation, fish, and shellfish declines. I performed assessments of (1) identity of the bloom-forming Ulva and other macroalgae assemblage, (2) physical, chemical, and biological drivers of Ulva bloom growth and proliferation, and (3) optimal irradiance and temperature requirements for early growth stages in Ulva linza.

The first study …

Environmental Controls On Depositional Patterns Of Isolated Carbonate Platforms, Jeremy M. Kerr

HCNSO Student Theses and Dissertations

This dissertation explores the influence of the environment on the lateral spatial patterning of facies in modern isolated carbonate platforms through six studies. The first study describes the creation of a database of benthic habitat and bathymetric maps derived from multispectral satellite imagery and the field data used calibrate and validate the mapping algorithms. The second study develops and assesses a new approach for remotely-deriving water depth from multispectral satellite imagery without the need for ground-truth information. The third study identifies a criterion for distinguishing between facies belts and mosaics and deploys the criterion to investigate the co-occurrence of these …

The Effects Of Density Gradients On The Distribution And Behavior Of Copepods, Connor Cayson

Theses

Observations of fine-scale behavioral dynamics of zooplankton may shed insight into much larger-scale ecosystem patterns and phenomena. Some zooplankton, such as copepods, are known to aggregate near density gradients; however, it is not clear the extent to which density gradients alone affect copepod distribution and behavior, since these gradients are often associated with phytoplankton layers. In this study, we investigated the behavior of Calanus pacificus in response to salinity gradients through laboratory experiments observed with high-resolution video and analyzed using computational techniques. Image data were collected using two cameras recording continuously for a duration of 30 minutes or more, allowing …

Thresholds And Drivers Of Coral Calcification Responses To Climate Change, Niklas Kornder, Bernhard Riegl, Joana Figueiredo

Marine & Environmental Sciences Faculty Articles

Increased temperature and CO₂ levels are considered key drivers of coral reef degradation. However, individual assessments of ecological responses (calcification) to these stressors are often contradicting. To detect underlying drivers of heterogeneity in coral calcification responses, we developed a procedure for the inclusion of stress–effect relationships in ecological meta‐analyses. We applied this technique to a dataset of 294 empirical observations from 62 peer‐reviewed publications testing individual and combined effects of elevated temperature and pCO₂ on coral calcification. Our results show an additive interaction between warming and acidification, which reduces coral calcification by 20% when pCO₂ levels exceed …

Genomic Analysis Of Acropora Cervicornis Mucus And Sediments In The Florida Keys Tavernier Nursery, Rachel Zimmerman

HCNSO Student Theses and Dissertations

White Band disease has devastated the staghorn coral Acropora cervicornis in recent decades, and it continues to impinge upon restoration efforts. The etiological agent(s) remain unknown as Koch’s postulates have yet to be satisfied, but disease may originate when opportunistic pathogens in the surface mucus layer exploit a stressed host. Using 16s rRNA sequencing, differences in the taxonomic diversity and relative abundances of bacteria within the mucus of A. cervicornis were documented between colonies of the same genotype, genotypes (n=8) categorized as having either high or low WBD susceptibility, and during a transplantation event. A. cervicornis colonies suspended from midwater …

Using Local Fishery Monitoring To Understand Small-Scale Coastal Fisheries In Tanzania, Matthew Robertson

LSU Master's Theses

Nearshore marine fisheries provide the main source of protein for nearly 9 million people in the coastal villages of Tanzania, yet for decades the fisheries have shown signs of overexploitation. These fisheries are small-scale and co-managed by local coastal communities in groups known as Beach Management Units (BMUs). BMUs monitor individual fishing trip data (e.g. gear, vessel, taxa); however, these data have only been analyzed in nationally aggregated statistics and to our knowledge, are not presently used in management decision making. The present thesis aimed to identify the forms of data and information that local fishery monitoring can record about …

A Comparison Of Benthic Habitats And Faunas Between The Miami Terrace (Proposed Calypso Pipeline Site) And The Pourtales Terrace (Coral Habitat Of Particular Concern), Laura Dell

HCNSO Student Theses and Dissertations

Quantitative photographs of benthic communities at two northern Miami Terrace sites, originally investigated as part of an environmental impact survey in advance of the proposed Calypso pipeline, and two Pourtalès Terrace sites, investigated as part of an exploration of deep-sea coral and sponge ecosystems (DSCEs) within the Pourtalès Terrace Deep-water Coral Habitat Area of Particular Concern (CHAPC), were reanalyzed and compared for similarities and differences. Both terraces are part of an elongated lithified platform that parallels the southeastern Florida coast at depths averaging between 250 and 450 m. Although both sites have similar geological origins and lie under the Florida …

Next Generation Sequencing Methods For Coastal Zone Water Quality Monitoring, Catherine Iskrenko

HCNSO Student Capstones

When analyzing the water quality of the coastal zone, culture-based techniques have been utilized most often to identify Fecal Indicator Bacteria in samples. Since the advent of the Sanger Method for DNA sequencing, other techniques have arisen that provide significantly more information on the microorganisms in sample, but they are still not the mainstream for water quality analysis. This capstone reviews and compares culture-based techniques, DNA sequencing, RNA sequencing, qPCR for biomarker, and 16S rDNA sequencing to highlight their merits and shortcomings for analyzing environmental water samples. The technique presented that provides the broadest range of information (including the identification …

Meta-Analytic Summary Of Parasites And Diseases Of Elasmobranchs Found In Florida Waters, Alexis S. Modzelesky

HCNSO Student Capstones

Elasmobranchs have conservational and commercial importance. There is a need for a more complete understanding of their health, due to their ability to shape trophic webs and their money-making potential with fishers and ecotourists. Sharks have been known to influence the strength of food webs, including reef ecosystems where many fish species are harvested for food. The investigation of pathogenic agents and diseases in elasmobranchs has been biased to favor those natural enemies that inhabit the digestive system and epidermal surfaces. Certain groups of parasites such as cestodes, copepods, and monogeneans, were most often recorded in this study. The bacterial …

Analysis Of Temperature And Salinity Effects On Growth And Mortality Of Oysters (Crassostrea Virginica) In Louisiana, Troy Sehlinger

LSU New Orleans Theses and Dissertations

Salinity (S) and temperature (T) control every facet of the eastern oyster (Crassostrea virginica) life cycle, principally reproduction, development, growth, and mortality. Previous studies conducted in in the Breton Sound (BR) and Barataria (BA) estuaries have reported differences in growth and mortality rates between the basins. In the present study, environmental conditions were synchronized to compare growth and mortality rates between basins at similar combinations of T and S. Results indicate that when T and S are the same (synchronized), seasonal oyster growth and mortality rates differ between BR and BA. Seasonal analyses revealed that as salinities increased …

Bubble Stream Production By Belugas (Delphinapterus Leucas), Megan Slack

Theses

Bubble stream production in belugas has been poorly characterized and its function is not well understood. I examined behavioral states when producing bubble streams (“bubbling”), and when bubbling calls, to determine whether bubbling was significantly associated with a particular call category or behavioral state. Using 19 hours of video and audio recordings collected over a two-day period, I quantified bubble streams of a 4-month old calf and an unrelated adult female housed together. Based on the overall activity budgets and pool of vocalizations for both animals, I calculated the expected counts of bubble streams with and without vocalizations, assuming that …

Antipredatory Escape Behaviors Of Two Benthic Ctenophores In South Florida, Peter W. Glynn, Brian Coffman, Jeongran Vanderwoude, Nicolas Martinez, Joshua H. Dominguez, Julie M. Gross, Dorothy-Ellen A. Renegar

Marine & Environmental Sciences Faculty Articles

Benthic ctenophores, members of the family Coeloplanidae (Order Platyctenida, Phylum Ctenophora) are more widespread and abundant in tropical and subtropical marine environments than formerly recognized. Coeloplanid ctenophores are members of the most speciose family of benthic ctenophores, with 33 recognized species of Coeloplana and one species of the genus Vallicula (Mills 1998). The majority of coeloplanids are ectosymbionts of algae and diverse benthic invertebrates (Matsumoto 1999, Alamaru et al. 2015). Hundreds to thousands of individuals can occupy preferred habitats in < 1 m² of substrate patches. Galt (1998) noted Vallicula multiformis inhabiting algae in Hawaii at population densities as high as 10,000 …

Can The Marsh Migrate? Factors Influencing The Growth Of Spartina Patens In Upland Soil, Tessa M. Dowling

All Theses And Dissertations

Although high elevation salt marsh plants, such as Spartina patens (salt hay) can cope with accelerated sea level rise by migrating inland, it is not well known whether environmental factors, such as soil, plant litter, and salinity, will influence the ability of S. patens to colonize upland forest areas. For one growing season, I tested how S. patens vegetative growth (the final number of stems, aboveground stem biomass, and belowground rhizome biomass) and reproduction (presence of flowers) responded to upland or marsh soil, the presence or absence of plant litter, and 4.5ppt or 14.5ppt salinity levels. In order to determine …

Spatiotemporal Change In The Benthic Community Of Southeast Florida, Nicholas P. Jones

HCNSO Student Theses and Dissertations

High-latitude reefs have been postulated as refugia, centers for resilience or the first areas to undergo re-organization under climate change. The Southeast Florida Reef Tract (SEFRT) is a high-latitude reef system (>25 °N) running parallel to the highly urbanized coastline of southeast Florida. With a benthic community comprised of a mixture of coral reef associated assemblages, the SEFRT is towards the northern limit of stony coral cover due to temperature constraints. This study analyzed spatial variations in benthic cover, spatiotemporal changes in the benthic community and the impact of spatial and temporal fluctuations in temperature on benthic cover on …

Presence/Absence And Density Data For Epipelagic Tows Collected During R/V Blazing Seven Cruises Lf2016a And Lf2016b, Northern Gulf Of Mexico From 2016-06-09 To 2016-07-28, Jay R. Rooker, David Wells

DEEPEND Datasets

This dataset reports presence/absence and density data for epipelagic tows collected in the northern Gulf of Mexico during R/V Blazing Seven cruises LF2016A and LF2016B (2016-06-09 to 2016-07-28). Larval fishes were sampled from 48 stations and cruise data were collected at each site including latitude/longitude, date, time, environmental data (temperature, salinity, dissolved oxygen) and Sargassum dry weight. Larval catch data before and after the oil spill will be compared to improve our understanding of the causes of temporal variability as it relates to the Deep-Water Horizon oil spill (DWHOS). Habitat associations of selected taxa (billfishes, tunas, dolphinfishes, flyingfishes) will be …

Effects Of Ocean Warming, Sedimentation, And Parental Genotype On The Post-Settlement Survival And Growth Of Acropora Cervicornis Recruits, Jena Robbins

HCNSO Student Theses and Dissertations

Ocean warming and increased sedimentation from coastal activities are major threats to coral persistence. This study assessed the effects of increased temperature and sedimentation on the survival and growth of Acropora cervicornisrecruits. The potential for adults from different regions and genotypes to confer their offspring with higher or lower tolerance to heat and/or sediment was also determined. Gametes were collected and brought to the laboratory for cross fertilization of different genotypes within the regions collected. Larval rearing and settlement were then performed in the laboratory. Newly settled recruits were reared at 29 and 31°C (current summer temperature for August …

Climate And Plant Controls On Soil Organic Matter In Coastal Wetlands, Michael J. Osland, Christopher A. Gabler, James B. Grace, Richard H. Day, Meagan L. Mccoy, Jennie L. Mcleod, Andrew S. From, Nicholas M. Enwright, Laura C. Feher, Camille L. Stagg

School of Earth, Environmental, & Marine Sciences Faculty Publications

Coastal wetlands are among the most productive and carbon‐rich ecosystems on Earth. Long‐term carbon storage in coastal wetlands occurs primarily belowground as soil organic matter (SOM). In addition to serving as a carbon sink, SOM influences wetland ecosystem structure, function, and stability. To anticipate and mitigate the effects of climate change, there is a need to advance understanding of environmental controls on wetland SOM. Here, we investigated the influence of four soil formation factors: climate, biota, parent materials, and topography. Along the northern Gulf of Mexico, we collected wetland plant and soil data across elevation and zonation gradients within 10 …

Inventory Of Oceanic Fauna Data Including Species, Weight, And Measurements From R/V Point Sur (Cruise Dp05) In The Gulf Of Mexico From 2017-05-01 To 2017-05-11, April Cook, Tracey Sutton

DEEPEND Datasets

This dataset includes an inventory of Gulf of Mexico oceanic fauna data including species, weight, and measurements collected from R/V Point Sur (Cruise DP05) from 2017-05-01 to 2017-05-11. The main gear type used was a 10-m2 Multiple Opening Closing Net and Environmental Sensing System (MOCNESS). The MOCNESS was fitted with 6 nets which were opened according to the following depth scheme: net 0 from the surface to 1500m, net 1 from 1500-1200m, net 2 from 200-1000m, net 3 from 1000-600m, net 4 from 600-200m, and net 5 from 200m to the surface. Two trawls were conducted at each station sampled …

Ongoing Transposon-Mediated Genome Reduction In The Luminous Bacterial Symbionts Of Deep-Sea Ceratioid Anglerfishes, Tory Hendry, Lindsay L. Freed, Dana Fadera, Dante Fenolio, Tracey Sutton, Jose Lopez

Marine & Environmental Sciences Faculty Articles

Diverse marine fish and squid form symbiotic associations with extracellular bioluminescent bacteria. These symbionts are typically free-living bacteria with large genomes, but one known lineage of symbionts has undergone genomic reduction and evolution of host dependence. It is not known why distinct evolutionary trajectories have occurred among different luminous symbionts, and not all known lineages previously had genome sequences available. In order to better understand patterns of evolution across diverse bioluminescent symbionts, we de novo sequenced the genomes of bacteria from a poorly studied interaction, the extracellular symbionts from the “lures” of deep-sea ceratioid anglerfishes. Deep-sea anglerfish symbiont genomes are …

Southeast Florida Large (>2 Meter) Diseased Coral Colony Intervention Summary Report, Brian K. Walker, Alysha Brunelle

Marine & Environmental Sciences Faculty Reports

No abstract provided.

Heavy Metal Accumulation In Seagrasses In Southeastern Florida, Erin Smith

HCNSO Student Theses and Dissertations

Seagrass beds are among the most ecologically important systems in the marine environment. They provide the primary production to nearby coral reef and mangrove communities, and seagrasses comprise a large component of the diets of many marine organisms including fishes, small invertebrate species, and many protected species such as manatees and sea turtles. This consumption provides a pathway for many contaminants to enter the marine food web via the seagrasses. The coastal location of seagrass beds causes them to be especially susceptible to anthropogenic pollution, including accumulation of heavy metals, which has been shown to have many adverse health effects …

First Record Of Black Corals (Antipatharia) In Shallow Coastal Waters Of Northern Chile By Means Of Underwater Video, Matthias Gorny, Erin E. Easton, Javier Sellanes

School of Earth, Environmental, & Marine Sciences Faculty Publications

This record is the first report of black corals (Antipatharia) in shallow waters of the continental coast of Chile, and extends their geographical range in shallow waters of the upper continental shelf of South America by ~3000 km from Ecuador (~1°S) to Coquimbo, Chile (~29°S). Specimens were observed between 70 and 107 m on three underwater video transects executed in July 2016 on the rocky reef El Toro, which is located about 65 km northwest of Coquimbo. The images were taken with the cameras of a remotely operated vehicle (ROV) at a distance of about two meters from the rocks. …

Ms Analysis Of A Dilution Series Of Bacteria: Phytoplankton To Improve Detection Of Low Abundance Bacterial Peptides, Emma Timmins-Schiffman, Molly P. Mikan, Ying Sonia Ting, H. Rodger Harvey, Brook L. Nunn

OES Faculty Publications

Assigning links between microbial activity and biogeochemical cycles in the ocean is a primary objective for ecologists and oceanographers. Bacteria represent a small ecosystem component by mass, but act as the nexus for both nutrient transformation and organic matter recycling. There are limited methods to explore the full suite of active bacterial proteins largely responsible for degradation. Mass spectrometry (MS)-based proteomics now has the potential to document bacterial physiology within these complex systems. Global proteome profiling using MS, known as data dependent acquisition (DDA), is limited by the stochastic nature of ion selection, decreasing the detection of low abundance peptides. …

Assessment Of Mesophotic Coral Ecosystem Connectivity For Proposed Expansion Of A Marine Sanctuary In The Northwest Gulf Of Mexico: Larval Dynamics, Lysel Garavelli, Michael S. Studivan, Joshua D. Voss, Alyson Kuba, Joana Figueiredo, Laurent M. Cherubin

Marine & Environmental Sciences Faculty Articles

In coral reef ecosystems, mesophotic coral habitat (>30 m to the end of the photic zone) are extensions of shallow reefs and contribute to the persistence of coral reef populations. In the North West Gulf of Mexico (NW GOM), the Flower Garden Banks National Marine Sanctuary (FGBNMS) is an isolated reef ecosystem comprising contiguous shallow and mesophotic reefs habitats on two central banks along the margin of the continental shelf. A future expansion of the sanctuary is proposed to include additional mesophotic banks and aims at building a network of protected areas in the NW GOM to ensure the …

A Temporal Analysis Of A Deep-Pelagic Crustacean Assemblage (Decapoda: Caridea: Oplophoridae And Pandalidae) In The Gulf Of Mexico After The Deepwater Horizon Oil Spill, Devan Nichols

HCNSO Student Theses and Dissertations

In 2010, the largest oil spill in U.S history occurred off the coast of Louisiana from April 20^th to September 19^th, when the well was declared officially sealed by the U.S Coast Guard, after releasing more than 4.4 million barrels of crude oil into the Gulf of Mexico (GOM) (McNutt et al., 2012). This spill was unique because it occurred in deep water approximately 1500 m below the ocean surface. Virtually nothing is known about the effects of oil spills on marine life in the deep sea, and there are limited data on mesopelagic and bathypelagic animals …

Fine Grained Compositional Analysis Of Port Everglades Inlet Microbiome Using High Throughput Dna Sequencing, Lauren M. O'Connell, Song Gao, Donald S. Mccorquodale Jr., Jay M. Fleisher, Jose Lopez

Marine & Environmental Sciences Faculty Articles

Background

Similar to natural rivers, manmade inlets connect inland runoff to the ocean. Port Everglades Inlet (PEI) is a busy cargo and cruise ship port in South Florida, which can act as a source of pollution to surrounding beaches and offshore coral reefs. Understanding the composition and fluctuations of bacterioplankton communities (“microbiomes”) in major port inlets is important due to potential impacts on surrounding environments. We hypothesize seasonal microbial fluctuations, which were profiled by high throughput 16S rRNA amplicon sequencing and analysis.

Methods & Results

Surface water samples were collected every week for one year. A total of four samples …

Ecological Correlates Of Community Structure In Seagrass-Associated Fishes In North Biscayne Bay And Port Of Miami, Florida, Elizabeth F. Colhoun

HCNSO Student Theses and Dissertations

Seagrass habitats are critical habitat for many fish species and are currently threatened by anthropogenic and natural factors, such as coastal development, pollution, global climate change, and sea level rise. There are few studies that have tracked long- term changes in seagrass habitat and their associated fish communities. This project addressed this need using data collected by the United States Geological Survey (USGS) from two South Florida sites, North Biscayne Bay, FL (NBB) and Port of Miami, FL (POM). The USGS sampling was part of ongoing monitoring projects designed to assist future management decisions that would enhance the protection of …

Assessment Of Metals In Tissues Of Marine-Associated Birds In South Florida, Caitlyn A. Nay

HCNSO Student Theses and Dissertations

Seabirds – broadly defined as any bird species associated with the marine environment – are exposed to a wide range of environmental contaminants. Vectors of exposure to metal pollution include by external contact, inhalation, and most often ingestion of food and incidental seawater. Seabirds are often considered marine ecosystem bioindicators due to their high trophic position, relatively long lifespan, and wide geographic ranges. We examined the concentration of total mercury (THg), lead (Pb), and cadmium (Cd), in the kidney, liver, breast muscle, and feathers of seven species of juvenile and adult seabirds commonly found in South Florida: brown pelican Pelecanus …