Marine Biology Commons^™

Semi-Automated Object-Based Classification Of Coral Reef Habitat Using Discrete Choice Models, Steven Saul, Samuel J. Purkis

Marine & Environmental Sciences Faculty Articles

As for terrestrial remote sensing, pixel-based classifiers have traditionally been used to map coral reef habitats. For pixel-based classifiers, habitat assignment is based on the spectral or textural properties of each individual pixel in the scene. More recently, however, object-based classifications, those based on information from a set of contiguous pixels with similar properties, have found favor with the reef mapping community and are starting to be extensively deployed. Object-based classifiers have an advantage over pixel-based in that they are less compromised by the inevitable inhomogeneity in per-pixel spectral response caused, primarily, by variations in water depth. One aspect of …

Macrobenthic Communities In The Northern Gulf Of Mexico Hypoxic Zone: Testing The Pearson-Rosenberg Model, Shivakumar Shivarudrappa

Dissertations

The Pearson and Rosenberg (P-R) conceptual model of macrobenthic succession was used to assess the impact of hypoxia (dissolved oxygen [DO] ≤ 2 mg/L) on the macrobenthic community on the continental shelf of northern Gulf of Mexico for the first time. The model uses a stress-response relationship between environmental parameters and the macrobenthic community to determine the ecological condition of the benthic habitat. The ecological significance of dissolved oxygen in a benthic habitat is well understood. In addition, the annual recurrence of bottom-water hypoxia on the Louisiana/Texas shelf during summer months is well documented.

The P-R model illustrates the decreasing …

Marketing Alaskan Seafood: Strategies With Brand Identification, Differentiation, And Promotions, Anna Jacobson

Journalism

Everyday the globe experiences changes with food. New methods in growing and harvesting are becoming approved, while others are frowned upon. People care more about where their food comes from than ever before. This research is to explore how Alaska seafood can successfully market their products in an ever-changing world. As challenges present themselves in the industry, opportunities are there as well.

This study sets out to explore marketing strategies for promoting a seafood brand. Through exploring current literature and interviewing experts to obtain data, conclusions will be drawn and analyzed. These findings will help to understand the best practices …

Examination Of Larval Transport, Distribution And Hybridization Patterns Of Two Blue Mussel Species Mytilus Edulis And M. Trossulus In Machias Bay, Maine, Elizabeth A. Prochaska

All Theses And Dissertations

Using an interdisciplinary approach, this study examined the population connectivity of the blue mussel Mytilus trossulus within Machias Bay, Maine, near its inshore southern boundary range. The Eastern Maine Coast Current (EMCC) flows southwestward along the northern Gulf of Maine coastline, just outside of Machias Bay and is a potential pathway for M. trossulus larvae. This study compared results to two historical studies that assayed M. trossulus and M. edulis species distributions to evaluate any temporal changes. Both similarities and differences were found in species composition in Machias Bay. Historical data suggested that the lower Machias Bay was supplied by …

Management Strategy Evaluation For The Atlantic Surfclam, Spisula Solidissima, Using A Fisheries Economics Model, Kelsey M. Kuykendall

Master's Theses

The Atlantic surfclam, Spisula solidissima, is an economically valuable bivalve harvested along the northeastern United States. The surfclam’s range has contracted and the center of the stock’s distribution has shifted north driven by warmer bottom water temperatures. Declining landings per unit effort (LPUE) in the Mid-Atlantic Bight (MAB) is one result. Declining stock abundance and LPUE suggest that overfishing may be occurring off New Jersey. The objective of this project is to perform a management strategy evaluation (MSE) for Spisula solidissima. The terminal goal is to identify a preferred management option that promotes enhanced surfclam productivity in the …

Nutrient Concentrations For The Northeastern Gulf Of Mexico And West Florida Shelf: June 2012 – August 2014, Kendra L. Daly

C-IMAGE data

This dataset contains seasonal nutrient data collected from the northeastern Gulf of Mexico and the west Florida shelf. The contents of the dataset are an assessment of to assess the seasonal and interannual concentration and distribution of nutrients after the Deepwater Horizon oil spill.

Southeast Florida Large Coral Assessment 2015, Brian K. Walker, Katelyn Klug

Marine & Environmental Sciences Faculty Reports

The 2013 nearshore mapping project conducted by Walker and Klug expanded the previous knowledge on the amount, location, and species type of ecologically important large (>2 m) coral colonies in southeast Florida. They discovered over 110 previously undocumented large corals of which 60 were dead and 50 were still alive; 40 of the living corals were larger than 2 m wide and up to 5 m in diameter. Because these corals are the largest and oldest organisms on our reefs, they deserve special attention.

Currently there is unprecedented disease and bleaching in the northern portion of the Florida Reef …

Estudios En Biodiversidad, Volumen I, Griselda Pulido-Flores, Scott Monks, Maritza López-Herrera

Zea E-Books Collection

Este libro es el producto del trabajo colegiado que han desarrollado los profesores, investigadores, y estudiantes que conforman la Red Temática de Calidad Ambiental y Desarrollo Sustentable, a través del macroproyecto “Evaluación del impacto ambiental por actividades antropogénicas: Alternativas de mitigación”. El cual fue apoyado con recursos financieros por parte del Programa para el Desarrollo Profesional Docente (PRODEP), de la Secretaria de Educación Pública (SEP) en México. Las instituciones de educación superior y cuerpos participantes en la red temática son la Universidad Autónoma del Estado de Hidalgo (Uso, Manejo y Conservación de la Biodiversidad UAEHCA- 10; Ciencias Ambientales UAEH-CA-59); Universidad …

A Comparison Of Macroinfaunal Community Structure Between Artificial Concrete Boulder Reefs And Adjacent Natural Reefs In Broward County, Florida, Amber C. Metallo

HCNSO Student Theses and Dissertations

Relatively little is known about either the biological (i.e., predation) or physical (i.e., current, sedimentation) effects that artificial reefs may have on surrounding benthic infaunal communities. Following deployment of artificial reefs (concrete boulders) between the first and second reefs off Fort Lauderdale, Florida, on 30 October 2009, sediment cores were taken at 4 distances along three replicate 10-m transects on 13 and 26 September 2013, and 24 and 25 May 2014 at each of four artificial reef sites and four of their adjacent natural reef sites using SCUBA. Infauna (>0.5mm) were extracted from the sediment and identified to the …

Pelagic Habitat Use By Juvenile Reef Fishes In The Gulf Of Mexico, Katie Bowen, Tracey Sutton

Marine & Environmental Sciences Faculty Proceedings, Presentations, Speeches, Lectures

The assemblage composition, abundance, frequency of occurrence, and vertical distribution of juvenile reef fishes in the offshore pelagic habitat of the northern Gulf of Mexico are described. This study, a component of the NOAA-supported Offshore Nekton Sampling and Analysis Program, is the first to examine juvenile reef fish distributions across the oceanic northern Gulf of Mexico after the Deepwater Horizon oil spill. Results presented here are derived from a 3-month, spring/summer research cruise in 2011 on the M/V Meg Skansi. A 10-m² MOCNESS midwater trawl was used to sample 45 stations from the surface to a depth of …

Species Specific Microcalcification In Reef Building Caribbean Corals In Ocean Acidification Conditions, Ashley M. Dungan

HCNSO Student Theses and Dissertations

Coral reefs are one of the most economically important ecosystems on the planet. Despite their great contribution to the world economy, anthropogenic influence via carbon dioxide emissions is leading to unprecedented changes with concerns about subsequent negative impacts on reefs. Surface ocean pH has dropped 0.1 units in the past century; in spite of this rapid shift in oceanic chemistry, it is unclear if individual species or life stages of Caribbean stony corals will be more sensitive to ocean acidification (OA). Examined is the relationship between CO₂-induced seawater acidification, net calcification, photosynthesis, and respiration in three model Caribbean …

Individual-Level Variation And Higher-Level Interpretations Of Space Use In Wide-Ranging Species: An Albatross Case Study Of Sampling Effects, Sarah Gutowsky, Marty Leonard, Melinda Conners, Scott A. Shaffer, Ian Jonsen

Faculty Publications, Biological Sciences

Marine ecologists and managers need to know the spatial extent of at-sea areas most frequented by the groups of wildlife they study or manage. Defining group-specific ranges and distributions (i.e., space use at the level of species, population, age-class, etc.) can help to identify the source or severity of common or distinct threats among different at-risk groups. In biologging studies, this is accomplished by estimating the space use of a group based on a sample of tracked individuals. A major assumption of these studies is consistency in individual movements among members of a group. The implications of scaling up individual-level …

Bacterial Community Dynamics In Marine Sponge Cinachyrella Kuekenthali Under Irradiance And Antibiotics, Nidhi Vijayan

HCNSO Student Theses and Dissertations

The Marine sponge Cinachyrella sp used in this study are commonly found in offshore South Florida and Caribbean waters and appeared to be resilient in closed system aquaculture. Marine sponges host diverse bacterial symbionts that are distinct compared to bacteria found in ambient seawater, however the roles of a large fraction of the bacterial community in marine sponges are unknown. Comparison of symbiotic to aposymbiotic (bacteria-free) sponges could provide information about interactions (metabolic and physiologic) between the bacteria and sponge. In this study, a single Cinachyrella kuekenthali individual was subsectioned into explants (N=240) in order to provide identical bacterial communities …

Passive Acoustic Monitoring Of Beaked Whale Densities In The Gulf Of Mexico, John A. Hildebrand, Simone Baumann-Pickering, Kaitlin E. Frasier, Jennifer S. Trickey, Karlina P. Merkens, Sean M. Wiggins, Mark A. Mcdonald, Lance P. Garrison, Danielle Harris, Tiago A. Marques, Len Thomas

C-IMAGE Publications

Beaked whales are deep diving elusive animals, difficult to census with conventional visual surveys. Methods are presented for the density estimation of beaked whales, using passive acoustic monitoring data collected at sites in the Gulf of Mexico (GOM) from the period during and following the Deepwater Horizon oil spill (2010-2013). Beaked whale species detected include: Gervais' (Mesoplodon europaeus), Cuvier's (Ziphius cavirostris), Blainville's (Mesoplodon densirostris) and an unknown species of Mesoplodon sp. (designated as Beaked Whale Gulf - BWG). For Gervais' and Cuvier's beaked whales, we estimated weekly animal density using two methods, one based on the number of echolocation clicks, …

Reproductive Parameters Of Two Coastal Pelagic Fishes Off Southeast Florida: Blackfin Tuna, Thunnus Atlanticus, And Little Tunny, Euthynnus Alletteratus, Sonia Ahrabi-Nejad, David Kerstetter, Nancy J. Brown-Peterson, Patricia Blackwelder, Dorothy-Ellen A. Renegar

Marine & Environmental Sciences Faculty Proceedings, Presentations, Speeches, Lectures

No abstract provided.

Seismic Surveys And Marine Turtles: An Underestimated Global Threat?, Sarah E. Nelms, Wendy Dow Piniak, Caroline R. Weir, Brendan J. Godley

Environmental Studies Faculty Publications

Seismic surveys are widely used in marine geophysical oil and gas exploration, employing airguns to produce sound-waves capable of penetrating the sea floor. In recent years, concerns have been raised over the biological impacts of this activity, particularly for marine mammals. While exploration occurs in the waters of at least fifty countries where marine turtles are present, the degree of threat posed by seismic surveys is almost entirely unknown. To investigate this issue, a mixed-methods approach involving a systematic review, policy comparison and stakeholder analysis was employed and recommendations for future research were identified. This study found that turtles have …

Research, Monitoring, Assessment And Development Plan 2015 – 2020, Department Of Fisheries

Fisheries Occasional Publications

No abstract provided.

Genomic And Transcriptomic Evidence For Scavenging Of Diverse Organic Compounds By Widespread Deep-Sea Archaea, Meng Li, Brett J. Baker, Karthik Anantharaman, Sunit Jain, John A. Breier, Gregory J. Dick

School of Earth, Environmental, & Marine Sciences Faculty Publications

Microbial activity is one of the most important processes to mediate the flux of organic carbon from the ocean surface to the seafloor. However, little is known about the microorganisms that underpin this key step of the global carbon cycle in the deep oceans. Here we present genomic and transcriptomic evidence that five ubiquitous archaeal groups actively use proteins, carbohydrates, fatty acids and lipids as sources of carbon and energy at depths ranging from 800 to 4,950 m in hydrothermal vent plumes and pelagic background seawater across three different ocean basins. Genome-enabled metabolic reconstructions and gene expression patterns show that …

Fine-Grained Bacterial Compositional Analsysis Of The Port Everglades Inlet (Broward County, Fl) Microbiome Using High Throughput Dna Sequencing, Lauren M. O'Connell

HCNSO Student Theses and Dissertations

Port Everglades Inlet is one of the busiest ports in the country and is a point source of pollution to surrounding beaches and offshore corals from heavy boat traffic and urban runoff. Understanding fluctuations of bacterioplankton communities in major port inlets is important due to their impacts on surrounding marine environments. To understand annual microbial fluctuations, the 16s rRNA V4 hypervariable region was sequenced using Illumina high-throughput DNA sequencing technology. Surface samples were taken weekly for one year to generate baseline fluctuations in the microbial community. Total reads of 1.4 million were generated with a final count of 16,384 Operational …

Biodiversity And Ecological Dynamics Of Sciophilous Benthic Communities On Artificial Plates: Emphasis On Reef Sponges, Caidra Elizabeth Hassanzada

HCNSO Student Theses and Dissertations

Low light intensity habitats harbor unique sciophilous benthic communities and are a source of novel and unique sponge fauna. However, the community structure of these habitats is poorly studied to date. Thus, this study attempts to understand the composition and structure of sciophilous sponge populations in southeast Florida. Fifty limestone plates were placed on a shallow reef in Fort Lauderdale for two years (2010-2012). To identify the sponge community and their patterns over time, all plates were photographed at the end of each year. Then, samples were taken from each of the live sponge specimens observed on the plates and …

Wintering North Pacific Black-Legged Kittiwakes Balance Spatial Flexibility And Consistency, Rachael Orben, Rosana Paredes, Daniel Roby, David Irons, Scott A. Shaffer

Faculty Publications, Biological Sciences

Background Marine environments are inherently dynamic, yet marine predators are often long-lived and employ strategies where consistency, individual specialization, routine migrations, and spatial memory are key components to their foraging and life-history strategies. Intrinsic determinates of animal movements are linked to physiological and life-history traits (e.g. sex, colony, experience), while extrinsic influences occur as the result of an animal’s interactions with either other animals or the environment (e.g. prey availability, weather, competition). Knowledge of the factors affecting animal movements is critical to understand energetic bottlenecks and population dynamics. Here, we attempt to understand the interaction of some of these factors …

Shellfish Tissue Monitoring In Piscataqua Region Estuaries 2014, Matthew A. Wood

PREP Reports & Publications

Originally conducted by the Gulf of Maine Council on the Marine Environment from 1993 to 2011, the Gulfwatch Program examined trends in the water quality of the Gulf of Maine by monitoring toxic contaminant concentrations in the tissues of shellfish. Starting in 2012 the Piscataqua Region Estuaries Partnership (PREP) continued this program in the Piscataqua Region. Each year, PREP collects blue mussels at three sites: Dover Point, NH (NHDP), Clark Cove on Seavey Island, ME (MECC), and Hampton-Seabrook Harbor (NHHS). The mussel tissue is analyzed to determine the concentrations of toxic contaminantss including heavy metals, chlorinated pesticides, polychlorinated biphenyls (PCBs), …

Learning From Lionfish: Modeling Marine Invaded Systems, Matthew Johnston

Mathematics Colloquium Series

Simulating marine invaded systems requires broad consideration of physical oceanographic processes, such as ocean circulation patterns and temperature, and biological traits of the invader, such as their reproductive strategy and tolerances to their environment. Through this understanding of baseline biological and oceanographic function, models can be developed in order to forecast the incursion patterns of marine invasive species - helpful both to predict their spread as well as forewarn of impacts. To facilitate this understanding, computer simulation is useful in order to quickly and efficiently assimilate large biological and oceanographic datasets into digestible products. Data derived from such simulations are …

Temporal Variation In Optical Properties Of Chromophoric Dissolved Organic Matter (Cdom) In Southern California Coastal Waters With Nearshore Kelp And Seagrass, Catherine D. Clark, Warren J. De Bruyn, Paige Aiona

Biology, Chemistry, and Environmental Sciences Faculty Articles and Research

Optical properties of chromophoric dissolved organic matter (CDOM) were measured in surf zone waters in diurnal field studies at a Southern California beach with nearshore kelp and seagrass beds and intertidal plant wrack. Absorption coefficients (aCDOM(300 nm)) ranged from 0.35 m21 to 3.7 m21 with short-term variability<1 h, increases at ebb and flood tides and higher values (6 m21) during an offshore storm event. Spectral slopes (S) ranged from 0.0028 nm21 to 0.017 nm21, with higher values after the storm; S was generally inversely correlated with aCDOM(300 nm). 3-D excitation–emission matrix spectra (EEMs) for samples with lower S values had humic-type peaks associated with terrestrial material (A, C), marine microbial material (M) and protein peaks, characteristic of freshly produced organic material. Samples with high S values had no or reduced protein peaks, consistent with aged material. Fluorescent indexes (f450/f500 >2.5, BIX>1.1) were consistent with microbial aquatic sources. Leachates of senescent kelp and seagrass had protein and humic-type EEM peaks. After solar simulator irradiation (4 h), protein peaks rapidly photochemically degraded, humic-type peak C increased in intensity and peak M disappeared. Optical characteristics of kelp leachates were most similar to field samples, …

Size And Abundance Of Pismo Clams In The Intertidal And Subtidal, Jenny Greene

Symposium

Pismo clams, Tivela stultorum, were observed at Rincon Beach, CA to find patterns of abundance and size distribution along a depth gradient from the intertidal, where recreational clammers have access on foot, to the subtidal, where clammers only have access with more specialized snorkeling or SCUBA equipment. Size and abundance patterns were compared between the intertidal and subtidal regions. A heuristic model was created to predict the effects of predation and wave action on clam density. Clam abundance was significantly greater in the intertidal than the subtidal and displayed a Gaussian distribution across the entire distance sampled. While Pismo clam …

Telonicher Marine Laboratory, Hsu Telonicher Marine Laboratory

Newsletters

No abstract provided.

Viewing The Status Of Virginia’S Environment Through The Lens Of Freshwater Fishes, Paul L. Angermeier, Michael J. Pinder

Virginia Journal of Science

We summarize a range of topics related to the status of Virginia’s freshwater fishes, their reflection of environmental quality, and their contribution to human wellbeing. Since 1994 the list of extant Virginia fishes has lengthened from 210 species to 227 species, mostly due to taxonomic reorganizations. Virginia’s list of Species of Greatest Conservation Need currently contains 96 fish species, predominated by darters (32 species) and minnows (28 species). Increasing trends in species rarity and threats to fishes suggest that Virginia’s aquatic environment is becoming less hospitable for fishes. Prevailing anthropogenic threats to fishes include agriculture, urban development, mineral extraction, forestry, …

Foraging Behavior Links Climate Variability And Reproduction In North Pacific Albatrosses, Lesley Thorne, Elliott Hazen, Steven Bograd, David Foley, Melinda Conners, Michelle Kappes, Hyemi Kim, Daniel Costa, Yann Tremblay, Scott A. Shaffer

Faculty Publications, Biological Sciences

Background: Climate-driven environmental change in the North Pacific has been well documented, with marked effects on the habitat and foraging behavior of marine predators. However, the mechanistic linkages connecting climate-driven changes in behavior to predator populations are not well understood. We evaluated the effects of climate-driven environmental variability on the reproductive success and foraging behavior of Laysan and Black-footed albatrosses breeding in the Northwest Hawaiian Islands during both brooding and incubating periods. We assessed foraging trip metrics and reproductive success using data collected from 2002–2012 and 1981–2012, respectively, relative to variability in the location of the Transition Zone Chlorophyll Front …

Lingcod (Ophiodon Elongatus) Habitat Associations: Implications For Conservation And Management, Megan Bassett

SNS Master's Theses

Understanding the spatial distribution of marine species and the temporal and spatial scales of the processes that drive those distributions continues to be limited, but is increasingly more critical with the implementation of marine spatial planning. Lingcod (Ophiodon elongatus) are a common demersal fish found from southern Alaska to Baja California, and are exploited both commercially and recreationally across the entirety of their range. Due to stock declines, Lingcod are managed using a variety of fisheries management tools, including spatial management. This study represents a unique in situ investigation of demersal habitat utilization by Lingcod at the southern portion of …

Flexibility Of Crab Chemosensory Hairs Enables Flicking Antennules To Sniff, Lindsay D. Waldrop, Matthew A. Reidenbach, M. A. R. Koehl

Biology, Chemistry, and Environmental Sciences Faculty Articles and Research

The first step in smelling is capture of odorant molecules from the surrounding fluid. We used lateral flagella of olfactory antennules of crabs Callinectes sapidus to study the physical process of odor capture by antennae bearing dense tufts of hair-like chemosensory sensilla (aesthetascs). Fluid flow around and through aesthetasc arrays on dynamically scaled models of lateral flagella of C. sapidus was measured by particle image velocimetry to determine how antennules sample the surrounding water when they flick. Models enabled separate evaluation of the effects of flicking speed, aesthetasc spacing, and antennule orientation. We found that crab antennules, like those of …