This is a select list of works produced by the faculty of the USF Department of Integrative Biology. 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 2017

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Microbe Biogeography Tracks Water Masses in a Dynamic Oceanic Frontal System, Anni Djurhuus, Philipp H. Boersch-Supan, Svein-Ole Mikalse, and Alex D. Rogers

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Chronic effects of an invasive species on an animal community, J. Sean Doody, David Rhind, Brian Green, Christina Castellano, and Colin McHenry

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First Evidence of the Pig-nosed Turtle (Carettochelys insculpta) Vocalizing Underwater, Camila R. Ferrara, Richard C. Vogt, Carla C. Eisemberg, and J. Sean Doody

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Rapid and Intense Phosphate Desorption Kinetics When Saltwater Intrudes into Carbonate Rock, Hilary Flower, Mark Rains, David B. Lewis, and Jia-Zhong Zhang

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Saltwater Intrusion as Potential Driver of Phosphorus Release from Limestone Bedrock in a Coastal Aquifer, Hilary Flower, Mark Rains, David B. Lewis, Jia-Zhong Zhang, and René Price

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The latitudinal diversity gradient and interspecific competition: no global relationship between lizard dietary niche breadth and species richness, Alison M. Gainsbury and Shai Meiri

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Changing Measurements or Changing Movements? Sampling Scale and Movement Model Identifiability across Generations of Biologging Technology, Leah R. Johnson, Philipp H. Boersch-Supan, Richard A. Phillips, and Sadie J. Ryan

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Diversity of midwater cephalopods in the northern Gulf of Mexico: Comparison of two collecting methods., Heather L. Judkins, Michael Vecchione, April B. Cook, and Tracey T. Sutton

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Carriage frequency, phenotypic, and genotypic characteristics of methicillin-resistant Staphylococcus aureus isolated from dental health-care personnel, patients, and environment, Ahmed S. Khairalla, Reham Wasfi, and Hossam M. Ashour

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Suitability of Laurentian Great Lakes for Invasive Species Based on Global Species Distribution Models and Local Habitat, Andrew M. Kramer, Gust Annis, Marion E. Wittmann, William L. Chadderton, Edward S. Rutherford, David M. Lodge, Lacey Mason, Dmitry Beletsky, Catherine Riseng, and John M. Drake

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Population density-range size relationship revisited, Maria Novosolov, Gordon H. Rodda, Alexandra C. North, Stuart H.M. Butchart, Oliver J.S. Tallowin, Alison M. Gainsbury, and Shai Meiri

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Genetic and Epigenetic Variation in Spartina Alterniflora Following the Deepwater Horizon Oil Spill, Marta Robertson, Aaron Schrey, Ashley Shayter, Christina J. Moss, and Christina Richards

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Accuracy of Climate-based Forecasts of Pathogen Spread, Annakate M. Schatz, Andrew M. Kramer, and John M. Drake

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Spatiotemporal Fluctuations and Triggers of Ebola Virus Spillover, John Paul Schmidt, Andrew W. Park, Andrew M. Kramer, Barbara A. Han, Laura W. Alexander, and John M. Drake

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Cephalopod biodiversity in the vicinity of Bear Seamount, western North Atlantic based on exploratory trawling form 2000 to 2014., Elizabeth K. Shea, Heather L. Judkins, Michelle D. Staudinger, Valeria H. Dimlovikj, Annie Lindgren, and Michael Vecchione

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Inventory of Gulf oceanic fauna data including species, weight, and measurements. Meg Skansi cruises from Jan. 25 - Sept. 30, 2011 in the Northern Gulf of Mexico., Tracey T. Sutton, April B. Cook, Jon A. Moore, Tamara M. Frank, Heather L. Judkins, Michael Vecchione, Martha Nizinski, and Marshall Youngbluth

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Tropical Pacific climate variability over the last 6000 years as recorded in Bainbridge Crater Lake, Galápagos., Diane M. Thompson, Jessica L. Conroy, Stephan Hlohowskyj, Jonathan T. Overpeck, Melanie A. Riedinger-Whitmore, Julia E. Cole, Mark B. Bush, H. Whitney, Timothy L. Corley, and Miriam Steinitz-Kannan

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Resource partitioning among five sympatric species of freshwater turtles from the wet-dry tropics of northern Australia, Michael A. Welsh, J. Sean Doody, and Arthur Georges

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Refining Species Distribution Model Outputs using Landscape-scale Habitat Data: Forecasting Grass Carp and Hydrilla Establishment in the Great Lakes Region, Marion E. Wittmann, Gust Annis, Andrew M. Kramer, Lacey Mason, Catherine Riseng, Edward S. Rutherford, William L. Chadderton, Dmitry Beletsky, John M. Drake, and David M. Lodge

Submissions from 2016

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Current Status of Marker Genes of Bacteroides and Related Taxa for Identifying Sewage Pollution in Environmental Waters, Warish Ahmed, Bridie Hughes, and Valerie J. Harwood

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Surveillance, epidemiological, and virological detection of highly pathogenic H5N1 avian influenza viruses in duck and poultry from Bangladesh, Wahedul Karim Ansari, Md Shafiullah Parvej, Mohamed E. El Zowalaty, Sally Jackson, Stephen A. Bustin, Adel K. Ibrahim, Ahmed E. El Zowalaty, Md Tanvir Rahman, Han Zhang, Mohammad Ferdousur Rahman Khan, Md Mostakin Ahamed, Md Fasiur Rahman, Marzia Rahman, K.H.M. Nazmul Hussain Nazir, Sultan Ahmed, Md Liakot Hossen, Md Abdul Kafi, Mat Yamage, Nitish C. Debnath, Graba Ahmed, Hossam M. Ashour, Md Masudur Rahman, Ayman Noreddin, and Md Bahanur Rahman

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An Experiment in Graduate Education: A Marine Science Adventure across the Indian Ocean, Vicki Buchsbaum Pearse, John C. Ogden, and Sharon J. Proctor

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Effects of Nutrient Supplementation on Host-pathogen Dynamics of the Amphibian Chytrid Fungus: A Community Approach, Julia C. Buck, Jason R. Rohr, and Andrew R. Blaustein

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Paul Colinvaux 1930–2016., Mark B. Bush, Melanie A. Riedinger-Whitmore, Miriam Steinitz-Kannan, and Michael C. Miller

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A study on abdominal wagging in the fire ant, Solenopsis invicta, with speculation on its meaning., Deby L. Cassill, Krista Ford, Lieu Huynh, Daniel Shiffman, and S. Bradleigh Vinson

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Do Geographically Isolated Wetlands Influence Landscape Functions?, Matthew J. Cohen, Irena F. Creed, Laurie Alexander, Nandita B. Basu, Aram J.K. Calhoun, Christopher Craft, Ellen D'Amico, Edward DeKeyser, Laurie Fowler, Heather E. Golden, James W. Jawitz, Peter Kalla, L. Katherine Kirkman, Charles R. Lane, Megan Lang, Scott G. Leibowitz, David B. Lewis, John Marton, Daniel L. McLaughlin, David M. Mushet, Hadas Raanan-Kiperwas, Mark C. Rains, Lora Smith, and Susan C. Walls

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Ordination Obscures the Influence of Environment on Plankton Metacommunity Structure, Tad A. Dallas, Andrew M. Kramer, Marcus Zokan, and John M. Drake

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Dynamics and Thermal Sensitivity of Ballistic and Non-ballistic Feeding in Salamanders, Stephen M, Deban and Jeffrey A. Scales

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Reintroducing Environmental Change Drivers in Biodiversity-Ecosystem Functioning Research., Frederik De Laender, Jason R. Rohr, Roman Ashauer, Donald J Baird, Uta Berger, Nico Eisenhauer, Volker Grimm, Udo Hommen, Lorraine Maltby, and Carlos J Meliàn

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MIR494 Reduces Renal Cancer Cell Survival Coinciding with Increased Lipid Droplets and Mitochondrial Changes, Punashi Dutta, Edward Haller, Arielle Sharp, and Meera Nanjundan

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Control of Phosphorus Concentration through Adsorption and Desorption in Shallow Groundwater of Subtropical Carbonate Estuary, Hilary Flower, Mark Rains, David B. Lewis, Jia-Zhong Zhang, and René Price

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How the Bending Kinematics of Swimming Lampreys Build Negative Pressure Fields for Suction Thrust, Brad J. Gemmell, Stephanie M. Fogerson, John H. Costello, Jennifer R. Morgan, John O. Dabiri, and Sean P. Colin

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Global Patterns of Zoonotic Disease in Mammals, Barbara A. Han, Andrew M. Kramer, and John M. Drake

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Darwinian Sex Roles Confirmed across the Animal Kingdom, Tim Janicke, Ines K. Häderer, Marc J. Lajeunesse, and Nils Anthes

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Combined Effects of Pesticides and Trematode Infections on Hourglass Tree Frog Polypedates cruciger., Uthpala A. Jayawardena, Jason R. Rohr, Ayanthi N. Navaratne, Priyanie H. Amerasinghe, and Rupika S. Rajakaruna

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What Dr. Judkins Does with Her Days., Heather L. Judkins

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Morphological and molecular evidence of heteroteuthis dagamensis in the Gulf of Mexico, Heather L. Judkins, M. Vecchione, and K. Rosario

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Experimental Demonstration of an Allee Effect in Microbial Populations, RajReni B. Kaul, Andrew M. Kramer, Fred C. Dobbs, and John M. Drake

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Human-Associated Bacteroides spp. and Human Polyomaviruses as Microbial Source Tracking Markers in Hawaii, Marek Kirs, Roberto A Caffaro-Filho, Mayee Wong, Valerie J. Harwood, Philip Moravcik, and Roger S Fujioka

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Spatial Spread of the West Africa Ebola Epidemic, Andrew M. Kramer, J. Tomlin Pulliam, Laura W. Alexander, Andrew W. Park, Pejman Rohani, and John M. Drake

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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, and John M. Drake

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Response of Wetland Soil Carbon to Groundwater Conservation: Probabilistic Outcomes from Error Propagation, David B. Lewis

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Ultrafiltration and Microarray for Detection of Microbial Source Tracking Marker and Pathogen Genes in Riverine and Marine Systems, Xiang Li, Valerie J. Harwood, Bina Nayak, and Jennifer L Weidhaas

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Risk Analysis and Bioeconomics of Invasive Species to Inform Policy and Management, David M. Lodge, Paul W. Simonin, Stanley W. Burgiel, Reuben P. Keller, Jonathan M. Bossenbroek, Christopher L. Jerde, Andrew M. Kramer, Edward S. Rutherford, Matthew A. Barnes, Marion E. Wittmann, W. Lindsay Chadderton, Jenny L. Apriesnig, Dmitry Beletsky, Roger M. Cooke, John M. Drake, Scott P. Egan, David C. Finnoff, Crysta A. Gantz, Erin K. Grey, Michael H. Hoff, Jennifer G. Howeth, Richard A. Jensen, Eric R. Larson, Nicholas E. Mandrak, Doran M. Mason, Felix A. Martinez, Tammy J. Newcomb, John D. Rothlisberger, Andrew J. Tucker, Travis W. Warziniack, and Hongyan Zhang

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The ecology and evolution of temperature-dependent reaction norms for sex determination in reptiles: a mechanistic conceptual model, Nadav Pezaro, J. Sean Doody, and Michael B. Thompson

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Seasonal sex ratios and the evolution of temperature-dependent sex determination in oviparous lizards, Nadav Pezaro, M. B. Thompson, and J. Sean Doody

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Step by Step: Biology Undergraduates' Problem-Solving Procedures during Multiple-Choice Assessment, Luanna B Prevost and Paula P Lemons

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Using palaeoecological and palaeoenvironmental records to guide restoration, conservation and adaptive management of Ramsar freshwater wetlands: Lessons from the Everglades, USA., Melanie A. Riedinger-Whitmore

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Transforming Ecosystems: When, Where, and How to Restore Contaminated Sites, Jason R. Rohr, Aïda M. Farag, Marc W. Cadotte, William H. Clements, James R. Smith, Cheryl P. Ulrich, and Richard Woods

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The Pros and Cons of Ecological Risk Assessment Based on Data from Different Levels of Biological Organization, Jason R. Rohr, Christopher J. Salice, and Roger M. Nisbet

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Home-Field Advantage? Evidence of Local Adaptation Among Plants, Soil, and Arbuscular Mycorrhizal Fungi through Meta-Analysis, Megan A. Rúa, Anita Antoninka, Pedro M. Antunes, V Bala Chaudhary, Catherine Gehring, Louis J. Lamit, Bridget J. Piculell, James D. Bever, Cathy Zabinski, James F. Meadow, Marc J. Lajeunesse, Brook G. Milligan, Justine Karst, and Jason D. Hoeksema

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Grass Carp Habitat Suitability, Establishment and Movement in the Detroit – St. Clair River Corridor, Edward Rutherford, Rochelle Sturtevant, Nicholas Mandrak, Aaron Thompson, Andrew M. Kramer, Marion Wittmann, Patrick Kočovský, Holly Embke, Christine Mayer, Song Qian, Travis Brenden, Charles Krueger, Cleyo Harris, and Christopher Vandergoot

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The influence of nest-site choice and predator sensory cues on nesting success in the Crimson Finch (Neochmia phaeton), Rebekah Soanes, Anne Peters, Kaspar Delhey, and J. Sean Doody

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The dynamics of vertical migration in the oceanic Gulf of Mexico after Deepwater Horizon: Active linkage of large vertebrates and deep-pelagic nekton., Tracey T. Sutton, April B. Cook, Tamara M. Frank, Kevin M. Boswell, Michael Vecchione, Heather L. Judkins, and Isabel C. Romero

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Mathematical Models are a Powerful Method to Understand and Control the Spread of Huanglongbing, Rachel A Taylor, Erin A Mordecai, Christopher A Gilligan, Jason R. Rohr, and Leah R Johnson

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Hunting, Food Subsidies, and Mesopredator Release: the Dynamics of Crop-raiding Baboons in a Managed Landscape, Rachel A. Taylor, Sadie J. Ryan, Justin S. Brashares, and Leah R. Johnson

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Predator Diet and Trophic Position Modified with Altered Habitat Morphology, Alexander Tewfik, Susan S. Bell, Kevin S. McCann, and Kristina Morrow

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Molecular typing and virulence analysis of multidrug resistant Klebsiella pneumoniae clinical isolates recovered from Egyptian hospitals, Reham Wafsi, Walid F. Elkhatib, and Hossam M. Ashour

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Synthetic Biology Open Language (SBOL) Version 2.1.0, Zhen Zhang

Submissions from 2015

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Immune tolerance elicited via unique ocular and oral routes, Hossam M. Ashour

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What can ants tell us about collective behavior during a natural catastrophe?, Deby L. Cassill, Alexander Casella, Jaeson Clayborn, Matthew Perry, and Michael Lagarde

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Black box and attics: Habitat selection and resource use by large threatened pythons in landscapes with contrasting human modification, B. Corey and J. Sean Doody

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The Dry Season Shuffle: Gorges Provide Refugia for Animal Communities in Tropical Savannah Ecosystems, J. Sean Doody, Simon Clulow, Geoff Kay, Domenic D'Amore, and David Rhind

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Deep nesting in a lizard, deja vu devil's corkscrews: first helical reptile burrow and deepest vertebrate nest, J. Sean Doody, Hugh James, Kim Colyvas, Colin R. McHenry, and Simon Clulow

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Invasive toads shift predator-prey densities in animal communities by removing top predators, J. Sean Doody, Rebekah Soanes, Christina M. Castellano, David Rhind, Brian Green, and Colin R. McHenry

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Ebola Cases and Health System Demand in Liberia, John M. Drake, RajReni B. Kaul, Laura W. Alexander, Suzanne M. O’Regan, Andrew M. Kramer, J. Tomlin Pulliam, Matthew J. Ferrari, and Andrew W. Park

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Ebola Cases and Health System Demand in Liberia, John M. Drake, RajReni B. Kaul, Laura W. Alexander, Suzanne M. O’Regan, Andrew M. Kramer, J. Tomlin Pulliam, Matthew J. Ferrari, and Andrew W. Park

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Immigration can Destabilize Tri-trophic Interactions: Implications for Conservation of Top Predators, Kevin L. S. Drury, Jesse D. Suter, Jacob B. Rendall, Andrew M. Kramer, and John M. Drake

A significant south-western range extension for the desert mouse (Pseudomys desertor) in Western Australia, R. J. Ellis, P. B.S. Spencer, J. Sean Doody, and T. Parkin

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Pseudomonas aeruginosa: arsenal of resistance mechanisms, decades of changing resistance profiles, and future antimicrobial therapies, Mohammed E. El Zowalaty, Asmaa A. Al Thani, Thomas J. Webster, Ahmed E. El Zowalaty, Herbert P. Schweizer, Gheyath K. Nasrallah, Hany E. Marei, and Hossam M. Ashour

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Connecting Carbon and Nitrogen Storage in Rural Wetland Soil to Groundwater Abstraction for Urban Water Supply, David B. Lewis and Sharon J. Feit

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Geographically Isolated Wetlands Are Important Biogeochemical Reactors on the Landscape, John M. Marton, Irena F. Creed, David B. Lewis, Charles R. Lane, Nandita B. Basu, Matthew J. Cohen, and Christopher Craft

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Adaptive Plasticity and Epigenetic Variation in Response to Warming in an Alpine Plant, Adrienne B. Nicotra, Deborah L. Segal, Gemma L. Hoyle, Aaron W. Schrey, Koen J. Verhoeven, and Christina L. Richards

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Molecular diagnosis of bovine tuberculosis in bovine and human samples: implications for zoonosis, Md Masudur Rahman, Monira Noor, Kazi Mehetazul Islam, Md Bashir Uddin, Ferdaus M.A Hossain, Mohammad A. Zinnah, Mohammad Al Mamun, Mohammad Rafiqul Islam, Seong Kug Eo, and Hossam M. Ashour

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A compilation of recent records of the giant squid, Architeuthis dux (Steenstrup, 1857) (Cephalopoda) from the Western North Atlantic Ocean, Newfoundland to the Gulf of Mexico., Clyde F.E. Roper, Heather L. Judkins, Nancy A. Voss, Elizabeth Shea, Earl Dawe, Debi Ingrao, Paula L. Rothman, and Ingrid H. Roper

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Understanding deep-pelagic ecosystem dynamics: A new research initiative in the Gulf of Mexico (DEEPEND)., Tracey T. Sutton, Kevin M. Boswell, H. Bracken-Grisson, April B. Cook, S. deRada, D. English, R. Eytan, D. Fenolio, Tamara M. Frank, C. Hu, M. Johnston, Heather L. Judkins, C. Lembke, J.V. Lopez, Jon A. Moore, Martha Nizinski, B. Penta, Isabel C. Romero, J.R. Rooker, M. Shivji, R.J.D. Wells, Michael Vecchione, and Marsh Youngbluth

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What have we learned about the diversity of oceanic fauna of the Gulf of Mexico after Deepwater Horizon? Initial results of the NOAA Offshore Nekton Sampling and Analysis Program., Tracey T. Sutton, April B. Cook, Tamara M. Frank, Heather L. Judkins, Jon A. Moore, Martha Nizinski, Theodore W. Pietsch, and Marsh Youngbluth

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Limnetic total phosphorus transfer functions for lake management: considerations about their design, use, and effectiveness., Thomas J. Whitmore, Francesca M. Lauterman, Kathryn E. Smith, and Melanie A. Riedinger-Whitmore

Submissions from 2014

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Abundance of North American Tortoises, Linda J. Allison and Earl D. McCoy

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Modeling Soil Parameters Using Hyperspectral Image Reflectance Insubtropical Coastal Wetlands, Naveen J.P. Anne, Amr H. Abd-Elrahman, David B. Lewis, and Nicole A. Hewitt

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Book Review: One Health — People, Animals, and the Environment, Hossam M. Ashour

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The Ant Shrink., Deby L. Cassill

What can ants tell us about corporate social responsibility?, Deby L. Cassill

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Effects of beach renourishment and clutch relocation on the success of the Loggerhead Sea Turtle (Caretta caretta) eggs and hatchlings., Lauren Dellert, Danielle O'Neil, and Deby L. Cassill

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Patterns of Predation and Antipredator Behavior in the Australian Water Dragon, Physignathus Lesuerii, J. Sean Doody, Peter Harlow, Donna Douglass, Jason D. Thiem, and Ben Broadhurst

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Cryptic and Complex Nesting in the Yellow-Spotted Monitor, Varanus panoptes, J. Sean Doody, James Hugh, Ryan Ellis, Nick Gibson, and Mitchell Raven

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Impacts of the invasive cane toad on aquatic reptiles in a highly modified ecosystem: the importance of replicating impact studies, J. Sean Doody, Phil Mayes, Simon Clulow, David Rhind, and Brian Green

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Evaluation of different microtiter plate-based methods for the quantitative assessment of Staphylococcus aureus biofilms, Walid F. Elkhatib, Ahmed S. Khairalla, and Hossam M. Ashour

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In vitro-induced cell-mediated immune deviation to encephalitogenic antigens, Shukkur M. Farooq and Hossam M. Ashour

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The in vivo and in vitro induction of anterior chamber associated immune deviation to myelin antigens in C57BL/6 mice, Shukkur M. Farooq, Walid F. Elkhatib, and Hossam M. Ashour

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Eye-mediated immune tolerance to Type II collagen in arthritis-prone strains of mice, Shukkur M. Farooq, Ashok Kumar, and Hossam M. Ashour

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Effects of abandoned Eucalyptus plantations on lizard communities in the Brazilian Cerrado, Alison M. Gainsbury and Guarino R. Colli

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Multisensory Integration and Behavioral Plasticity in Sharks from Different Ecological Niches, Jayne M. Gardiner, Jelle Atema, Robert E. Hueter, and Philip J. Motta

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The study of deep-sea cephalopods., Henk-Jan T. Hoving, Jose A.A. Perez, Kathrin S. Bolstad, Heather E. Braid, Aaron B. Evans, Dirk Fuchs, Heather L. Judkins, Jesse T. Kelly, Jose E.A.R. Marian, Ryuta Nakajima, Uwe Piatkowski, Amanda Reid, Michael Vecchione, and Jose C.C. Xavier

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Nitrogen Inputs and Losses in Response to Chronic CO2 Exposure in a Subtropical Oak Woodland, B. A. Hungate, B. D. Duval, P. Dijkstra, D. W. Johnson, M. E. Ketterer, Peter Stiling, W. Cheng, J. Millman, A. Hartley, and D. B. Stover

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Whole-basin, mass-balance approach for identifying critical phosphorus-loading thresholds in shallow lakes., William F. Kenney, Thomas J. Whitmore, David G. Buck, Mark Brenner, Jason H. Curtis, Jian J. Di, Patricia L. Kenney, and Claire L. Schelske

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Time to Competitive Exclusion, Andrew M. Kramer and John M. Drake

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Assessing the In Situ Fertilization Status of Two Marine Copepod Species, Temora longicornis and Eurytemora herdmani; How Common Are Unfertilized Eggs in Nature?, Rachel S. Lasley-Rasher, Andrew M. Kramer, Victoria Burdett-Coutts, and Jeannette Yen

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Effects of Flooding and Warming on Soil Organic Matter Mineralization in Avicennia germinans Mangrove Forests and Juncus roemerianus Salt Marshes, David B. Lewis, Jewel A. Brown, and Kristine L. Jimenez

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Forest Succession, Soil Carbon Accumulation, and Rapid Nitrogen Storage in Poorly Remineralized Soil Organic Matter, David B. Lewis, Michael J. Castellano, and Jason P. Kaye