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 2016

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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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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

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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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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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

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Legacies of Agriculture and Urbanization in Labile and Stable Organic Carbon and Nitrogen in Sonoran Desert Soils, David B. Lewis, Jason P. Kaye, and Ann P. Kinzig

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Demography of North American Tortoises, Earl D. McCoy, Gustavo Aguirre L., Richard T. Kazmaier, and C. Richard Tracy

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Connectivity in the Tropical Coastal Seascape: Implications for Marine Spatial Planning and Resource Management, John C. Ogden, Ivan Nagelkerken, and Carole C. McIvor

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Life History and Demographic Drivers of Reservoir Competence for Three Tick-Borne Zoonotic Pathogens, Richard S. Ostfeld, Taal Levi, Anna E. Jolles, Lynn B. Martin, Parviez R. Hosseini, and Felicia Keesing

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Persistence of a potentially rare mammalian genus (Wyulda) provides evidence for areas of evolutionary refugia within the Kimberley, Australia, Sally Potter, Dan Rosauer, J. Sean Doody, Myfanwy J. Webb, and Mark D.B. Eldridge

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Biology and Conservation of North American Tortoises, David C. Rostal, Earl D. McCoy, and Henry R. Mushinsky

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Multivariate Relationships Influencing Crop Yields during the Transition to Organic Management, M. E. Schipanski, R. G. Smith, T. L. Pisani Gareau, R. Jabbour, David B. Lewis, M.E. Barbercheck, D.A. Mortensen, and Jason P. Kaye

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Do No-Take Reserves Benefit Florida's Corals? 14 Years of Change and Stasis in the Florida Keys National Marine Sanctuary, T. L. Toth, R. van Woesik, T. J. T. Murdoch, S. R. Smith, John C. Ogden, W. F. Precht, and R. B. Aronson

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Grooming as a Secondary Behavior in the Shrimp Macrobrachium rosenbergii (Crustacea, Decapoda, Caridea), Lauren N. VanMaurik and Jennifer L. Wortham

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Experimental Evolution Alters the Rate and Temporal Pattern of Population Growth in Batrachochytrium Dendrobatidis, a Lethal Fungal Pathogen of Amphibians, Jamie Voyles, Leah R. Johnson, Cheryl J. Briggs, Scott D. Cashins, Ross A. Alford, Lee Berger, Lee F. Skerratt, Rick Speare, and Erica Bree Rosenblum

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Topical advances and recent studies in paleolimnological research., Thomas J. Whitmore and Melanie A. Riedinger-Whitmore

Submissions from 2013

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Iron Modulates Cell Survival in a Ras- and MAPK-Dependent Manner in Ovarian Cells, K. A. Bauckman, Edward M. Haller, I. Flores, and M. Nanjundan

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Should Mothers Invest Equally in Offspring or Diversify, Deby L. Cassill and Sherry Walters

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Response of Soil Nitrogen Retention to the Interactive Effects of Soil Texture, Hydrology, and Organic Matter, Michael J. Castellano, David B. Lewis, and Jason P. Kaye

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Hitting the Ground Running: Environmentally Cued Hatching in a Lizard, J. Sean Doody and Phillip Paull

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Avian influenza: Virology, diagnosis and surveillance, Mohamed E. El Zowalaty, Stephen A. Bustin, Mohamed I. Husseiny, and Hossam M. Ashour

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Isotope record of anthropogenic lead pollution in lake sediments of Florida, USA., Jaime Escobar, Thomas J. Whitmore, George D. Kamenov, and Melanie A. Riedinger-Whitmore

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Eye-mediated induction of specific immune tolerance to encephalitogenic antigens, Shukkur M. Farooq and Hossam M. Ashour

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The in vitro induction of Type II collagen-specific immune tolerance in BALB/C mice, Shukkur M. Farooq and Hossam M. Ashour

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Blood-Brain Barrier Alterations Provide Evidence of Subacute Diaschisis in an Ischemic Stroke Rat Model, Svitlana Garbuzova-Davis, Maria C. O. Rodrigues, Diana G. Hernandez-Ontiveros, Naoki Tajiri, Aric Frisna-Deyo, Sean M. Boffeli, Jerry V. Abraham, Mibel Pabon, Andrew Wagner, Hiroto Ishikawa, Kazutaka Shinozuka, Edward M. Haller, Paul Sanberg, Yuji Kaneko, and Cesario Borlongan

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Microhabitat variation explains local-scale distribution of terrestrial Amazonian lizards in Rondonia, Western Brazil, Adrian A. Garda, Helga C. Wiederhecker, Alison M. Gainsbury, Gabriel C. Costa, R. Alexander Pyron, Gustavo H. Calazans Vieira, Fernanda P. Werneck, and Guarino R. Colli

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Cephalopods in the potential prey field of sperm whales (Physeter macrocephalus) in the northern Gulf of Mexico., Heather L. Judkins, Scarlet Arbuckle, Michael Vecchione, Lance Garrison, and Anthony Martinez

Doryteuthis plei (Blainville, 1823), slender inshore squid., Heather L. Judkins and Michael Vecchione

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Epigenetics for Behavioral Ecologists, Chris C. Ledón-Rettig, Christina L. Richards, and Lynn B. Martin

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Fan Forensics: The Science Behind Ceiling Fan Blade Slump and Sustained Humidity, Don Nehrig, Ralph Moon, and Edward M. Haller

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Hydrologic Characterization of 56 Geographically Isolated Wetlands in West-Central Florida Using a Probabilistic Method, Kenneth A. Nilsson, Mark Rains, David B. Lewis, and Kenneth E. Trout

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People and Coral Reefs, John C. Ogden

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Hatching and residual yolk internalization in lizards: evolution, function and fate of the amnion, Nadav Pezaro, J. Sean Doody, Brian Green, and Michael B. Thompson

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Diatom-inference models for acid neutralizing capacity and nitrate based on 41 calibration lakes in the Sierra Nevada, California, USA., James O. Sickman, Danuta M. Bennett, Delores M. Lucero, Thomas J. Whitmore, and William F. Kenney

Submissions from 2012

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Modeling temperature-mediated fluctuations in colony size in the fire ant, Solenopsis invicta., Erika Asano and Deby L. Cassill

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SAPL Annual Meeting 2012 : Dalliance with Dali's Ants, Deby L. Cassill and Nelson Poynter Memorial Library.

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Coupling Biogeochemistry and Hydropedology to Advance Carbon and Nitrogen Cycling Science, Michael J. Castellano, David B. Lewis, Danielle M. Andrews, and Marshall D. McDaniel

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Transcriptional Response of Sulfur Chemolithoautotroph Thiomicrospira crunogena to Dissolved Inorganic Carbon Limitation, Kimberly P. Dobrinski, Steven Enkemann, Sean Yoder, Edward Haller, and Kathleen M. Scott

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Breaking the Social-Non-social Dichotomy: A Role for Reptiles in Vertebrate Social Behavior Research?, J. Sean Doody, Gordon M. Burghardt, and Vladimir Dinets

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Indirect facilitation of a native mesopredator by an invasive species: are cane toads re-shaping tropical riparian communities?, J. Sean Doody, Christina M. Castellano, David Rhind, and Brian Green

Rediscovery of the scaly-tailed possum (Wyulda squamicaudata) in the eastern Kimberley, J. Sean Doody, David Rhind, Christina M. Castellano, and Michael Bass

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Good vibrations? Sibling embryos expedite hatching in a turtle, J. Sean Doody, Bret Stewart, Chris Camacho, and Keith Christian

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A Functional Trait Perspective on Plant Invasion, Rebecca E. Drenovsky, Brenda J. Grewell, Carla M. D'Antonio, Jennifer L. Funk, Jeremy J. James, Nicole Molinari, Ingrid M. Parker, and Christina L. Richards

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Nosocomial infections in leukemic and solid-tumor cancer patients: distribution, outcome and microbial spectrum of anaerobes, Amany El Sharif, Walid F. Elkhatib, and Hossam M. Ashour

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Mitochondrial DNA Assessment of the Phylogeography of the Gopher Tortoise, Joshua R. Ennen, Brian R. Kreiser, Carl P. Qualls, Daniel Gaillard, Matthew Aresco, Roger Birkhead, Tracey Tuberville, Earl D. McCoy, Henry R. Mushinsky, Thomas W. "Bill" Hentges, and Aaron W. Schrey

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Type II collagen induces peripheral tolerance in BALB/C mice via the generation of CD8(+) T regulatory cells, Shukkur M. Farooq and Hossam M. Ashour

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University of South Florida St. Petersburg Student Research Journal, Vol. 1, Issue 1, article 5 : Geometric Probability of Mating Success for the Greater Short-nosed Fruit Bat, Cynopterus sphinx, Krista Ford, Leon Hardy, and Deby L. Cassill

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Environmental Heterogeneity and Plant Biology, Gordon A. Fox, Bruce E. Kiendall, and Susanne Schwinning

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Impaired Blood-Brain/Spinal Cord Barrier in ALS Patients, Svitlana N. Garbuzova-Davis, Diana Hernandez-Ontiveros, Maria C. O. Rodrigues, Edward M. Haller, Aric Frisna-Deyo, Santhia Mirtyl, Sebastian Sallot, Samuel Saporta, Cesario Borlongan, and Paul Sanberg

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Urbanization Interferes with the Use of Amphibians as Indicators of Wetland Health, Jacquelyn C. Guzy, Earl D. McCoy, Anna C. Deyle, Shannon M. Gonzalez, Neal Halstead, and Henry R. Mushinsky

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Variation Among Individuals in Cone Production in Pinus palustris Mill. (Pinaceae), Kelly L. Haymes and Gordon A. Fox

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Contrasting Genetic Differentiation of a Poorly Dispersing Lizard in Connected and Fragmented Scrub Habitats, Stacy A. Heath, Aaron W. Schrey, Kyle G. Ashton, Henry R. Mushinsky, and Earl D. McCoy

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Inorganic Nitrogen Immobilization in Live and Sterile Soil of Old-Growth Conifer and Hardwood Forests: Implications for Ecosystem Nitrogen Retention, David B. Lewis and Jason P. Kaye

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Nanorods Formed from a New Class of Peptidomimetics, Youhong Niu, Haifan Wu, Rongfu Huang, Qiao Qiao, Frankie Costanza, Xi-Sen Wang, Yaogang Hu, Mohamad Nassir Amin, Anh-My Nguyen, James Zhang, Edward M. Haller, Shengqian Ma, Xiao Li, and Jianfeng Cai

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Genome-Wide Patterns of Arabidopsis Gene Expression in Nature, Christina L. Richards, Ulises Rosas, Joshua A. Banta, Naeha Bhambra, and Michael D. Purugganan

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Evolutionary Significance of Epigenetic Variation, Christina L. Richards, Koen J. F. Verhoeven, and Oliver Bossdorf

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Range-Wide Genetic Analysis of the Threatened Bluetail Mole Skink Identifies Similar Genetic Structure with Sympatric Lizards Full Access, Aaron W. Schrey; Kyle G. Ashton; Stacy Heath, H; Henry R. Mushinsky; and Earl D. McCoy