CNSO Faculty Articles
Submissions from 2012
Subspecific Status of the Korean Tiger Inferred by Ancient DNA Analysis, Mu-Yeong Lee, Jee Yun Hyun, Seo-Jin Lee, Junghwa An, Eunok Lee, Mi-Sook Min, Junpei Kimura, Shin-ichirio Kawada, Nozomi Kurihara, Shu-Jin Luo, Stephen J. O'Brien, Warren E. Johnson, and Hang Lee
Compensatory Mitigation in Marine Ecosystems: Which Indicators for Assessing the "No Net Loss" Goal of Ecosystem Services and Ecological Functions?, Harold Levrel, Sylvain Pioch, and Richard E. Spieler
Multicohort Genomewide Association Study Reveals a New Signal of Protection Against HIV-1 Acquisition, Sophie Limou, Olivier Delaneau, Danielle van Manen, Ping An, Efe Sezgin, Sigrid Le Clerc, Cedric Coulonges, Jennifer L. Troyer, Jan H. Veldink, Leonard H. van den Berg, Jean-Louis Spadoni, Lieng Taing, Taoufik Labib, Matthieu Montes, Jean-Francois Delfraissy, Francois Schachter, Stephen J. O'Brien, Susan Buchbinder, Mark Van Natta, Douglas A. Jabs, Philippe Froguel, Hanneke Schuitemaker, Cheryl Winkler, and Jean-Francois Zagury
A Method for Rearing Large Quantities of the Damselfly, Ischnura ramburii (Odonata: Coenagrionidae), in the Laboratory, Jason L. Locklin, Joshua S. Huckabee, and Eben Gering
Gametogenesis and Spawning of Solenastrea bournoni and Stephanocoenia intersepta in Southeast Florida, USA, Jenna R. Lueg, Alison L. Moulding, Vladimir N. Kosmynin, and David S. Gilliam
Importance of Mangrove Shorelines for Rainbow Parrotfish Scarus guacamaia: Habitat Suitability Modeling in a Subtropical Bay, Ethan G. P. Machemer, John F. Walter, Joseph E. Serafy, and David W. Kerstetter
The determination of tissue-specific DNA methylation patterns in forensic biofluids using bisulfite modification and pyrosequencing, Tania Madi, Kuppareddi Balamurugan, Robin Bombardi, George Duncan, and Bruce McCord
Detection of Helicosporidium spp. in metagenomic DNA, N. Mancera, L. G. Douma, S. James, S. Liu, A. Van, Drion G. Boucias, and Aurelien Tartar
Flexural Rigidity Measurements of Biopolymers Using Gliding Assays, Douglas S. Martin, Lu Yu, and Brian L. Van Hoozen Jr.
Variation in Flight Morphology in a Damselfly with Female-Limited Polymorphism, Emily Jane McTavish, Genevieve K. Smith, Rafael F. Guerrero, and Eben Gering
A Population Genetic Database of Cat Breeds Developed in Coordination with a Domestic Cat STR Multiplex, Marilyn Menotti-Raymond, Victor A. David, Bruce S. Weir, and Stephen J. O'Brien
Peroxiredoxin II Regulates Effector and Secondary Memory CD8+ T cell Responses, Ryan D. Michalek, Katie E. Crump, Ashley E. Weant, Elizabeth M. Hiltbold, Daniel G. Juneau, Eun-Yi Moon, Dae-Yeul Yu, Leslie B. Poole, and Jason M. Grayson
Insights Into Migration and Development of Coral Black Band Disease Based on Fine Structure Analysis, Aaron Miller, Patricia Blackwelder, Husain Al-Sayegh, and Laurie L. Richardson
Comparative Analysis of the Domestic Cat Genome Reveals Genetic Signatures Underlying Feline Biology and Domestication, Michael J. Montague, Gang Li, Barbara Gandolfi, Razib Khan, Bronwen L. Aken, Steven M. J. Searle, Patrick Minx, LaDeana W. Hillier, Daniel C. Koboldt, Brian W. Davis, Carlos A. Driscoll, Christina S. Barr, Kevin Blackistone, Javier Quilez, Belen Lorente-Galdos, Tomas Marques-Bonet, Can Alkan, Gregg W. C. Thomas, Matthew W. Hahn, Marilyn Menotti-Raymond, Stephen James O'Brien, Richard K. Wilson, Leslie A. Lyons, William J. Murphy, and Wesley C. Warren
Coral Recruitment to Two Vessel Grounding Sites off Southeast Florida, USA, Alison L. Moulding, Vladimir N. Kosmynin, and David S. Gilliam
Co-Adventurers in Discovery: Collaborative Research Between Undergraduate Students and Faculty, Rajeswari Murugan and Evan Haskell
Genome Empowerment for the Puerto Rican Parrot – Amazona vittata, Stephen J. O'Brien
Emerging Viruses in the Felidae: Shifting Paradigms, Stephen J. O'Brien, Jennifer L. Troyer, Meredith Brown, Warren E. Johnson, Agostinho Antunes, Melody E. Roelke, and Jill Pecon-Slattery
Quantitative Analysis of the Spatiotemporal Dynamics of a Synthetic Predator-Prey Ecosystem, In: Synthetic Gene Networks, S. Payne, Robert P. Smith, and L. You
Transient Ru-Methyl Formate Intermediates Generated with Bifunctional Transfer Hydrogenation Catalysts, Richard H. Perry, Kristen R. Brownell, Konstantin Chingin, Thomas J. Cahill III, Robert M. Waymouth, and Richard N. Zare
Capturing Fleeting Intermediates in a Catalytic C-H Amination Reaction Cycle, Richard H. Perry, Thomas J. Cahill III, Jennifer L. Roizen, Justin Du Bois, and Richard N. Zare
Fish Lateral Line Innovation: Insights into the Evolutionary Genomic Dynamics of a Unique Mechanosensory Organ, Siby Philip, Joao P. Machado, Emanuel Maldonado, Vitor Vasconcelos, Stephen J. O'Brien, Warren E. Johnson, and Agostinho Antunes
Retinoblastoma treatment: impact of the glycolytic inhibitor 2-deoxy-d-glucose on molecular genomics expression in LHBETATAG retinal tumors, Yolanda Pina, Samuel K. Houston, Timothy G. Murray, Tulay Koru-Sengul, Christina Decatur, William K. Scott, Lubov Nathanson, Jennifer Clarke, and Theodore J. Lampidis
A Streamlined DNA Tool for Global Identification of Heavily Exploited Coastal Shark Species (Genus Rhizoprionodon), D. Pinhal, Mahmood S. Shivji, Pedro G. Nachtigall, Demian D. Chapman, and Cesar Martins
Cryptic Hammerhead Shark Lineage Occurrence in the Western South Atlantic Revealed by DNA Analysis, D. Pinhal, Mahmood S. Shivji, M. Vallinoto, Demian D. Chapman, O. B. F. Gadig, and C. Martins
Open and Closed Seascapes: Where Does Habitat Patchiness Create Populations with High Fractions of Self-Recruitment?, Malin L. Pinsky, Stephen R. Palumbi, Serge Andrefouet, and Samuel J. Purkis
Lysine-Specific Histone Demethylase 1 Inhibitors Control Breast Cancer Proliferation in ERα-Dependent and -Independent Manners, Julie A. Pollock, Michelle D. Larrea, Jeff S. Jasper, Donald P. McDonnell, and Dewey G. McCafferty
Scaling up from epidemiology to biogeography: local infection patterns predict geographical distribution in fish parasites, R. Poulin, Christopher A. Blanar, D. J. Marcogliese, and D. W. Thieltges
Patterns of Sedimentation In the Contemporary Red Sea As An Analog for Ancient Carbonates In Rift Settings, Samuel J. Purkis, Paul Mitch Harris, and James Ellis
Visualizing Lateral Anisotropy in Modern Carbonates, Samuel J. Purkis and Brigitte Vlaswinkel
Vertical-To-Lateral Transitions Among Cretaceous Carbonate Facies—A Means To 3-D Framework Construction Via Markov Analysis, Samuel J. Purkis, Brigitte Vlaswinkel, and Nuno Gracias
Benzo[1,2-b:4,5-b′]dithiophene-4,8-dione, Amanda L. Ramirez, Benny C. Chan, and Daniel T. de Lill
Alternative RNA splicing and gene expression profiles in early stage Hypoplastic Left Heart Syndrome, Marco Ricci, Yanji Xu, Harriet L. Hammond, David A. Willoughby, Lubov Nathanson, Maria M. Rodriguez, Matteo Vatta, Steven E. Lipschultz, and Joy Lincoln
A Synthetic Biology Approach to Understanding Cellular Information Processing, Katherine A. Riccione, Robert P. Smith, Anna J. Lee, and Lingchong You
Island Endemism, Morphological Stasis, and Possible Cryptic Speciation in Two Coral Reef, Commensal Leucothoid Amphipod Species Throughout Florida and the Caribbean, Vincent P. Richards, Michael J. Stanhope, and Mahmood S. Shivji
Red Sea Coral Reef Trajectories Over 2 Decades Suggest Increasing Community Homogenization and Decline in Coral Size, Bernhard Riegl, Andrew W. Bruckner, Gwilym Rowlands, Samuel J. Purkis, and Philip Renaud
Human Impact on Atolls Leads to Coral Loss and Community Homogenisation: A Modeling Study, Bernhard Riegl, Charles R. C. Sheppard, and Samuel J. Purkis
Satellite Imaging Coral Reef Resilience at Regional Scale. A Case-Study From Saudi Arabia, Gwilym Rowlands, Samuel J. Purkis, Bernhard Riegl, Liisa Metsamaa, Andrew Bruckner, and Philip Renaud
Raised Reef on Larak Suggests Acropora Dominance on the Persian Gulf Coral Reefs Since the Pleistocene, Kaveh Samimi-Namin and Bernhard Riegl
How the Leopard Hides its Spots: ASIP Mutations and Melanism in Wild Cats, Alexsandra Schneider, Victor A. David, Warren E. Johnson, Stephen J. O'Brien, Gregory S. Barsh, Marilyn Menotti-Raymond, and Eduardo Eizirik
In Situ Coral Nurseries Serve as Genetic Repositories for Coral Reef Restoration After an Extreme Cold-Water Event, S. Schopmeyer, Diego Lirman, Erich Bartels, James Byrne, David S. Gilliam, John Hunt, Meaghan E. Johnson, Elizabeth Anne Larson, Kerry Maxwell, Ken Nedimyer, and Cory Walter
Circle Hooks in Commercial, Recreational, and Artisanal Fisheries: Research Status and Needs for Improved Conservation and Management, Joseph E. Serafy, Steven J. Cooke, Guillermo A. Diaz, John E. Graves, Martin Hall, Mahmood S. Shivji, and Yonat Swimmer
Reefs and Islands of the Chagos Archipelago, Indian Ocean: Why It Is the World's Largest No-Take Marine Protected Area, Charles R. C. Sheppard, Mebs Ateweberhan, B. W. Bowen, P. Carr, Chaolun Allen Chen, C. Clubbe, M. T. Craig, R. Ebinghaus, J. Eble, N. Fitzsimmons, M. R. Gaither, C-H. Gan, M. Gollock, Nestor Guzman, N. A. J. Graham, A. Harris, Rachel Jones, Shashank Keshavmurthy, H. Koldewey, Carl Lundin, J. A. Mortimer, David Obura, M. Pfeiffer, Andrew R. G. Price, Samuel J. Purkis, P. Raines, J. W. Readman, Bernhard Riegl, A. Rogers, Michael H. Schleyer, M. R. Seaward, Anne L. S. Sheppard - United Kingdom, Jerker Tamelander, John R. Turner, Shakil Visram, C. Vogler, S. Vogt, H. Wolschke, J. M-C. Yang, Sung-Yin Yang, and C. Yesson
Air-Sea Interface in Hurricane Conditions, Alexander Soloviev, A. Fujimura, and Silvia Matt
3D Sonar Measurements in Wakes of Ships of Opportunity, Alexander Soloviev, Christopher Maingot, Mike Agor, Lou Nash, and Keith Dixon
Convergence Analysis of a Fully Discrete Family of Iterated Deconvolution Methods for Turbulence Modeling with Time Relaxation, Iuliana Stanculescu, R. Ingram, N Mays, and C. C. Manica
Evolution of CRISPs Associated with Toxicoferan-Reptilian Venom and Mammalian Reproduction, Kartik Sunagar, Warren E. Johnson, Stephen J. O'Brien, Vitor Vasconcelos, and Agostinho Antunes
Context-Dependent Effects of Symbiosis: Zoanthidea Colonization Generally Improves Demospongiae Condition in Native Habitats, Timothy D. Swain
The Inoculum Effect and Band-Pass Bacterial Response to Periodic Antiobiotic Treatment, Cheemang Tan, Robert P. Smith, Jaydeep K. Srimani, Katherine A. Riccione, Sameer Prasada, Meta Kuehn, and Lingchong You
The Principal Genetic Determinants for Nasopharyngeal Carcinoma in China Involve the HLA Class I Antigen Recognition Groove, Minzhong Tang, J. A. Lautenberger, Xiaojiang Gao, Efe Sezgin, Sher L. Hendrickson, Jennifer L. Troyer, Victor A. David, Li Guan, Carl McIntosh, Xiuchan Guo, Yuming Zheng, Jian Liao, Hong Deng, Michael Malasky, Bailey Kessing, Cheryl Winkler, Mary Carrington, Guy de The, Yi Zeng, and Stephen J. O'Brien
Engineered gene circuits that program population dynamics: a review, Yu Tanouchi, Robert P. Smith, and L. You
Engineering Microbial Systems to Explore Ecological and Evolutionary Dynamics, Yu Tanouchi, Robert P. Smith, and Lingchong You
Evidence for the Southward Migration of Mud Banks in Florida Bay, Kristian Taylor and Samuel J. Purkis
First Descriptions of Endoparasite Fauna of Elasmobranch and Mesopelagic Teleost Bycatch Fishes from the Western North Atlantic Pelagic Longline Fishery, Mae Taylor, Harold E. Laubach, and David W. Kerstetter
Anti-Neoplastic Activity of Two Flavone Isomers Derived from Gnaphalium elegans and Achyrocline bogotensis, Christan M. Thomas, Robert C. Wood III, Jarrett E. Wyatt, Morgan H. Pendleton, Ruben D. Torrenegra, Oscar E. Rodriguez, Sam Harirforoosh, Maria Ballester, Janet Lightner, Koyamangalath Krishnan, and Victoria P. Ramsauer
A New Genus and Species of Didymocheliid Amphipod from Hexactinellid Sponges (Crustacea: Amphipoda: Didymocheliidae) from the Western Atlantic Ocean, James Darwin Thomas and Les Watling
Site Specialists, Diet Generalists? Isotopic Variation, Site Fidelity, and Foraging by Loggerhead Turtles in Shark Bay, Western Australia, Jordan A. Thomson, Michael Heithaus, Derek A. Burkholder, Jeremy Vaudo, Aaron Wirsing, and Lawrence M. Dill
Some Inequalities of Majorization Type, Ramazan Turkman, Vehbi Emrah Paksoy, and Fuzhen Zhang
Diel and Seasonal Variation in the Use of a Nearshore Sandflat by a Ray Community in a Near Pristine System, Jeremy Vaudo and Michael Heithaus
Spatial Analyses of Benthic Habitats to Define Coral Reef Ecosystem Regions and Potential Biogeographic Boundaries along a Latitudinal Gradient, Brian K. Walker
Small-Scale Mapping of Indeterminate Arborescent Acroporid Coral (Acropora cervicornis) Patches, Brian K. Walker, E. A. Larson, Alison L. Moulding, and David S. Gilliam
Risk Factors for Symptomatic Hyperlactatemia and Lactic Acidosis Among Combination Antiretroviral Therapy-Treated Adults in Botswana: Results from a Clinical Trial, C. William Wester, Svetlana K. Eden, Bryan E. Shepherd, Herman Bussmann, Vladimir Novitsky, David C. Samuels, Sher L. Hendrickson, Cheryl Winkler, Stephen J. O'Brien, Max Essex, Richard T. D'Aquila, Victor deGruttola, and Richard G. Marlink
Pyrosequencing of Bacterial Symbionts within Axinella corrugata Sponges: Diversity and Seasonal Variability, James R. White, Jignasa Patel, Andrea Ottesen, Gabriela Arce, Patricia Blackwelder, and Jose V. Lopez
Tissue Sampling Methods and Standards for Vertebrate Genomics, Pamela B. Y. Wong, Edward O. Wiley, Warren E. Johnson, Oliver A. Ryder, Stephen J. O'Brien, David Haussler, Klaus-Peter Koepfli, Marlys L. Houck, Polina L. Perelman, Gabriela Mastromonaco, Andrew C. Bentley, Byrappa Venkatesh, Ya-ping Zhang, Robert W. Murphy, and Genome 10K Project Community of Scientists
Tissue sampling methods and standards for vertebrate genomics, Pamela B.Y. Wong, Edward O. Wiley, Warren E. Johnson, Oliver A. Ryder, Stephen J. O'Brien, David Haussler, Klaus Peter Koepfli, Marlys L. Houck, Polina Perelman, Gabriela Mastromonaco, Andrew C. Bentley, Byrappa Venkatesh, Ya Ping Zhang, and Robert W. Murphy
Evolution of the Mixing State of Fine Aerosols During Haze Events in Shanghai, Fan Yang, Hong Chen, Jianfei Du, Xin Yang, Song Gao, Jianmin Chen, and Fuhai Geng
Positivity of Matrices with Generalized Matrix Functions, Fuzhen Zhang
Submissions from 2011
Fishing Gear Modifications to Reduce Elasmobranch Mortality in Pelagic and Bottom Longline Fisheries Off Northeast Brazil, Andre S. Afonso, Fabio H.V. Hazin, F. Carvalho, J. C. Pacheco, Humberto Hazin, David W. Kerstetter, Debra Murie, and George H. Burgess
Genome-Wide Characterization of Centromeric Satellites from Multiple Mammalian Genomes, Can Alkan, Maria Francesca Cardone, Claudia Rita Catacchio, Francesca Antonacci, Stephen J. O'Brien, Oliver A. Ryder, Stefania Purgato, Monica Zoli, Evan E. Eichler, and Mario Ventura
Existence of a Positive Solution for a Right Focal Discrete Boundary Value Problem, D. R. Anderson, R. I. Avery, J. Henderson, X. Liu, and Jeffrey W. Lyons
Role of Exonic Variation in Chemokine Receptor Genes on AIDS: CCRL2 F167Y Association with Pneumocystis Pneumonia, Ping An, Rongling Li, Ji Ming Wang, Teizo Yoshimura, Munehisa Takahashi, Ram Samudralal, Stephen J. O'Brien, John Phair, James J. Goedert, Gregory D. Kirk, Jennifer L. Troyer, Efe Sezgin, Susan Buchbinder, Sharyne Donfield, George W. Nelson, and Cheryl Winkler
A Common HLA–DPA1 Variant is a Major Determinant of Hepatitis B Virus Clearance in Han Chinese, Ping An, Cheryl Winkler, Li Guan, Stephen J. O'Brien, Zheng Zeng, and HBV Study Consortium
Protecting fish assemblages on sunken vessels to enhance diving ecotourism and local natural resources, Paul Thomas Arena
Interfacing Capillary-Based Separations to Mass Spectrometry Using Desorption Electrospray Ionization, Griffin K. Barbula, Samir Safi, Konstantin Chingin, Richard H. Perry, and Richard N. Zare
Population Size and Site Fidelity of North Atlantic Minke Whales (Balaenoptera acutorostrata acutorostrata) Off the Atlantic Coast of Nova Scotia, Canada, Gemma B. Bartha, Shannon Gowans, Peter Simard, MIchael Tetley, and Edward O. Keith
Development of Embryonic Gill Vasculature in the Yellow Stingray, Urobatis jamaicensis, Bethany L. Basten, Robin L. Sherman, Alois Lametschwandtner, and Richard E. Spieler
Global Phylogeography of the Dusky Shark Carcharhinus obscurus: Implications for Fisheries Management and Monitoring the Shark Fin Trade, Martin T. Benavides, Rebekah L. Horn, Kevin A. Feldheim, Mahmood S. Shivji, Shelley C. Clarke, Sabine Wintner, Lisa Natanson, Matias Braccini, Jessica J. Boomer, and Simon J. B. Gulak
Intentional Genetic Introgression Influences Survival of Adults and Subadults in a Small, Inbred Felid Population, John F. Benson, Jeffrey A. Hostetler, David P. Onorato, Warren E. Johnson, Melody E. Roelke, Stephen J. O'Brien, Deborah Jansen, and Madan K. Oli
Natural and anthropogenic factors shape metazoan parasite community structure and composition in mummichog (Fundulus heteroclitus) from two estuaries in New Brunswick, Canada, Christopher A. Blanar, D. J. Marcogliese, and C. M. Couillard
Ship Surveillance with TerraSAR-X, Stephan Brusch, Susanne Lehner, Thomas Fritz, Matteo Soccorsi, Alexander Soloviev, and Bart van Schie
Functorial Polar Functions, Ricardo Enrique Carrera
On Hull Classes of l-groups and Covering Classes of Spaces, Ricardo Enrique Carrera and Anthony W. Hager
Can a Road-Driven Car Outrace a Free-Falling Car?, Diego Castano
Conicoid Mirrors, Diego Castano and Lawrence Carl Hawkins
Human bone marrow-derived stem cell proliferation is inhibited by hepatocyte growth factor via increasing the cell cycle inhibitors p53, p21 and p27, Ketian Chen, Carlos Perez-Stable, Gianluca D'Ippolito, Paul C. Schiller, Bernard A. Roos, and Guy A. Howard
Generation of Melamine Polymer Condensates upon Hypergolic Ignition of Dicyanamide Ionic Liquids, Konstantin Chingin, Richard H. Perry, Steven D. Chambreau, Ghanshyam L. Vaghjiani, and Richard N. Zare
Aposematic Signal Variation Predicts Male-Male Interactions in a Polymorphic Poison Frog, Laura Crothers, Eben Gering, and Molly Cummings
Peptide-Conjugated PAMAM Dendrimer as a Universal DNA Vaccine Platform to Target Antigen-Presenting Cells, Pirouz M. Daftarian; Angel E. Kaifer; Wei Li; Bonnie B. Blomberg; Daniela Frasca; Felix Roth; Raquibul Chowdhury; 21st Century Biochemicals, Inc.; Husain Ala Al Sayegh; Patricia Blackwelder; Luca Inverardi; Victor L. Perez; Vance Lemmon; and Paolo Serafini
Applying Genetic Techniques to Study Remote Shark Fisheries in Northeastern Madagascar, Phaedra Doukakis, Robert H. Hanner, Mahmood S. Shivji, Cecilia Bartholomew, Demian D. Chapman, Eugene Wong, and George Amato
Restoring Tigers to the Caspian Region, Carlos A. Driscoll; Shu-Jin Luo; David W. Macdonald; E, Dinerstein; I. Chestin; O. Pereladova; and Stephen J. O'Brien
A Suite of Genetic Markers Useful in Assessing Wildcat (Felis silvestris ssp.)— Domestic Cat (Felis silvestris catus) Admixture, Carlos A. Driscoll, Nobuyuki Yamaguchi, Stephen J. O'Brien, and David W. Macdonald
Turbulent Viscosity Variability in Self-Preserving Far Wake with Zero Net Momentum, Katya Dubrovin, Ephim Golbraikh, Michael Gedalin, and Alexander Soloviev
Novel male-biased expression in paralogs of the aphid slimfast nutrient amino acid transporter expansion, R. P. Duncan, Lubov Nathanson, and A. C. Wilson
The Group-Level Consequences of Sexual Conflict in Multigroup Populations, Omar Tonsi Eldakar and Andrew C. Gallup
Eight Criticisms Not to Make About Group Selection, Omar Tonsi Eldakar and David Sloan Wilson
On the Eigenvalues of Quaternion Matrices, F. O. Farid, Qing-Wen Wang, and Fuzhen Zhang
Regime Shifts in a Socio-Ecological Model of Farmland Abandonment, Joana Figueiredo and Henrique M. Pereira
Development and Characterization of 10 Polymorphic Microsatellite Loci for the Blue Shark, Prionace glauca, and Their Cross Shark-Species Amplification, Sean Fitzpatrick, Mahmood S. Shivji, Demian D. Chapman, and Paulo A. Prodohl
Detecting End-Member Structural and Biological Elements of a Coral Reef Using a Single-Beam Acoustic Ground Discrimination System, Greg Foster, Victor S. Ticzon, Bernhard Riegl, and Peter J. Mumby
Contagious Yawning and Seasonal Climate Variation, Andrew C. Gallup and Omar Tonsi Eldakar