CNSO Faculty Articles
Submissions from 2008
Construction, Alignment and Analysis of Twelve Framework Physical Maps that Represent the Ten Genome Types of the Genus Oryza, HyeRan Kim, Bonnie Hurwitz, Yeisoo Yu, Kristi Collura, Navdeep Gill, Phillip SanMiguel, James C. Mullikin, Christopher Maher, William Nelson, Marina Wissotski, Michele Braidotti, David Kudrna, José Luis Goicoechea, Lincoln Stein, Doreen Ware, Scott A. Jackson, Carol Soderlund, and Rod A. Wing
Mitochondrial Genomes Reveal an Explosive Radiation of Extinct and Extant Bears near the Miocene-Pliocene Boundary, Johannes Krause, Tina Unger, Aline Nocon, Anna-Sapfo Malaspinas, Sergios-Orestis Kolokotronis, Mathias Stiller, Leopoldo Soibelzon, Helen Spriggs, Paul H. Dear, Adrian W. Briggs, Sarah C. E. Bray, Stephen J. O'Brien, Gernot Rabeder, Paul Matheus, Alan Cooper, Montgomery Slatkin, Svante Paabo, and Michael Hofreiter
Some Conditions Related to the Exactness of Rees–Sushkevich Varieties, S. I. Kublanovsky, Edmond W. H. Lee, and Norman R. Reilly
Phosphorylation of p27Kip1 Regulates Assembly and Activation of Cyclin D1-Cdk4, Michelle D. Larrea, Jiyong Liang, Thiago G. da Silva, Feng Hong, Shan H. Shao, Kathy Han, D. Dumont, and Joyce M. Slingerland
Combinatorial Rees–Sushkevich Varieties Are Finitely Based, Edmond W. H. Lee
On the Variety Generated by Some Monoid of Order Five, Edmond W. H. Lee
Centrality in Rees–Sushkevich Varieties, Edmond W. H. Lee and Norman R. Reilly
Zooplankton and Karenia brevis in the Gulf of Mexico, Kristen M. Lester, Cynthia A. Heil, Mary B. Neely, Danylle N. Spence, Susan Murasko, T. L. Hopkins, Tracey Sutton, Scott Burghhart, Richard N. Bohrer, Andrew Remsen, Gabriel A. Vargo, and John J. Walsh
Comparison of Bacterial Diversity within the Coral Reef Sponge, Axinella corrugata, and the Encrusting Coral Erythropodium caribaeorum, Jose V. Lopez, L. K. Ranzer, A. Ledger, B. Schoch, A. Duckworth, P. J. McCarthy, and R. G. Kerr
Subspecies Genetic Assignments of Worldwide Captive Tigers Increase Conservation Value of Captive Populations, Shu-Jin Luo, Warren E. Johnson, Janice S. Martenson, Agostinho Antunes, Paolo Martelli, Olga Uphyrkina, Kathy Traylor-Holzer, James L. D. Smith, and Stephen J. O'Brien
Primitive Digraphs with Smallest Large Exponent, G. MacGillivray, Shahla Nasserasr, D. D. Olesky, and P. Van Den Driessche
Molecular Genetic Insights on Cheetah (Acinonyx jubatus) Ecology and Conservation in Namibia, L. Marker, A. J. Pearks Wilkerson, Ronald J. Sarno, Janice S. Martenson, Christian Breitenmoser-Wursten, Stephen J. O'Brien, and Warren E. Johnson
Giant Deep-Sea Protist Produces Bilaterian-like Traces, Mikhail V. Matz, Tamara M. Frank, N. Justin Marshall, Edith A. Widder, and Sonke Johnsen
New Indicators for AGN Power: The Correlation between [O IV] 25.89 μm and Hard X-Ray Luminosity for Nearby Seyfert Galaxies, M. Melendez, S. B. Kraemer, Bryan K. Armentrout, R. P. Deo, D. M. Crenshaw, H. R. Schmitt, R. F. Mushotzky, J. Tueller, C. B. Markwardt, and L. Winter
Patterns of Molecular Genetic Variation Among Cat Breeds, Marilyn Menotti-Raymond, Victor A. David, Solveig M. Pflueger, Kerstin Lindblad-Toh, Claire M. Wade, Stephen J. O'Brien, and Warren E. Johnson
An Operator Equality Involving a Continuous Field of Operators and Its Norm Inequalities, Mohammad Sal Moslehian and Fuzhen Zhang
Functions, Structure, and Read-Through Alternative Splicing of Feline APOBEC3 Genes, Carsten Munk, Thomas W. Beck, Jorg Zielonka, Agnes Hotz-Wagenblatt, Sarah Chareza, Marion Battenberg, Jens Thielebein, Klaus Cichutek, Ignacio G. Bravo, Stephen J. O'Brien, Martin Lochelt, and Naoya Yuhki
Ecological and Biogeographical Inferences on Two Sympatric and Enigmatic Andean Cat Species Using Genetic Identification of Faecal Samples, Constanza Napolitano, Magdalena Bennett, Warren E. Johnson, Stephen J. O'Brien, Pablo A. Marquet, Ivan Barria, Elie Poulin, and Agustin Iriarte
The Ancestral Carnivore Karyotype (2n = 38) Lives Today in Ringtails, William G. Nash, Joan C. Menninger, Hesed M. Padilla-Nash, Gary Stone, Polina L. Perelman, and Stephen J. O'Brien
The Platypus Genome Unraveled, Stephen J. O'Brien
State of Cat Genomics, Stephen J. O'Brien, Warren E. Johnson, Carlos A. Driscoll, J. U. Pontius, Jill Pecon-Slattery, and Marilyn Menotti-Raymond
Identifying Selected Regions from Heterozygosity and Divergence Using a Light-Coverage Genomic Dataset from Two Human Populations, T. K. Oleksyk, Kai Zhao, Francisco M. De La Vega, Dennis A. Gilbert, Stephen J. O'Brien, and Michael W. Smith
Catalytic Dechlorination of Gas-Phase Perchloroethylene Under Mixed Redox Conditions, Ozer Orbay, Song Gao, Brian Barbaris, Erik Rupp, A. Eduardo Saez, Robert Arnold, and Eric Betterton
Hua's Matrix Equality and Schur Complements, Chris Paige, George P. H. Styan, Bo-Ying Wang, and Fuzhen Zhang
Mirror Principle for Flag Manifolds, Vehbi Emrah Paksoy
Genomic Organization, Sequence Divergence, and Recombination of Feline Immunodeficiency Virus from Lions in the Wild, Jill Pecon-Slattery, Carrie L. McCracken, Jennifer L. Troyer, Sue VandeWoude, Melody E. Roelke, Kerry Sondgeroth, Christiaan Winterbach, and Stephen J. O'Brien
Evolution of Feline Immunodeficiency Virus in Felidae: Implications for Human Health and Wildlife Ecology, Jill Pecon-Slattery, Jennifer L. Troyer, Warren E. Johnson, and Stephen J. O'Brien
Chromosome Painting Shows That Skunks (Mephitidae, Carnivora) Have Highly Rearranged Karyotypes, Polina L. Perelman, A. S. Graphodatsky, J. W. Dragoo, N. A. Serdyukova, Gary Stone, P. Cavagna, Marilyn Menotti-Raymond, W. Nie, P. C. M. O'Brien, J. Wang, S. Burkett, K. Yuki, Melody E. Roelke, Stephen J. O'Brien, F. Yang, and R. Stanyon
Diverse Bacterial PKS Sequences Derived from Okadaic Acid-Producing Dinoflagellates, Roberto Perez, Li Liu, Jose V. Lopez, Tianying An, and Kathleen S. Rein
Orbitrap Mass Spectrometry: Instrumentation, Ion Motion and Applications, Richard H. Perry, R. Graham Cooks, and Robert J. Noll
NFAR-1 and -2 modulate translation and are required for efficient host defense, Ingrid Pfeifer, Rachel Elsby, Marilyn Fernandez, Paula A. Faria Waziry, Daniel R. Nussenzveig, Izidor S. Lossos, Beatriz M. A. Fontoura, W. David Martin, and Glen N. Barber
Predictability of Reef Fish Diversity and Abundance Using Remote Sensing Data in Diego Garcia (Chagos Archipelago), Samuel J. Purkis, N. A. J. Graham, and Bernhard Riegl
The Role of Topography in Promoting Fractal Patchiness in a Carbonate Shelf Landscape, Samuel J. Purkis and Kevin E. Kohler
A Revision of the Comatulid Genus Stephanometra AH Clark With a Rediagnosis of the Genus Lamprometra AH Clark (Echinodermata: Crinoidea), Dana L. Rankin and Charles G. Messing
A Tale of Germs, Storms, and Bombs: Geomorphology and Coral Assemblage Structure at Vieques (Puerto Rico) Compared to St. Croix (U.S. Virgin Islands), Bernhard Riegl, Ryan P. Moyer, Brian K. Walker, Kevin E. Kohler, David S. Gilliam, and Richard E. Dodge
Exposure to Disease Agents in the Endangered Iberian Lynx (Lynx pardinus), Melody E. Roelke, Warren E. Johnson, Javier Millan, Francisco Palomares, Eloy Revilla, Alejandro Rodriguez, Javier Calzada, Pablo Ferreras, Luis Leon-Vizcaino, Miguel Delibes, and Stephen J. O'Brien
The 2005 Coral-Bleaching Event Roatan (Honduras): Use of Pseudoinvariant Features (PIFs) in Satellite Assessments, Gwilym Rowlands, Samuel J. Purkis, and Bernhard Riegl
Scleractinian Coral Recruitment to Reefs Physically Damaged by Ship Groundings, E. T. Rubin, Alison L. Moulding, Jose V. Lopez, David S. Gilliam, V. N. Kosmynin, and Richard E. Dodge
Termite digestomes as sources for novel lignocellulases, M. E. Scharf and Aurelien Tartar
BAC-end Sequence Analysis and a Draft Physical Map of the Common Bean (Phaseolus vulgaris L.) Genome, Jessica A. Schlueter, Jose Luis Goicoechea, Kristi Collura, Navdeep Gill, Jer-Young Lin, Yeisoo Yu, Dave Kudrna, Andrea Zuccolo, C. Eduardo Vallejos, Monica Muñoz-Torres, Matthew W. Blair, Joe Tohme, Jeff Tomkins, Phillip McClean, Rod A. Wing, and Scott A. Jackson
Characterization of the Pelagic Shark-Fin Trade in North-Central Chile by Genetic Identification and Trader Surveys, H. Sebastian, P. A. Haye, and Mahmood S. Shivji
Secondary Assays for Testing the Mode of Action of Natural Products with Bioactivity Against Fungi, Robert P. Smith, Isabel Cruz, Golshani Ashkan, Claire Chesnais, and Myron L. Smith
Existence Theory of Abstract Approximate Deconvolution Models of Turbulence, Iuliana Stanculescu
Vertical Structure, Biomass and Topographic Association of Deep-Pelagic Fishes in Relation to a Mid-Ocean Ridge System, Tracey Sutton, F. M. Porteiro, M. Heino, I. Byrkjedal, G. Langhelle, C. I. H. Anderson, J. Horne, H. Soiland, Tone Falkenhaug, O. R. Godo, and Odd Aksel Bergstad
The Late Stellar Assembly of Massive Cluster Galaxies via Major Merging, Kim-Vy H. Tran, John Moustakas, Anthony H. Gonzalez, Lei Bai, Dennis Zaritsky, and Stefan Kautsch
How Do Galaxies Grow? Assembling the Most Massive Galaxies in the Universe, Kim-Vy H. Tran, John Moustakas, Antony H. Gonzalez, Stefan Kautsch, Lei Bai, and Dennis Zaritsky
Inter-Species Hybridization Among Neotropical Cats of the Genus Leopardus, and Evidence for an Introgressive Hybrid Zone Between L. geoffroyi and L. tigrinus in Southern Brazil, T. C. Trigo, T. R. O. Freitas, G. Kunzler, L. Cardoso, C. R. Silva, Warren E. Johnson, Stephen J. O'Brien, Sandro L. Bonatto, and Eduardo Eizirik
FIV Cross-Species Transmission: An Evolutionary Prospective, Jennifer L. Troyer, Sue VandeWoude, Jill Pecon-Slattery, Carl McIntosh, Sam Franklin, Agostinho Antunes, Warren E. Johnson, and Stephen J. O'Brien
Evaluation of IL10, IL19 and IL20 Gene Polymorphisms and Chronic Hepatitis B Infection Outcome, Ann L. Truelove, T. K. Oleksyk, Sadeep Shrestha, Chloe L. Thio, James J. Goedert, Sharyne Donfield, Gregory D. Kirk, David L. Thomas, Stephen J. O'Brien, and Michael W. Smith
Mapping Coral Reef Habitats in Southeast Florida Using a Combined Technique Approach, Brian K. Walker, Bernhard Riegl, and Richard E. Dodge
Sequences, Annotation and Single Nucleotide Polymorphism of the Major Histocompatibility Complex in the Domestic Cat, Naoya Yuhki, James C. Mullikin, Thomas W. Beck, Robert M. Stephens, and Stephen J. O'Brien
A Population-Based Study to Investigate Host Genetic Factors Associated with Hepatitis B Infection and Pathogenesis in the Chinese Population, Zheng Zheng, Li Guan, Ping An, Shan Sun, Stephen J. O'Brien, Cheryl Winkler, and HBV Study Consortium
Submissions from 2007
Polymorphisms of CUL5 are Associated with CD4+ T Cell Loss in HIV-1 Infected Individuals, Ping An, Priya Duggal, Li Hua Wang, Stephen J. O'Brien, Sharyne Donfield, James J. Goedert, John Phair, Susan Buchbinder, Gregory D. Kirk, and Cheryl Winkler
Regulatory Polymorphisms in the Cyclophilin A Gene, PPIA, Accelerate Progression to AIDS, Ping An, Li Hua Wang, Holli Hutcheson-Dilks, George Nelson, Sharyne Donfield, James J. Goedert, Charles Rinaldo, Susan Buchbinder, Gregory D. Kirk, Stephen J. O'Brien, and Cheryl Winkler
Mitochondrial Introgressions into the Nuclear Genome of the Domestic Cat, Agostinho Antunes, J. U. Pontius, Maria J. Ramos, Stephen J. O'Brien, and Warren E. Johnson
Fish assemblages on sunken-vessels and natural reefs in southeast Florida, USA, Paul Thomas Arena, L. K. B. Jordan, and R. E. Speiler
A Photoionization Model for the Soft X-Ray Spectrum of NGC 4151, Bryan Armentrout, S. B. Kraemer, and T. J. Turner
Primate TNF Promoters Reveal Markers of Phylogeny and Evolution of Innate Immunity, Andres Baena, Alan R. Mootnick, James V. Falvo, Alla V. Tsytsykova, Filipa Ligeiro, Ousmane M. Diop, Claudia Brieva, Pascal Gagneux, Stephen J. O'Brien, Oliver A. Ryder, and Anne E. Goldfeld
Geomorphology of the Southeast Florida Continental Reef Tract (Miami-Dade, Broward, and Palm Beach Counties, USA), Kenneth Banks, Bernhard Riegl, E. A. Shinn, Werner Pillar, and Richard E. Dodge
Stalked Crinoid Locomotion, and its Ecological and Evolutionary Implications, Tomasz K. Baumiller and Charles G. Messing
Compatifiant Algebras and the C*-algebras of the affine group, Abdelkrim Bourouihiya, M. Akouchi, and A. Bakali
Seasonal Occurrence of Atlantic Cutlassfish, Trichiurus lepturus, in Southeastern Florida with Notes on Reproduction and Stomach Contents, David R. Bryan and Shaun M. Gill
Liquid Chromatography with Dual Parallel Mass Spectrometry and 31P Nuclear Magnetic Resonance Spectroscopy for Analysis of Sphingomyelin and Dihydrosphingomyelin: II. Bovine Milk Sphingolipids, Wm. Craig Byrdwell and Richard H. Perry
Homo- and Heterometallic Coordination Polymers from the f Elements, Christopher L. Cahill, Daniel T. de Lill, and Mark Frisch
Characterization of the Rossler System in Parameter Space, Victor Castro, Marco Monti, William B. Pardo, Jonathan A. Walkenstein, and Epaminondas Rosa Jr.
The Structure of Different Flows in Parameter Space, Victor Castro, Marco Monti, William B. Pardo, Jonathan A. Walkenstein, and Epaminondas Rosa Jr.
Deep-Diving and Diel Changes in Vertical Habitat Use by Caribbean Reef Sharks Carcharhinus perezi, Demian D. Chapman, Ellen K. Pikitch, Elizabeth A. Babcock, and Mahmood S. Shivji
Virgin Birth in a Hammerhead Shark, Demian D. Chapman, Mahmood S. Shivji, Ed Louis, Julie Sommer, Hugh Fletcher, and Paulo A. Prodohl
Vision in the Hyperiid Amphipod Scina crassicornis, Jonathan H. Cohen and Tamara M. Frank
Validation of a Short Tandem Repeat Multiplex Typing System for Genetic Individualization of Domestic Cat Samples, Nikia Coomber, Victor A. David, Stephen J. O'Brien, and Marilyn Menotti-Raymond
Regulation of Cell Diameter, For3p Localization, and Cell Symmetry by Fission Yeast Rho-GAP Rga4p, Maitreyi Das, David J. Wiley, Saskia Medina, Helen A. Vincent, Michelle D. Larrea, Andrea Oriolo, and Fulvia Verde
Synthesis and Characterization of a Praseodymium–Adipate Framework Templated with 1,2-bis(4-Pyridyl)ethane: Host–Guest Interactions and Structural Survey, Daniel T. de Lill and Christopher L. Cahill
The Near Eastern Origin of Cat Domestication, Carlos A. Driscoll, Marilyn Menotti-Raymond, Alfred L. Roca, Karsten Hupe, Warren E. Johnson, Eli Geffen, Eric H. Harley, M. Delibes, Dominique Pontier, Andrew C. Kitchener, Nobuyuki Yamaguchi, Stephen J. O'Brien, and David W. Macdonald
Selfish Punishment: Altruism Can be Maintained by Competition Among Cheaters, Omar Tonsi Eldakar, Dene Leo Farrell, and David Sloan Wilson
Preliminary Observations on the Reproductive Cycle and Uterine Fecundity of the Yellow Stingray, Urobatis jamaicensis (Elasmobranchii: Mylioba tiformes: Urolophidae) in Southeast Florida, U.S.A., Daniel P. Fahy, Richard E. Spieler, and William C. Hamlett
Polymorphic Microsatellite Markers for Studies of the Conservation and Reproductive Genetics of Imperilled Sand Tiger Sharks (Carcharias taurus), Kevin A. Feldheim, Adam J. Stow, Heidi Ahonen, Demian D. Chapman, Mahmood S. Shivji, Vic Peddemors, and Sabine Wintner
Diversity and Biogeography of the Scleractinian Coral Fauna of Easter Island (Rapa Nui), Peter W. Glynn, Gerard M. Wellington, Bernhard Riegl, Donald B. Olson, Eric Borneman, and Evie A. Wieters
Mercury Transport and Bioaccumulation in Riverbank Communities of the Alvarado Lagoon System, Veracruz State, Mexico, Jane L. Guentzel, Enrique Portilla, Katherine M. Keith, and Edward O. Keith
Habitat Utilization and Vertical Movements of White Marlin (Tetrapturus albidus) Released from Commercial and Recreational Fishing Gears in the Western North Atlantic Ocean: Inferences from Short Duration Pop-up Archival Satellite Tags, Andrij Horodysky, David W. Kerstetter, Robert J. Latour, and John E. Graves
Prevalence and Diversity of Avian Hematozoan Parasites in Asia: A Regional Study, Farah Ishtiaq, Eben Gering, Jon H. Rappole, Asad R. Rahmani, Yadvendradev V. Jhala, Carla J. Dove, Christopher M. Milensky, Storrs L. Olson, Mike A. Peirce, and Robert C. Fleischer
A Quantitative Ecological Assessment of Diving Sites in the Egyptian Red Sea During a Period of Severe Anchor Damage: A Baseline for Restoration and Sustainable Tourism Management, S. C. Jameson, M. S. A. Ammar, E. Saadalla, H. M. Mostafa, and Bernhard Riegl
Four Independent Mutations in the Feline Fibroblast Growth Factor 5 Gene Determine the Long-Haired Phenotype in Domestic Cats, J. S. Kehler, Victor A. David, Alejandro A. Schaffer, Kristina Bajema, Eduardo Eizirik, David K. Ryugo, Steven S. Hannah, Stephen J. O'Brien, and Marilyn Menotti-Raymond
Evolution of the Male-Determining Gene SRY Within the Cat Family Felidae, V. King, P. N. Goodfellow, A. J. Pearks Wilkerson, Warren E. Johnson, Stephen J. O'Brien, and Jill Pecon-Slattery
K-41 Optimized Approximate Deconvolution Models, William Layton and Iuliana Stanculescu
Minimal Semigroups Generating Varieties with Complex Subvariety Lattices, Edmond W. H. Lee
On a Simpler Basis for the Pseudovariety EDS, Edmond W. H. Lee
On Identity Bases of Exclusion Varieties for Monoids, Edmond W. H. Lee
On the Complete Join of Permutative Combinatorial Rees–Sushkevich Varieties, Edmond W. H. Lee
Nitrogen and Oxygen Isotopic Signatures of Subsurface Nitrate Seaward of the Florida Keys Reef Tract, James J. Leichter, Adina Paytan, Scott Wankel, Katharine Hanson, Steven Miller, and Mark A. Altabet
First Observations on the Re-Established Southeast Florida Recreational Swordfish Tournament Fishery, Juan C. Levesquee and David W. Kerstetter
The Risk of Polyspermy in Three Congeneric Sea Urchins and its Implications for Gametic Incompatibility and Reproductive Isolation, Don R. Levitan, Casey P. terHorst, and Nicole D. Fogarty
Experimental Observation of Synchronous Competition in the Chua System, Zheng Le, Victor Castro, William B. Pardo, Jonathan A. Walkenstein, Marco Monti, and Epaminondas Rosa Jr.
The Energy Sensing LKB1-AMPK Pathway Regulates p27kip1 Phosphorylation Mediating the Decision to Enter Autophagy or Apoptosis, Jiyong Liang, Shan H. Shao, Zhi-Xiang Xu, Bryan Hennessy, Zhiyong Ding, and Michelle D. Larrea
Signal transduction in DC differentiation: winged messengers and Achilles' heel, I. Linder, P. J. Cejas, L. M. Carlson, J. Torruellas, G. V. Plano, and K. P. Lee
Modulation of dendritic cell differentiation and function by YopJ of Yersinia pestis, I. Linder, Julie Torruellas Garcia, D. Kolonias, L. M. Carlson, and K. P. Lee
Elevated Male European and Female African Contributions to the Genomes of African American Individuals, Joanne M. Lind, Holli Hutcheson-Dilks, Scott M. Williams, Jason H. Moore, Myron Essex, Eduardo Ruiz-Pesini, Douglas C. Wallace, Sarah A. Tishkoff, Stephen J. O'Brien, and Michael W. Smith
Signal transduction in DC differentiation: winged messengers and Achilles' heel, Inna Lindner, Pedro J. Cejas, Louise M. Carlson, Julie Torruellas Garcia, Gregory V. Plano, and Kelvin P. Lee
Caudal Spine Shedding Periodicity and Site Fidelity of Round Stingrays, Urobatis halleri (Cooper), at Seal Beach, California: Implications for Stingray-related Injury Management, Christopher G. Lowe, Greg J. Moss, Greg Hoisington IV, Jeremy Vaudo, Daniel P. Cartamil, Megan M. Marcotte, and Yannis P. Papastamatiou
Isolation and Characterization of Microsatellite Markers in Pangolins (Mammalia, Pholidota, Manis spp.), Shu-Jin Luo, Qing-xiu Cai, Victor A. David, Li Zhang, Paolo Martelli, Norman T-L. Lim, Nuno Ferrand, Shih-Chien Chin, Philippe Gaubert, Maria J. Ramos, Stephen J. O'Brien, Agostinho Antunes, and Warren E. Johnson