SHARK-From a fear of "Jaws” to conservation icon, Mahmood Shivji
Mahmood Shivji

Population genomic dynamics of mesopelagic lanternfishes Diaphus dumerilii, Lepidophanes guentheri, and Ceratoscopelus warmingii (Family: Myctophidae) in the Gulf of Mexico, Andrea Bernard, Kimberly A. Finnegan, Tracey Sutton, Ron Eytan, Max Weber, Mahmood Shivji
Tracey Sutton

Forensics and Genomics; A Change in Society and Evidence in Capitol Crimes, George Duncan
George Duncan

Horizontal Gene Transfer and Gene Dosage Drives Adaptation to Wood Colonization in a Tree Pathogen, Braham Dhillon, Nicolas Feau, Andrea Aerts, Stéphanie Beauseigle, Louis Bernier, Alex Copeland, Adam Foster, Navdeep Gill, Bernard Henrissat, Padmini Herath, Kurt LaButti, Anthony Levasseur, Erika Lindquist, Eline Majoor, Robin Ohm, Jasmyn Pangilinan, Amadeus Pribowo, John Saddler, Monique Sakalidis, Ronald P. de Vries, Igor Grigoriev, Stephen Goodwin, Philippe Tanguay, Richard Hamelin
Navdeep Gill

Genomes of endangered great hammerhead and shortfin mako sharks reveal historic population declines and high levels of inbreeding in great hammerhead, Michael J. Stanhope, Kristina M. Ceres, Qi Sun, Minghui Wang, Jordan D. Zehr, Nicholas J. Marra, Aryn P. Wilder, Cheng Zou, Andrea M. Bernard, Paulina D. Pavinski Bitar, Mitchell G. Lokey, Mahmood Shivji
Mahmood Shivji

Effects of Cyanobacteria Harmful Algal Blooms on the Microbial Community Within Lake Okeechobee, FL, USA, Paisley S. Samuel
All HCAS Student Capstones, Theses, and Dissertations

Genetic population dynamics of the critically endangered scalloped hammerhead shark (Sphyrna lewini) in the Eastern Tropical Pacific, Sydney P. Harned, Andrea Bernard, Pelayo Salinas-de-Leon, Marissa Mehlrose, Jenifer Suarez, Yolani Robles, Sandra Bessudo Lion, Felipe Ladino, Andrés López Garo, Ilena Zanella, Kevin A. Feldheim, Mahmood Shivji
Mahmood Shivji

Acoustic telemetry provides insights for improving conservation and management at a spawning aggregation site of the endangered Nassau grouper (Epinephelus striatus), Richard S. Nemeth, Elizabeth Kadison, Jonathan Jossart, Mahmood Shivji, Bradley Wetherbee, Jordan Matley
Mahmood Shivji

Acoustic telemetry provides insights for improving conservation and management at a spawning aggregation site of the endangered Nassau grouper (Epinephelus striatus), Richard S. Nemeth, Elizabeth Kadison, Jonathan Jossart, Mahmood Shivji, Bradley Wetherbee, Jordan Matley
Biology Faculty Articles

Three complete mitochondrial genomes of shortfin mako sharks, Isurus oxyrinchus, from the Atlantic and Pacific Oceans, Marissa Mehlrose, Andrea Bernard, Kimberly A. Finnegan, Lauren E. Krausfeldt, Jose V. Lopez, Mahmood Shivji
Jose Lopez

The wondrous biology, history, and adaptation of the marine invertebrate realm to the genomics era, Jose V. Lopez
Jose Lopez

Genomes of endangered great hammerhead and shortfin mako sharks reveal historic population declines and high levels of inbreeding in great hammerhead, Michael J. Stanhope, Kristina M. Ceres, Qi Sun, Minghui Wang, Jordan D. Zehr, Nicholas J. Marra, Aryn P. Wilder, Cheng Zou, Andrea M. Bernard, Paulina D. Pavinski Bitar, Mitchell G. Lokey, Mahmood Shivji
Biology Faculty Articles

Three complete mitochondrial genomes of shortfin mako sharks, Isurus oxyrinchus, from the Atlantic and Pacific Oceans, Marissa Mehlrose, Andrea Bernard, Kimberly A. Finnegan, Lauren E. Krausfeldt, Jose V. Lopez, Mahmood Shivji
Andrea Bernard

Population genomic dynamics of mesopelagic lanternfishes Diaphus dumerilii, Lepidophanes guentheri, and Ceratoscopelus warmingii (Family: Myctophidae) in the Gulf of Mexico, Andrea Bernard, Kimberly A. Finnegan, Tracey Sutton, Ron Eytan, Max Weber, Mahmood Shivji
Andrea Bernard

HIV-AIDS from emergence, HIV discovery, terror, and translation, Robert Gallo
Golden Age of Science

Caribbean Reef-Building Coral-Symbiodiniaceae Network: Identifying Symbioses Critical for System Stability in a Changing Climate, Shaman Patel
All HCAS Student Capstones, Theses, and Dissertations

The Dynamics of Scientific Publication Ethics and the challenge and future for Women in The Golden Age of Science, Laurie Goodman
Golden Age of Science

Domestication of the Cat and Its Felidae Relatives, Carlos Driscoll
Golden Age of Science

Genetic population dynamics of the critically endangered scalloped hammerhead shark (Sphyrna lewini) in the Eastern Tropical Pacific, Sydney P. Harned, Andrea Bernard, Pelayo Salinas-de-Leon, Marissa Mehlrose, Jenifer Suarez, Yolani Robles, Sandra Bessudo Lion, Felipe Ladino, Andrés López Garo, Ilena Zanella, Kevin A. Feldheim, Mahmood Shivji
Biology Faculty Articles

Human Origins and Adaptation, Stephen O'Brien
Golden Age of Science

Cancer: The Emperor of Maladies, Stephen O'Brien
Golden Age of Science

Forensics and Genomics; A Change in Society and Evidence in Capitol Crimes, George Duncan
Golden Age of Science

The Birth and Discovery of Conservation Genetics, Stephen O'Brien
Golden Age of Science

The wondrous biology, history, and adaptation of the marine invertebrate realm to the genomics era, Jose V. Lopez
Golden Age of Science

Zoobiquity and Infectious Outbreaks, Stephen O'Brien
Golden Age of Science

Bio- prospecting for medicinals: Cone Snails from the Philippines Reefs., Baldomero Olivera
Golden Age of Science

SHARK-From a fear of "Jaws” to conservation icon, Mahmood Shivji
Golden Age of Science

Origins of Genetic Theory and Applications in all of Biology, Stephen O'Brien
Golden Age of Science

A Chance for the Cheetah, Laurie Marker
Golden Age of Science

DNA and Evolution: Tracing Phylogenetic Roots; Stephen O’Brien, NSU FL, Stephen O'Brien
Golden Age of Science

The Tale of Industrial Melanism in Peppered Moths, Bruce Grant
Golden Age of Science

Determination of Atlantic Shortfin Mako Shark (Isurus Oxyrinchus) Population Genetic Structure and Comparison of Mitogenomic Markers, Marissa Mehlrose
All HCAS Student Capstones, Theses, and Dissertations

Transcriptome Analysis of the Entomopathogenic Fungus Culicinomyces Clavisporus, Dana E. Foresman
All HCAS Student Capstones, Theses, and Dissertations

A decade of GigaScience: A perspective on conservation genetics, Stephen James O'Brien
Biology Faculty Articles

Population genomic dynamics of mesopelagic lanternfishes Diaphus dumerilii, Lepidophanes guentheri, and Ceratoscopelus warmingii (Family: Myctophidae) in the Gulf of Mexico, Andrea Bernard, Kimberly A. Finnegan, Tracey Sutton, Ron Eytan, Max Weber, Mahmood Shivji
Mahmood Shivji

Three complete mitochondrial genomes of shortfin mako sharks, Isurus oxyrinchus, from the Atlantic and Pacific Oceans, Marissa Mehlrose, Andrea Bernard, Kimberly A. Finnegan, Lauren E. Krausfeldt, Jose V. Lopez, Mahmood Shivji
Mahmood Shivji

Population genomic dynamics of mesopelagic lanternfishes Diaphus dumerilii, Lepidophanes guentheri, and Ceratoscopelus warmingii (Family: Myctophidae) in the Gulf of Mexico, Andrea Bernard, Kimberly A. Finnegan, Tracey Sutton, Ron Eytan, Max Weber, Mahmood Shivji
Marine & Environmental Sciences Faculty Articles

Holo-Transcriptome Sequences from the Tropical Marine Sponge Cinachyrella alloclada, Yvain Desplat, Jacob F. Warner, Jose V. Lopez
Jose Lopez

The Earth BioGenome Project 2020: Starting the clock, Harris A. Lewin, Stephen Richards, Erez Lieberman Aiden, Miguel L. Allende, John M. Archibald, Katharine B. Baker, Bridget Baumgartner, Katherine Belov, Giorgio Bertorelle, Mark L. Blaxter, Jing Cai, Nicolette D. Caperello, Keith Carlson, Juan Carlos Castilla-Rubio, Shu-Miaw Chaw, Lei Chen, Anna K. Childers, Jonathan A. Coddington, Dalia A. Conde, Montserrat Corominas, Keith A. Crandall, Andrew J. Crawford, Federica DiPalma, Richard Durbin, ThankGod E. Ebenezer, Scott V. Edwards, Olivier Fedrigo, Paul Flicek, Giulio Formenti, Richard A. Gibbs, M. Thomas P. Gilbert, Melissa M. Goldstein, Jennifer Marshall Graves, Henry T. Greely, Igor V. Grigoriev, Kevin J. Hackett, Neil Hall, David Haussler, Kristofer M. Helgen, Carolyn J. Hogg, Sachiko Isobe, Kjetill Sigurd Jakobson, Axel Janke, Erich D. Jarvis, Warren E. Johnson, Steven J. M. Jones, Elinor K. Karlsson, Paul J. Kersey, Jin-Hyoung Kim, W. John Kress, Shigehiro Kuraku, Mara K. N. Lawniczak, James H. Leebens-Mack, Xueyan Li, Kerstin Lindblad-Toh, Xin Liu, Jose V. Lopez, Tomas Marques-Bonet, Sophie Mazard, Jonna A. K. Mazet, Camila J. Mazzoni, Eugene W. Myers, Rachel J. O'Neill, Sadye Paez, Hyun Park, Gene E. Robinson, Cristina Roquet, Oliver A. Ryder, Jamal S. M. Sabir, H. Bradley Shaffer, Timothy M. Shank, Jacob S. Sherkow, Pamela S. Soltis, Boping Tang, Leho Tedersoo, Marcela Uliano-Silva, Kun Wang, Xiaofeng Wei, Regina Wetzer, Julia L. Wilson, Xun Xu, Huanming Yang, Anne D. Yoder, Guojie Zhang
Jose Lopez

Standards recommendations for the Earth BioGenome Project, Mara K. Lawniczak, Richard Durbin, Paul Flicek, Kerstin Lindblad-Toh, Xiaofeng Wei, John M. Archibald, William J. Baker, Katherine Belov, Mark L. Blaxter, Tomas Marques-Bonet, Anna K. Childers, Jonathan A. Coddington, Keith A. Crandall, Andrew J. Crawford, Robert P. Davey, Federica Di Palma, Qi Fang, Wilfried Haerty, Neil Hall, Katherine J. Hoff, Kerstin Howe, Erich D. Jarvis, Warren E. Johnson, Rebecca N. Johnson, Paul J. Kersey, Xin Liu, Jose V. Lopez, Eugene W. Myers, Olga Vinnere Pettersson, Adam M. Phillippy, Monica F. Poelchau, Kim D. Pruitt, Arang Rhie, Juan Carlos Castilla-Rubio, Sunil Kumar Sahu, Nicholas A. Salmon, Pamela S. Soltis, David Swarbreck, Françoise Thibaud-Nissen, Sibo Wang, Jill L. Wegrzyn, Guojie Zhang, He Zhang, Harris A. Lewin, Stephen Richards
Jose Lopez

Why sequence all eukaryotes?, Mark Blaxter, John M. Archibald, Anna K. Childers, Jonathan A. Coddington, Keith A. Crandall, Federica Di Palma, Richard Durbin, Scott V. Edwards, Jennifer A.M. Graves, Kevin J. Hackett, Neil Hall, Erich D. Jarvis, Rebecca N. Johnson, Elinor K. Karlsson, W. John Kress, Shigehiro Kuraku, Mara K. N. Lawniczak, Kerstin Lindblad-Toh, Jose V. Lopez, Nancy A. Moran, Gene E. Robinson, Oliver A. Ryder, Beth Shapiro, Pamela S. Soltis, Tandy Warnow, Guojie Zhang, Harris A. Lewin
Jose Lopez

The Earth BioGenome Project 2020: Starting the clock, Harris A. Lewin, Stephen Richards, Erez Lieberman Aiden, Miguel L. Allende, John M. Archibald, Katharine B. Baker, Bridget Baumgartner, Katherine Belov, Giorgio Bertorelle, Mark L. Blaxter, Jing Cai, Nicolette D. Caperello, Keith Carlson, Juan Carlos Castilla-Rubio, Shu-Miaw Chaw, Lei Chen, Anna K. Childers, Jonathan A. Coddington, Dalia A. Conde, Montserrat Corominas, Keith A. Crandall, Andrew J. Crawford, Federica DiPalma, Richard Durbin, ThankGod E. Ebenezer, Scott V. Edwards, Olivier Fedrigo, Paul Flicek, Giulio Formenti, Richard A. Gibbs, M. Thomas P. Gilbert, Melissa M. Goldstein, Jennifer Marshall Graves, Henry T. Greely, Igor V. Grigoriev, Kevin J. Hackett, Neil Hall, David Haussler, Kristofer M. Helgen, Carolyn J. Hogg, Sachiko Isobe, Kjetill Sigurd Jakobson, Axel Janke, Erich D. Jarvis, Warren E. Johnson, Steven J. M. Jones, Elinor K. Karlsson, Paul J. Kersey, Jin-Hyoung Kim, W. John Kress, Shigehiro Kuraku, Mara K. N. Lawniczak, James H. Leebens-Mack, Xueyan Li, Kerstin Lindblad-Toh, Xin Liu, Jose V. Lopez, Tomas Marques-Bonet, Sophie Mazard, Jonna A. K. Mazet, Camila J. Mazzoni, Eugene W. Myers, Rachel J. O'Neill, Sadye Paez, Hyun Park, Gene E. Robinson, Cristina Roquet, Oliver A. Ryder, Jamal S. M. Sabir, H. Bradley Shaffer, Timothy M. Shank, Jacob S. Sherkow, Pamela S. Soltis, Boping Tang, Leho Tedersoo, Marcela Uliano-Silva, Kun Wang, Xiaofeng Wei, Regina Wetzer, Julia L. Wilson, Xun Xu, Huanming Yang, Anne D. Yoder, Guojie Zhang
Biology Faculty Articles

Why sequence all eukaryotes?, Mark Blaxter, John M. Archibald, Anna K. Childers, Jonathan A. Coddington, Keith A. Crandall, Federica Di Palma, Richard Durbin, Scott V. Edwards, Jennifer A.M. Graves, Kevin J. Hackett, Neil Hall, Erich D. Jarvis, Rebecca N. Johnson, Elinor K. Karlsson, W. John Kress, Shigehiro Kuraku, Mara K. N. Lawniczak, Kerstin Lindblad-Toh, Jose V. Lopez, Nancy A. Moran, Gene E. Robinson, Oliver A. Ryder, Beth Shapiro, Pamela S. Soltis, Tandy Warnow, Guojie Zhang, Harris A. Lewin
Biology Faculty Articles

Standards recommendations for the Earth BioGenome Project, Mara K. Lawniczak, Richard Durbin, Paul Flicek, Kerstin Lindblad-Toh, Xiaofeng Wei, John M. Archibald, William J. Baker, Katherine Belov, Mark L. Blaxter, Tomas Marques-Bonet, Anna K. Childers, Jonathan A. Coddington, Keith A. Crandall, Andrew J. Crawford, Robert P. Davey, Federica Di Palma, Qi Fang, Wilfried Haerty, Neil Hall, Katherine J. Hoff, Kerstin Howe, Erich D. Jarvis, Warren E. Johnson, Rebecca N. Johnson, Paul J. Kersey, Xin Liu, Jose V. Lopez, Eugene W. Myers, Olga Vinnere Pettersson, Adam M. Phillippy, Monica F. Poelchau, Kim D. Pruitt, Arang Rhie, Juan Carlos Castilla-Rubio, Sunil Kumar Sahu, Nicholas A. Salmon, Pamela S. Soltis, David Swarbreck, Françoise Thibaud-Nissen, Sibo Wang, Jill L. Wegrzyn, Guojie Zhang, He Zhang, Harris A. Lewin, Stephen Richards
Biology Faculty Articles

Three complete mitochondrial genomes of shortfin mako sharks, Isurus oxyrinchus, from the Atlantic and Pacific Oceans, Marissa Mehlrose, Andrea Bernard, Kimberly A. Finnegan, Lauren E. Krausfeldt, Jose V. Lopez, Mahmood Shivji
Biology Faculty Articles

Holo-Transcriptome Sequences from the Tropical Marine Sponge Cinachyrella alloclada, Yvain Desplat, Jacob F. Warner, Jose V. Lopez
Biology Faculty Articles

Case Study: Rapid Species Identification of Pelagic Shark Tissues Using Genetic Approaches, Mahmood Shivji, Melissa Pank, Lisa Natanson, Nancy Kohler, Michael Stanhope
Mahmood Shivji

Biochemical genetic variation in geographic isolates of African and Asiatic lions., S. J. O'Brien
Stephen O'Brien

CCR-5 genotype and sexual transmission of HIV-1 [5], T. R. O'Brien, N. S. Padian, T. Hodge, J. J. Goedert, S. J. O'Brien, M. Carrington
Stephen O'Brien

Dispermic origin and clinical outcome of three complete hydatidiform moles with 46,XY karyotype, U. Surti, A. E. Szulman, S. O'Brien
Stephen O'Brien

Commentary: Unbiasing Genome-Based Analyses of Selection: An Example Using Iconic Shark Species, Nicholas J. Marra, Michael J. Stanhope, Nathaniel K. Jue, Vincent P. Richards, Stephen J. O'Brien, Agostinho Antunes, Mahmood S. Shivji
Stephen O'Brien

Atlas of Mammalian Chromosomes, Stephen James O'Brien, Alexander S. Graphodatsky, Polina L. Perelman
Stephen O'Brien

Canine and feline parvoviruses can use human or feline transferrin receptors to bind, enter, and infect cells, J. S.L. Parker, W. J. Murphy, D. Wang, S. J. O'Brien, C. R. Parrish
Stephen O'Brien

Author Correction: Puma genomes from North and South America provide insights into the genomic consequences of inbreeding (Nature Communications, (2019), 10, 1, (4769), 10.1038/s41467-019-12741-1), Nedda F. Saremi, Megan A. Supple, Ashley Byrne, James A. Cahill, Luiz Lehmann Coutinho, Love Dalén, Henrique V. Figueiró, Warren E. Johnson, Heather J. Milne, Stephen J. O’Brien, Brendan O’Connell, David P. Onorato, Seth P.D. Riley, Jeff A. Sikich, Daniel R. Stahler, Priscilla Marqui Schmidt Villela, Christopher Vollmers, Robert K. Wayne, Eduardo Eizirik, Russell B. Corbett-Detig, Richard E. Green, Christopher C. Wilmers, Beth Shapiro
Stephen O'Brien

Atlas of Mammalian Chromosomes, Stephen James O'Brien, Joan C. Menninger, William G. Nash
Stephen O'Brien

An STR forensic typing system for genetic individualization of domestic cat (Felis catus) samples, Marilyn A. Menotti-Raymond, Victor A. David, Leslie L. Wachter, John M. Butler, Stephen J. O'Brien
Stephen O'Brien

A little revolution, John Rennie, Richard Dawkins, Lawrence M. Krauss, Stephen J. O'Brien, Kevin E. Trenberth, Alan Weisman
Stephen O'Brien

Aldehyde dehydrogenase 1 (ALDH1) isoform expression and potential clinical implications in hepatocellular carcinoma, Cheng Kun Yang, Xiang Kun Wang, Xi Wen Liao, Chuang Ye Han, Ting Dong Yu, Wei Qin, Guang Zhi Zhu, Hao Su, Long Yu, Xiao Guang Liu, Si Cong Lu, Zhi Wei Chen, Zhen Liu, Ke Tuan Huang, Zheng Tao Liu, Yu Liang, Jian Lu Huang, Kai Yin Xiao, Min Hao Peng, Cheryl Ann Winkle, Stephen J. O’Brien, Tao Peng
Stephen O'Brien

A cytogenetic comparison of the G-banded karyotypes of the domestic cat and man, W. G. Nash, S. J. O'Brien
Stephen O'Brien

Adaptive genomic evolution of opsins reveals that early mammals flourished in nocturnal environments, Rui Borges, Warren E. Johnson, Stephen J. O'Brien, Cidália Gomes, Christopher P. Heesy, Agostinho Antunes
Stephen O'Brien

AIDS: A role for host genes, Stephen J. O'brien
Stephen O'Brien

Genetic Maps: Locus Maps of Complex Genomes, Stephen James O'Brien
Stephen O'Brien

Complete mitochondrial genomes of Baikal oilfishes (Perciformes: Cottoidei), earth’s deepest-swimming freshwater fishes, Michael W. Sandel, Andres Aguilar, Kayla Fast, Stephen O’Brien, Alla Lapidus, David B. Allison, Veronika Teterina, Sergei Kirilchik
Stephen O'Brien

Genetic acceleration of AIDS progression by a promoter variant of CCR5, Stephen J. O'Brien
Stephen O'Brien

Evolution of gene regulation in ruminants differs between evolutionary breakpoint regions and homologous synteny blocks, Marta Farré, Jaebum Kim, Anastasia A. Proskuryakova, Yang Zhang, Anastasia I. Kulemzina, Qiye Li, Yang Zhou, Yingqi Xiong, Jennifer L. Johnson, Polina L. Perelman, Warren E. Johnson, Wesley C. Warren, Anna V. Kukekova, Guojie Zhang, Stephen J. O’Brien, Oliver A. Ryder, Alexander S. Graphodatsky, Jian Ma, Harris A. Lewin, Denis M. Larkin
Stephen O'Brien

Evolution of mammalian genome organization inferred from comparative gene mapping, W. J. Murphy, R. Stanyon, S. J. O'Brien
Stephen O'Brien

GADMA: Genetic algorithm for inferring demographic history of multiple populations from allele frequency spectrum data, Ekaterina Noskova, Vladimir Ulyantsev, Klaus Peter Koepfli, Stephen J. O'brien, Pavel Dobrynin
Stephen O'Brien

Genetic introgression within the Florida panther Felis concolor coryi, S. J. O'Brien
Stephen O'Brien

Foreword, Stephen J. O'Brien
Stephen O'Brien

Editorial overview, Stephen J. O'Brien, Michael T. Clegg
Stephen O'Brien

Erratum to: Red fox genome assembly identifies genomic regions associated with tame and aggressive behaviours (Nature Ecology & Evolution, (2018), 2, 9, (1479-1491), 10.1038/s41559-018-0611-6), Anna V. Kukekova, Jennifer L. Johnson, Xueyan Xiang, Shaohong Feng, Shiping Liu, Halie M. Rando, Anastasiya V. Kharlamova, Yury Herbeck, Natalya A. Serdyukova, Zijun Xiong, Violetta Beklemischeva, Klaus Peter Koepfli, Rimma G. Gulevich, Anastasiya V. Vladimirova, Jessica P. Hekman, Polina L. Perelman, Aleksander S. Graphodatsky, Stephen J. O’Brien, Xu Wang, Andrew G. Clark, Gregory M. Acland, Lyudmila N. Trut, Guojie Zhang
Stephen O'Brien

Identified OAS3 gene variants associated with coexistence of HBsAg and anti-HBs in chronic HBV infection, S. Wang, J. Wang, M. J. Fan, T. Y. Li, H. Pan, X. Wang, H. K. Liu, Q. F. Lin, J. G. Zhang, L. P. Guan, D. V. Zhernakova, S. J. O’Brien, Z. R. Feng, L. Chang, E. H. Dai, J. H. Lu, H. L. Xi, Z. Zeng, Y. Y. Yu, B. B. Wang
Stephen O'Brien

Genome-Wide Evolutionary Analysis of Natural History and Adaptation in the World's Tigers, Yue Chen Liu, Xin Sun, Carlos Driscoll, Dale G. Miquelle, Xiao Xu, Paolo Martelli, Olga Uphyrkina, James L.D. Smith, Stephen J. O'Brien, Shu Jin Luo
Stephen O'Brien

Genome-Wide Analyses Reveal Gene Influence on HIV Disease Progression and HIV-1C Acquisition in Southern Africa, Wen Xie, Denis Agniel, Andrey Shevchenko, Sergey V. Malov, Anton Svitin, Nikolay Cherkasov, Marianna K. Baum, Adriana Campa, Simani Gaseitsiwe, Hermann Bussmann, Joseph Makhema, Richard Marlink, Vladimir Novitsky, Tun Hou Lee, Tianxi Cai, Stephen J. O'Brien, M. Essex
Stephen O'Brien

Genome 10K: A proposal to obtain whole-genome sequence for 10000 vertebrate species, David Haussler, Stephen J. O'Brien, Oliver A. Ryder, F. Keith Barker, Michele Clamp, Andrew J. Crawford, Robert Hanner, Olivier Hanotte, Warren E. Johnson, Jimmy A. McGuire, Webb Miller, Robert W. Murphy, William J. Murphy, Frederick H. Sheldon, Barry Sinervo, Byrappa Venkatesh, Edward O. Wiley, Fred W. Allendorf, George Amato, C. Scott Baker, Aaron Bauer, Albano Beja-Pereira, Eldredge Bermingham, Giacomo Bernardi, Cibele R. Bonvicino, Sydney Brenner, Terry Burke, Joel Cracraft, Mark Diekhans
Stephen O'Brien

HalSynteny: A fast, easy-to-use conserved synteny block construction method for multiple whole-genome alignments, Ksenia Krasheninnikova, Mark Diekhans, Joel Armstrong, Aleksei Dievskii, Benedict Paten, Stephen O'Brien
Stephen O'Brien

Genome-wide signatures of complex introgression and adaptive evolution in the big cats, Henrique V. Figueiró, Gang Li, Fernanda J. Trindade, Juliana Assis, Fabiano Pais, Gabriel Fernandes, Sarah H.D. Santos, Graham M. Hughes, Aleksey Komissarov, Agostinho Antunes, Cristine S. Trinca, Maíra R. Rodrigues, Tyler Linderoth, Ke Bi, Leandro Silveira, Fernando C.C. Azevedo, Daniel Kantek, Emiliano Ramalho, Ricardo A. Brassaloti, Priscilla M.S. Villela, Adauto L.V. Nunes, Rodrigo H.F. Teixeira, Ronaldo G. Morato, Damian Loska, Patricia Saragüeta, Toni Gabaldón, Emma C. Teeling, Stephen J. O'Brien, Rasmus Nielsen
Stephen O'Brien

Genome-Wide Association Study of MKI67 Expression and its Clinical Implications in HBV-Related Hepatocellular Carcinoma in Southern China, Cheng Kun Yang, Ting Dong Yu, Chuang Ye Han, Wei Qin, Xi Wen Liao, Long Yu, Xiao Guang Liu, Guang Zhi Zhu, Hao Su, Si Cong Lu, Zhi Wei Chen, Zhen Liu, Ke Tuan Huang, Zheng Tao Liu, Yu Liang, Jian Lu Huang, Zeng Nan Mo, Xue Qin, Lequn Li, Kai Yin Xiao, Min Hao Peng, Cheryl Ann Winkle, Stephen J. O'Brien, Tao Peng
Stephen O'Brien

Genetic analysis in the domestic cat as an animal model for inborn errors, cancer and evolution., S. J. O'Brien, W. G. Nash, C. A. Winkler, R. H. Reeves
Stephen O'Brien

Genetic individualization of domestic cats using feline STR loci for forensic applications, Marilyn Menotti-Raymond, Victor A. David, J. Claiborne Stephens, Leslie A. Lyons, Stephen J. O'Brien
Stephen O'Brien

In vitro maturation and fertilization of domestic cat follicular oocytes, L. A. Johnston, S. J. O'Brien, D. E. Wildt
Stephen O'Brien

Life table estimator revisited, Sergey V. Malov, Stephen J. O’Brien
Stephen O'Brien

Genomic Adaptations and Evolutionary History of the Extinct Scimitar-Toothed Cat, Homotherium latidens, Ross Barnett, Michael V. Westbury, Marcela Sandoval-Velasco, Filipe Garrett Vieira, Sungwon Jeon, Grant Zazula, Michael D. Martin, Simon Y.W. Ho, Niklas Mather, Shyam Gopalakrishnan, Jazmín Ramos-Madrigal, Marc de Manuel, M. Lisandra Zepeda-Mendoza, Agostinho Antunes, Aldo Carmona Baez, Binia De Cahsan, Greger Larson, Stephen J. O'Brien, Eduardo Eizirik, Warren E. Johnson, Klaus Peter Koepfli, Andreas Wilting, Jörns Fickel, Love Dalén, Eline D. Lorenzen, Tomas Marques-Bonet, Anders J. Hansen, Guojie Zhang, Jong Bhak
Stephen O'Brien

Integrated analysis of competing endogenous RNA network revealing potential prognostic biomarkers of hepatocellular carcinoma, Xiwen Liao, Xiangkun Wang, Ketuan Huang, Chuangye Han, Jianlong Deng, Tingdong Yu, Chengkun Yang, Rui Huang, Xiaoguang Liu, Long Yu, Guangzhi Zhu, Hao Su, Wei Qin, Xianmin Zeng, Bowen Han, Quanfa Han, Zhengqian Liu, Xin Zhou, Yizhen Gong, Zhengtao Liu, Jianlv Huang, Cheryl A. Winkler, Stephen J. O'Brien, Xinping Ye, Tao Peng
Stephen O'Brien

Innovative assembly strategy contributes to understanding the evolution and conservation genetics of the endangered Solenodon paradoxus from the island of Hispaniola, Kirill Grigorev, Sergey Kliver, Pavel Dobrynin, Aleksey Komissarov, Walter Wolfsberger, Ksenia Krasheninnikova, Yashira M. Afanador-Hernández, Adam L. Brandt, Liz A. Paulino, Rosanna Carreras, Luis E. Rodríguez, Adrell Núñez, Jessica R. Brandt, Filipe Silva, J. David Hernández-Martich, Audrey J. Majeske, Agostinho Antunes, Alfred L. Roca, Stephen J. O'Brien, Juan Carlos Martínez-Cruzado, Taras K. Oleksyk
Stephen O'Brien

In Vitro maturation and fertilization of domestic cat follicular oocytes, L. A. Johnston, S. J. O'Brien, D. E. Wildt
Stephen O'Brien

PGD: a pangolin genome hub for the research community, Tze King Tan, Ka Yun Tan, Ranjeev Hari, Aini Mohamed Yusoff, Guat Jah Wong, Cheuk Chuen Siow, Naresh V.R. Mutha, Mike Rayko, Aleksey Komissarov, Pavel Dobrynin, Ksenia Krasheninnikova, Gaik Tamazian, Ian C. Paterson, Wesley C. Warren, Warren E. Johnson, Stephen J. O'Brien, Siew Woh Choo
Stephen O'Brien

Marker of proliferation Ki-67 expression is associated with transforming growth factor beta 1 and can predict the prognosis of patients with hepatic B virus-related hepatocellular carcinoma, Chengkun Yang, Hao Su, Xiwen Liao, Chuangye Han, Tingdong Yu, Guangzhi Zhu, Xiangkun Wang, Cheryl Ann Winkler, Stephen J. O’Brien, Tao Peng
Stephen O'Brien

Mammalian genome organization: an evolutionary view, S. J. O'Brien, H. N.J.E. Seuanez Womack
Stephen O'Brien

New high copy tandem repeat in the content of the chicken W chromosome, Aleksey S. Komissarov, Svetlana A. Galkina, Elena I. Koshel, Maria M. Kulak, Aleksander G. Dyomin, Stephen J. O’Brien, Elena R. Gaginskaya, Alsu F. Saifitdinova
Stephen O'Brien

Koalas (Phascolarctos cinereus) from Queensland are genetically distinct from 2 populations in Victoria, Christina T. Ruiz-Rodriguez, Yasuko Ishida, Neil D. Murray, Stephen J. O'brien, Jennifer A.M. Graves, Alex D. Greenwood, Alfred L. Roca
Stephen O'Brien

Reply:, Xiuchan Guo, Randy Johnson, Stephen J. O'Brien
Stephen O'Brien

Response [3], Stephen J. O'Brien, Ernst Mayr
Stephen O'Brien

Red fox genome assembly identifies genomic regions associated with tame and aggressive behaviours, Anna V. Kukekova, Jennifer L. Johnson, Xueyan Xiang, Shaohong Feng, Shiping Liu, Halie M. Rando, Anastasiya V. Kharlamova, Yury Herbeck, Natalya A. Serdyukova, Zijun Xiong, Violetta Beklemischeva, Klaus Peter Koepfli, Rimma G. Gulevich, Anastasiya V. Vladimirova, Jessica P. Hekman, Polina L. Perelman, Aleksander S. Graphodatsky, Stephen J. O’Brien, Xu Wang, Andrew G. Clark, Gregory M. Acland, Lyudmila N. Trut, Guojie Zhang
Stephen O'Brien

Preoperative transcatheter arterial chemotherapy may suppress oxidative stress in hepatocellular carcinoma cells and reduce the risk of short-term relapse, Hao Su, Guangzhi Zhu, Ketut Indra Djaja P, Yi Lin, Yizhen Gong, Xiaoguang Liu, Jiaquan Li, Zhiming Liu, Xiao Qin, Lequn Li, Tangwei Liu, Zili Lu, Minyi Wei, Lunan Yan, Cheryl Ann Winkler, Stephen J. O'Brien, Jing Li, Kaiyin Xiao, Tao Peng
Stephen O'Brien

Primary cultures of human colon cancer as a model to study cancer stem cells, Sergey Koshkin, Anna Danilova, Grigory Raskin, Nikolai Petrov, Olga Bajenova, Stephen J. O’Brien, Alexey Tomilin, Elena Tolkunova
Stephen O'Brien

Puma genomes from North and South America provide insights into the genomic consequences of inbreeding, Nedda F. Saremi, Megan A. Supple, Ashley Byrne, James A. Cahill, Luiz Lehmann Coutinho, Love Dalén, Henrique V. Figueiró, Warren E. Johnson, Heather J. Milne, Stephen J. O’Brien, Brendan O’Connell, David P. Onorato, Seth P.D. Riley, Jeff A. Sikich, Daniel R. Stahler, Priscilla Marqui Schmidt Villela, Christopher Vollmers, Robert K. Wayne, Eduardo Eizirik, Russell B. Corbett-Detig, Richard E. Green, Christopher C. Wilmers, Beth Shapiro
Stephen O'Brien

Phylogeographic subspecies recognition in leopards (Panthera pardus): Molecular genetic variation, Sriyanie Miththapala, John Seidensticker, Stephen J. O'Brien
Stephen O'Brien

New Gene Variants Associated with the Risk of Chronic HBV Infection, Mengjie Fan, Jing Wang, Sa Wang, Tengyan Li, Hong Pan, Hankui Liu, Huifang Xu, Daria V. Zhernakova, Stephen J. O’Brien, Zhenru Feng, Le Chang, Erhei Dai, Jianhua Lu, Hongli Xi, Yanyan Yu, Jianguo Zhang, Binbin Wang, Zheng Zeng
Stephen O'Brien

Milestones, S. J. O'Brien, L. Andersson, R. Angus, S. E. Bloom, A. Bowling, G. E. Collier, N. Copeland, L. Crittenden, M. T. Davisson, S. Gabay-Laughnan, J. P. Gustafson, J. L. Hamrick, R. Honeycutt, P. P. Jauhar, H. T. Knap, C. Kozak, S. Kumar, K. R. Lamkey, R. MacIntyre, B. May, V. A. McKusick, W. S. Modi, M. Nei, R. G. Palmer, R. H. Reeves, O. A. Ryder, S. Schaeffer, H. Seuanez, M. Tracey
Stephen O'Brien

Patterns of Feline Immunodeficiency Virus Multiple Infection and Genome Divergence in a Free-Ranging Population of African Lions, Jennifer L. Troyer, Jill Pecon-Slattery, Melody E. Roelke, Lori Black, Craig Packer, Stephen J. O'Brien
Stephen O'Brien

The family line: The human-cat connection, Stephen J. O'Brien
Stephen O'Brien

The Population Origins and Expansion of Feral Cats in Australia, Peter B.S. Spencer, Andrey A. Yurchenko, Victor A. David, Rachael Scott, Klaus Peter Koepfli, Carlos Driscoll, Stephen J. O'Brien, Marilyn Menotti-Raymond
Stephen O'Brien

Whole Genome Sequencing and Re-sequencing of the Sable Antelope (Hippotragus niger): A resource for monitoring diversity in ex situ and in situ populations, Klaus Peter Koepfli, Gaik Tamazian, David Wildt, Pavel Dobrynin, Changhoon Kim, Paul B. Frandsen, Raquel Godinho, Andrey A. Yurchenko, Aleksey Komissarov, Ksenia Krasheninnikova, Sergei Kliver, Sofia Kolchanova, Margarida Gonçalves, Miguel Carneiro, Pedro Vaz Pinto, Nuno Ferrand, Jesús E. Maldonado, Gina M. Ferrie, Leona Chemnick, Oliver A. Ryder, Warren E. Johnson, Pierre Comizzoli, Stephen J. O'Brien, Budhan S. Pukazhenthi
Stephen O'Brien

The complete mitochondrial genome of the parthenogenetic Caucasian rock lizard Darevskia unisexualis (Squamata: Lacertidae) contains long tandem repeat formed by 59 bp monomer, Aleksey Komissarov, Vitaly Korchagin, Sergei Kliver, Pavel Dobrynin, Serafima Semyenova, Andrey Vergun, Stephen O’Brien, Alexey Ryskov
Stephen O'Brien

The Complete Phylogeny of Pangolins: Scaling Up Resources for the Molecular Tracing of the Most Trafficked Mammals on Earth, Philippe Gaubert, Agostinho Antunes, Hao Meng, Lin Miao, Stéphane Peigné, Fabienne Justy, Flobert Njiokou, Sylvain Dufour, Emmanuel Danquah, Jayanthi Alahakoon, Erik Verheyen, William T. Stanley, Stephen J. O'Brien, Warren E. Johnson, Shu Jin Luo
Stephen O'Brien

Tears of the Cheetah: The Genetic Secrets of Our Animal Ancestors, Stephen James O'Brien
Stephen O'Brien

Structure and patterns of sequence variation in the mitochondrial DNA control region of the great cats, Kim Jae-Heup, E. Eizirik, S. J. O'Brien, W. E. Johnson
Stephen O'Brien

Response to Comment by Faurby, Werdelin and Svenning, Stephen J. O'Brien, Klaus Peter Koepfli, Eduardo Eizirik, Warren Johnson, Carlos Driscoll, Agostinho Antunes, Anne Schmidt-Kuntzel, Laurie Marker, Pavel Dobrynin
Stephen O'Brien

Specific genetic loci as targets of carcinogens and tumor promotors in mammals, S. J. O'Brien, M. C. Rice
Stephen O'Brien

Seroprevalence of Bartonella infection in American free-ranging and captive pumas (Felis concolor) and bobcats (Lynx rufus), Bruno B. Chomel, Yoko Kikuchi, Janice S. Martenson, Melodie E. Roelke-Parker, Chao Chin Chang, Rickie W. Kasten, Janet E. Foley, John Laudre, Kerry Murphy, Pamela K. Swift, Vicki L. Kramer, Stephen J. O'Brien
Stephen O'Brien

The evolutionary history of extinct and living lions, Marc de Manuel, Ross Barnett, Marcela Sandoval-Velasco, Nobuyuki Yamaguchi, Filipe Garrett Vieira, M. Lisandra Zepeda Mendoza, Shiping Liu, Michael D. Martin, Mikkel Holger S. Sinding, Sarah S.T. Mak, Christian Carøe, Shanlin Liu, Chunxue Guo, Jiao Zheng, Grant Zazula, Gennady Baryshnikov, Eduardo Eizirik, Klaus Peter Koepfli, Warren E. Johnson, Agostinho Antunes, Thomas Sicheritz-Ponten, Shyam Gopalakrishnan, Greger Larson, Huanming Yang, Stephen J. O'Brien, Anders J. Hansen, Guojie Zhang, Tomas Marques-Bonet, M. Thomas P. Gilbert
Stephen O'Brien

The paired label assay for cell surface antigens, Stephen J. O'Brien, Charles W. Boone, Janice M. Simonson, Faye C. Austin
Stephen O'Brien

Whole-genome analysis of mycobacterium tuberculosis from patients with tuberculous spondylitis, Russia, Ekaterina Chernyaeva, Mikhail Rotkevich, Ksenia Krasheninnikova, Andrey Yurchenko, Anna Vyazovaya, Igor Mokrousov, Natalia Solovieva, Viacheslav Zhuravlev, Piotr Yablonsky, Stephen J. O’Brien
Stephen O'Brien

The genome-wide analysis of carcinoembryonic antigen signaling by colorectal cancer cells using RNA sequencing, Olga Bajenova, Anna Gorbunova, Igor Evsyukov, Michael Rayko, Svetlana Gapon, Ekaterina Bozhokina, Alexander Shishkin, Stephen J. O'Brien
Stephen O'Brien

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, Robert W. Murphy
Stephen O'Brien

African and Asian leopards are highly differentiated at the genomic level, Johanna L.A. Paijmans, Axel Barlow, Matthew S. Becker, James A. Cahill, Joerns Fickel, Daniel W.G. Förster, Katrin Gries, Stefanie Hartmann, Rasmus Worsøe Havmøller, Kirstin Henneberger, Christian Kern, Andrew C. Kitchener, Eline D. Lorenzen, Frieder Mayer, Stephen James O'Brien, Johanna von Seth, Mikkel-Holder S. Sinding, Göran Spong, Olga Uphyrkina, Bettina Wachter, Michael V. Westbury, Love Dalén, Jong Bhak, Andrea Manica, Michael Hofreiter
Stephen O'Brien

Analysis of Sediments from Port Everglades Inlet (PEI) for Microbiome Characterization, Jose V. Lopez, Catherine Bilodeau, Hyo Lee, Lauren E. Krausfeldt
Jose Lopez

Commentary: Unbiasing Genome-Based Analyses of Selection: An Example Using Iconic Shark Species, Nicholas J. Marra, Michael J. Stanhope, Nathaniel K. Jue, Vincent P. Richards, Stephen J. O'Brien, Agostinho Antunes, Mahmood S. Shivji
Mahmood Shivji

The Ups and Downs of Coral Reef Fishes: The Genetic Characteristics of a Formerly Severely Overfished but Currently Recovering Nassau Grouper Fish Spawning Aggregation, Andrea M. Bernard, Kevin Feldheim, Richard S. Nemeth, Elizabeth Kadison, Jeremiah Blondeau, Mahmood S. Shivji
Mahmood Shivji

Genetic Population Dynamics of the Critically Endangered Scalloped Hammerhead Shark (Sphyrna Lewini) in the Eastern Tropical Pacific Ocean, Sydney P. Harned
All HCAS Student Capstones, Theses, and Dissertations

Commentary: Unbiasing Genome-Based Analyses of Selection: An Example Using Iconic Shark Species, Nicholas J. Marra, Michael J. Stanhope, Nathaniel K. Jue, Vincent P. Richards, Stephen J. O'Brien, Agostinho Antunes, Mahmood S. Shivji
Biology Faculty Articles

Analysis of Sediments from Port Everglades Inlet (PEI) for Microbiome Characterization, Jose V. Lopez, Catherine Bilodeau, Hyo Lee, Lauren E. Krausfeldt
Lopez Laboratory: Genomics & Microbial Data

African and Asian leopards are highly differentiated at the genomic level, Johanna L.A. Paijmans, Axel Barlow, Matthew S. Becker, James A. Cahill, Joerns Fickel, Daniel W.G. Förster, Katrin Gries, Stefanie Hartmann, Rasmus Worsøe Havmøller, Kirstin Henneberger, Christian Kern, Andrew C. Kitchener, Eline D. Lorenzen, Frieder Mayer, Stephen James O'Brien, Johanna von Seth, Mikkel-Holder S. Sinding, Göran Spong, Olga Uphyrkina, Bettina Wachter, Michael V. Westbury, Love Dalén, Jong Bhak, Andrea Manica, Michael Hofreiter
Biology Faculty Articles

Genome-wide Association Study Identifies New Loci Associated With Risk Of HBV Infection And Disease Progression, Zheng Zeng, Liu Hankui, Xu Huifang, Lu Haiying, Yu Yanyan, Xu Xiaoyuan, Yu Min, Zhang Tao, Tian Xiulan, Xi Hongli, Guan Liping, Zhang Jianguo, Stephen James O'Brien
Stephen O'Brien

Ultracontinuous single haplotype genome assemblies for the domestic cat (Felis catus) and Asian leopard cat (Prionailurus bengalensis), Kevin R. Bredemeyer, Andrew J. Harris, Gang Li, Le Zhao, Nicole M. Foley, Melody E. Roelke-Parker, Stephen James O'Brien, Leslie A. Lyons, Wesley C. Warren, William J. Murphy
Stephen O'Brien

Karyotype Evolution in 10 Pinniped Species: Variability of Heterochromatin versus High Conservatism of Euchromatin as Revealed by Comparative Molecular Cytogenetics, Violetta R. Beklemisheva, Polina L. Perelman, Natalya A. Lemskaya, Anastasiya A. Proskuryakova, Natalya A. Serdyukova, Vladimir N. Burkanov, Maksim B. Gorshunov, Oliver A. Ryder, Mary Thompson, Gina Lento, Stephen James O'Brien, Alexander S. Graphodatsky
Stephen O'Brien

Dire wolves were the last of an ancient New World canid lineage, Angela Perri, Kieren J. Mitchell, Alice Mouton, Sandra Alvarez-Carretero, Ardern Hulme-Beaman, Jaimes Haile, Alexandra Jamieson, Julie Meachen, Audrey T. Lin, Blaine W. Schubert, Carly Ameen, Ekaterina E. Antipina, Pere Bover, Selina Brace, Alberto Carmagnini, Christian Carøe, Jose A. Samaniego Castruita, James C. Chatters, Keith Dobney, Mario dos Reis, Allowen Evin, Phillippe Gaubert, Shyam Gopalakrishnan, Graham Gower, Holly Heiniger, Kristofer M. Helgen, Josh Kapp, Pavel A. Kosintsev, Anna Linderholm, Andrew T. Ozga, Samantha Presslee, Alexander T. Salis, Nedda F. Saremi, Colin Shew, Katherine Skerry, Dmitry E. Taranenko, Mary Thompson, Mikhail V. Sablin, Yaroslav V. Kuzmin, Matthew J. Collins, Mikkel-Holger S. Sinding, M. Thomas P. Gilbert, Anne C. Stone, Beth Shapiro, Blaire Van Valkenburgh, Robert K. Wayne, Greger Larson, Alan Cooper, Laurent A. F. Frantz
Andrew Ozga

Evidence of historical isolation and genetic structuring among broadnose sevengill sharks (Notorynchus cepedianus) from the world’s major oceanic regions, Alicia C. J. Schmidt-Roach, Christine C. Bruels, Adam Barnett, Adam D. Miller, Craig D. H. Sherman, David A. Ebert, Sebastian Schmidt-Roach, Charlene da Silva, Christopher G. Wilke, Craig Thorburn, Jeffrey C. Mangel, Juan Manuel Ezcurra, Alejo Irigoyen, Andrés Javier Jaureguizar, Matias Braccini, Joanna Alfaro-Shigueto, Clinton Duffy, Mahmood Shivji
Mahmood Shivji

Match statistics for sequence‐based alleles in profiles from forensic pcr‐mps kits, Brian Young, Michael Marciano, Karin Crenshaw, George Duncan, Luigi Armogida, Bruce McCord
George Duncan

Evidence of historical isolation and genetic structuring among broadnose sevengill sharks (Notorynchus cepedianus) from the world’s major oceanic regions, Alicia C. J. Schmidt-Roach, Christine C. Bruels, Adam Barnett, Adam D. Miller, Craig D. H. Sherman, David A. Ebert, Sebastian Schmidt-Roach, Charlene da Silva, Christopher G. Wilke, Craig Thorburn, Jeffrey C. Mangel, Juan Manuel Ezcurra, Alejo Irigoyen, Andrés Javier Jaureguizar, Matias Braccini, Joanna Alfaro-Shigueto, Clinton Duffy, Mahmood Shivji
Biology Faculty Articles

Genome-wide Association Study Identifies New Loci Associated With Risk Of HBV Infection And Disease Progression, Zheng Zeng, Liu Hankui, Xu Huifang, Lu Haiying, Yu Yanyan, Xu Xiaoyuan, Yu Min, Zhang Tao, Tian Xiulan, Xi Hongli, Guan Liping, Zhang Jianguo, Stephen James O'Brien
Biology Faculty Articles

Dire wolves were the last of an ancient New World canid lineage, Angela Perri, Kieren J. Mitchell, Alice Mouton, Sandra Alvarez-Carretero, Ardern Hulme-Beaman, Jaimes Haile, Alexandra Jamieson, Julie Meachen, Audrey T. Lin, Blaine W. Schubert, Carly Ameen, Ekaterina E. Antipina, Pere Bover, Selina Brace, Alberto Carmagnini, Christian Carøe, Jose A. Samaniego Castruita, James C. Chatters, Keith Dobney, Mario dos Reis, Allowen Evin, Phillippe Gaubert, Shyam Gopalakrishnan, Graham Gower, Holly Heiniger, Kristofer M. Helgen, Josh Kapp, Pavel A. Kosintsev, Anna Linderholm, Andrew T. Ozga, Samantha Presslee, Alexander T. Salis, Nedda F. Saremi, Colin Shew, Katherine Skerry, Dmitry E. Taranenko, Mary Thompson, Mikhail V. Sablin, Yaroslav V. Kuzmin, Matthew J. Collins, Mikkel-Holger S. Sinding, M. Thomas P. Gilbert, Anne C. Stone, Beth Shapiro, Blaire Van Valkenburgh, Robert K. Wayne, Greger Larson, Alan Cooper, Laurent A. F. Frantz
Biology Faculty Articles

Investigation of Sulfur Cycling in Marine Sponge Cinachyrella Spp. from a South Florida Reef, Shelby K. Cain
All HCAS Student Capstones, Theses, and Dissertations

Karyotype Evolution in 10 Pinniped Species: Variability of Heterochromatin versus High Conservatism of Euchromatin as Revealed by Comparative Molecular Cytogenetics, Violetta R. Beklemisheva, Polina L. Perelman, Natalya A. Lemskaya, Anastasiya A. Proskuryakova, Natalya A. Serdyukova, Vladimir N. Burkanov, Maksim B. Gorshunov, Oliver A. Ryder, Mary Thompson, Gina Lento, Stephen James O'Brien, Alexander S. Graphodatsky
Biology Faculty Articles

Match statistics for sequence‐based alleles in profiles from forensic pcr‐mps kits, Brian Young, Michael Marciano, Karin Crenshaw, George Duncan, Luigi Armogida, Bruce McCord
Biology Faculty Articles

Ultracontinuous single haplotype genome assemblies for the domestic cat (Felis catus) and Asian leopard cat (Prionailurus bengalensis), Kevin R. Bredemeyer, Andrew J. Harris, Gang Li, Le Zhao, Nicole M. Foley, Melody E. Roelke-Parker, Stephen James O'Brien, Leslie A. Lyons, Wesley C. Warren, William J. Murphy
Biology Faculty Articles

Genomic Adaptations and Evolutionary History of the Extinct Scimitar-Toothed Cat, Homotherium latidens, Ross Barnett, Michael V. Westbury, Marcela Sandoval-Velasco, Filipe Garrett Vieira, Sungwon Jeon, Grant Zazula, Michael D. Martin, Simon Y.W. Ho, Niklas Mather, Shyam Gopalakrishnan, Jazmín Ramos-Madrigal, Marc de Manuel, M. Lisandra Zepeda-Mendoza, Agostinho Antunes, Aldo Carmona Baez, Binia De Cahsan, Greger Larson, Stephen J. O'Brien, Eduardo Eizirik, Warren E. Johnson, Klaus Peter Koepfli, Andreas Wilting, Jörns Fickel, Love Dalén, Eline D. Lorenzen, Tomas Marques-Bonet, Anders J. Hansen, Guojie Zhang, Jong Bhak
Biology Faculty Articles

New Gene Variants Associated with the Risk of Chronic HBV Infection, Mengjie Fan, Jing Wang, Sa Wang, Tengyan Li, Hong Pan, Hankui Liu, Huifang Xu, Daria V. Zhernakova, Stephen J. O’Brien, Zhenru Feng, Le Chang, Erhei Dai, Jianhua Lu, Hongli Xi, Yanyan Yu, Jianguo Zhang, Binbin Wang, Zheng Zeng
Biology Faculty Articles

Linking Crude Oil and Dispersant Effects To Gene Expression of Marine Sponge Cinachyrella, Yvain Desplat
All HCAS Student Capstones, Theses, and Dissertations

A Shark Conservationists Toolbox: Current DNA Methods and Techniques Aiding in the Conservation of Sharks, Arianna N. Nixon
All HCAS Student Capstones, Theses, and Dissertations

HalSynteny: A fast, easy-to-use conserved synteny block construction method for multiple whole-genome alignments, Ksenia Krasheninnikova, Mark Diekhans, Joel Armstrong, Aleksei Dievskii, Benedict Paten, Stephen O'Brien
Biology Faculty Articles

Urine as a High-Quality Source of Host Genomic DNA from Wild Populations, Andrew T. Ozga, Timothy H. Webster, Ian C. Gilby, Melissa A. Wilson, Rebecca Nockerts, Michael L. Wilson, Anne Pusey, Yingying Li, Beatrice H. Hahn, Anne C. Stone
Andrew Ozga

The evolutionary history of extinct and living lions, Marc de Manuel, Ross Barnett, Marcela Sandoval-Velasco, Nobuyuki Yamaguchi, Filipe Garrett Vieira, M. Lisandra Zepeda Mendoza, Shiping Liu, Michael D. Martin, Mikkel Holger S. Sinding, Sarah S.T. Mak, Christian Carøe, Shanlin Liu, Chunxue Guo, Jiao Zheng, Grant Zazula, Gennady Baryshnikov, Eduardo Eizirik, Klaus Peter Koepfli, Warren E. Johnson, Agostinho Antunes, Thomas Sicheritz-Ponten, Shyam Gopalakrishnan, Greger Larson, Huanming Yang, Stephen J. O'Brien, Anders J. Hansen, Guojie Zhang, Tomas Marques-Bonet, M. Thomas P. Gilbert
Biology Faculty Articles

Atlas of Mammalian Chromosomes, Stephen James O'Brien, Alexander S. Graphodatsky, Polina L. Perelman
Biology Faculty Books and Book Chapters

GADMA: Genetic algorithm for inferring demographic history of multiple populations from allele frequency spectrum data, Ekaterina Noskova, Vladimir Ulyantsev, Klaus Peter Koepfli, Stephen J. O'brien, Pavel Dobrynin
Biology Faculty Articles

Urine as a High-Quality Source of Host Genomic DNA from Wild Populations, Andrew T. Ozga, Timothy H. Webster, Ian C. Gilby, Melissa A. Wilson, Rebecca Nockerts, Michael L. Wilson, Anne Pusey, Yingying Li, Beatrice H. Hahn, Anne C. Stone
Biology Faculty Articles

The Impact of MDM2 inhibition on the Expression Levels of XIAP on Various Cancer Cell lines, Christopher M. Garcia
Health Professions Division REACH Day

Genome-wide sequence analyses of ethnic populations across Russia, Daria V. Zhernakova, Vladimir Brukhin, Sergey Malov, Taras K. Oleksyk, Klaus Peter Koepfli, Anna Zhuk, Pavel Dobrynin, Sergei Kliver, Nikolay Cherkasov, Gaik Tamazian, Mikhail Rotkevich, Ksenia Krasheninnikova, Igor Evsyukov, Sviatoslav Sidorov, Anna Gorbunova, Ekaterina Chernyaeva, Andrey Shevchenko, Sofia Kolchanova, Alexei Komissarov, Serguei Simonov, Alexey Antonik, Anton Logachev, Dmitrii E. Polev, Olga A. Pavlova, Andrey S. Glotov, Vladimir Ulantsev, Ekaterina Noskova, Tatyana K. Davydova, Tatyana M. Sivtseva
Biology Faculty Articles

Puma genomes from North and South America provide insights into the genomic consequences of inbreeding, Nedda F. Saremi, Megan A. Supple, Ashley Byrne, James A. Cahill, Luiz Lehmann Coutinho, Love Dalén, Henrique V. Figueiró, Warren E. Johnson, Heather J. Milne, Stephen J. O’Brien, Brendan O’Connell, David P. Onorato, Seth P.D. Riley, Jeff A. Sikich, Daniel R. Stahler, Priscilla Marqui Schmidt Villela, Christopher Vollmers, Robert K. Wayne, Eduardo Eizirik, Russell B. Corbett-Detig, Richard E. Green, Christopher C. Wilmers, Beth Shapiro
Biology Faculty Articles

Author Correction: Puma genomes from North and South America provide insights into the genomic consequences of inbreeding (Nature Communications, (2019), 10, 1, (4769), 10.1038/s41467-019-12741-1), Nedda F. Saremi, Megan A. Supple, Ashley Byrne, James A. Cahill, Luiz Lehmann Coutinho, Love Dalén, Henrique V. Figueiró, Warren E. Johnson, Heather J. Milne, Stephen J. O’Brien, Brendan O’Connell, David P. Onorato, Seth P.D. Riley, Jeff A. Sikich, Daniel R. Stahler, Priscilla Marqui Schmidt Villela, Christopher Vollmers, Robert K. Wayne, Eduardo Eizirik, Russell B. Corbett-Detig, Richard E. Green, Christopher C. Wilmers, Beth Shapiro
Biology Faculty Articles

Characterization of Bacterial Communities in Biscayne Bay Through Genomic Analysis, Eric Fortman
HCNSO Student Theses and Dissertations

Characterization of the microbiome and bioluminescent symbionts across life stages of ceratioid anglerfishes of the gulf of mexico, Lindsay L. Freed, Cole Easson, Lydia Baker, D. Fenolio, Tracey Sutton, Yasmin Khan, Patricia Blackwelder, Tory Hendry, Jose Lopez
Jose Lopez

Precision nomenclature for the new genomics, Harris A. Lewin, Jennifer A. Marshall Graves, Oliver A. Ryder, Alexander S. Graphodatsky, Stephen James O'Brien
Stephen O'Brien

Coral Crisis: Issues & Response Section 3, Richard E. Dodge, Stephen James O'Brien
Stephen O'Brien

Recent History of Gombe Chimpanzees through Ancient DNA Analysis, Andrew T. Ozga, Timothy H. Webster, Ian C. Gilby, Rebecca Nockerts, Michael A. Wilson, Anne Pusey, Anne C. Stone
Andrew Ozga

Exploring Identity through Genetic and Genealogical Research, Emily Schmitt Lavin, James E. Doan
Emily F Schmitt Lavin

Coral Crisis: Issues & Response Section 3, Richard E. Dodge, Stephen James O'Brien
Richard Dodge

Characterization of the microbiome and bioluminescent symbionts across life stages of ceratioid anglerfishes of the gulf of mexico, Lindsay L. Freed, Cole Easson, Lydia Baker, D. Fenolio, Tracey Sutton, Yasmin Khan, Patricia Blackwelder, Tory Hendry, Jose Lopez
Tracey Sutton

Games Bacteria Play: Fighting Antibiotic Resistance with Game Theory, Louis R. Nemzer
Louis R Nemzer

Shannon Information Entropy in the Genetic Code, Louis R. Nemzer
Louis R Nemzer

Coral Crisis: Issues & Response Section 3, Richard E. Dodge, Stephen James O'Brien
Corals in Crisis 2019

Games Bacteria Play: Fighting Antibiotic Resistance with Game Theory, Louis R. Nemzer
Chemistry and Physics Faculty Proceedings, Presentations, Speeches, Lectures

Characterization of the microbiome and bioluminescent symbionts across life stages of ceratioid anglerfishes of the gulf of mexico, Lindsay L. Freed, Cole Easson, Lydia Baker, D. Fenolio, Tracey Sutton, Yasmin Khan, Patricia Blackwelder, Tory Hendry, Jose Lopez
Patricia Blackwelder

Inferred Function and Dynamics of Microbial Communities from the Northern Gulf of Mexico, Deepesh Tourani
HCNSO Student Theses and Dissertations

Characterization of the microbiome and bioluminescent symbionts across life stages of ceratioid anglerfishes of the gulf of mexico, Lindsay L. Freed, Cole Easson, Lydia Baker, D. Fenolio, Tracey Sutton, Yasmin Khan, Patricia Blackwelder, Tory Hendry, Jose Lopez
Biology Faculty Articles

Precision nomenclature for the new genomics, Harris A. Lewin, Jennifer A. Marshall Graves, Oliver A. Ryder, Alexander S. Graphodatsky, Stephen James O'Brien
Biology Faculty Articles

White Shark Genome Reveals Ancient Elasmobranch Adaptations Associated with Wound Healing and the Maintenance of Genome Stability, Nicholas J. Marra, Michael J. Stanhope, Nathaniel K. Jue, Minghui Wang, Qi Sun, Paulina D. Pavinski Bitar, Vincent P. Richards, Aleksey S. Komissarov, Mike Rayko, Sergey Kliver, Bryce J. Stanhope, Chuck Winkler, Stephen James O'Brien, Agostinho Antunes, Salvador Jorgensen, Mahmood S. Shivji
Stephen O'Brien

White Shark Genome Reveals Ancient Elasmobranch Adaptations Associated with Wound Healing and the Maintenance of Genome Stability, Nicholas J. Marra, Michael J. Stanhope, Nathaniel K. Jue, Minghui Wang, Qi Sun, Paulina D. Pavinski Bitar, Vincent P. Richards, Aleksey S. Komissarov, Mike Rayko, Sergey Kliver, Bryce J. Stanhope, Chuck Winkler, Stephen James O'Brien, Agostinho Antunes, Salvador Jorgensen, Mahmood S. Shivji
Mahmood Shivji

Evolution of gene regulation in ruminants differs between evolutionary breakpoint regions and homologous synteny blocks, Marta Farré, Jaebum Kim, Anastasia A. Proskuryakova, Yang Zhang, Anastasia I. Kulemzina, Qiye Li, Yang Zhou, Yingqi Xiong, Jennifer L. Johnson, Polina L. Perelman, Warren E. Johnson, Wesley C. Warren, Anna V. Kukekova, Guojie Zhang, Stephen J. O’Brien, Oliver A. Ryder, Alexander S. Graphodatsky, Jian Ma, Harris A. Lewin, Denis M. Larkin
Biology Faculty Articles

White Shark Genome Reveals Ancient Elasmobranch Adaptations Associated with Wound Healing and the Maintenance of Genome Stability, Nicholas J. Marra, Michael J. Stanhope, Nathaniel K. Jue, Minghui Wang, Qi Sun, Paulina D. Pavinski Bitar, Vincent P. Richards, Aleksey S. Komissarov, Mike Rayko, Sergey Kliver, Bryce J. Stanhope, Chuck Winkler, Stephen James O'Brien, Agostinho Antunes, Salvador Jorgensen, Mahmood S. Shivji
Biology Faculty Articles

DNA sequences of mitochondrial Cytochrome c oxidase I (COI) genes from deep sea fishes collected during DEEPEND cruise DP05 from 2017-05-01 to 2017-05-11, Kimberly A. Finnegan, Andrea Bernard, M. Weber, Ron Eytan, Mahmood S. Shivji
Mahmood Shivji

DNA sequences of mitochondrial Cytochrome c oxidase I (COI) genes from deep sea fishes collected during DEEPEND cruise DP05 from 2017-05-01 to 2017-05-11, Kimberly A. Finnegan, Andrea Bernard, M. Weber, Ron Eytan, Mahmood S. Shivji
Andrea Bernard

Ripor2 is Involved in Auditory Hair Cell Stereociliary Bundle Structure and Orientation, Oscar Diaz-Horta, Clemer Abad, Filiz Basak Cengiz, Guney Bademci, Patricia Blackwelder, Katherina Walz, Mustafa Tekin
Patricia Blackwelder

Chapter 8: Ancient DNA in the Study of Ancient Disease, Anne C. Stone, Andrew T. Ozga
Biology Faculty Books and Book Chapters

Multiple Facets of Marine Invertebrate Conservation Genomics, Jose V. Lopez, Bishoy Kamel, Monica Medina, Timothy Collins, Iliana B. Baums
Biology Faculty Articles

Integrated analysis of competing endogenous RNA network revealing potential prognostic biomarkers of hepatocellular carcinoma, Xiwen Liao, Xiangkun Wang, Ketuan Huang, Chuangye Han, Jianlong Deng, Tingdong Yu, Chengkun Yang, Rui Huang, Xiaoguang Liu, Long Yu, Guangzhi Zhu, Hao Su, Wei Qin, Xianmin Zeng, Bowen Han, Quanfa Han, Zhengqian Liu, Xin Zhou, Yizhen Gong, Zhengtao Liu, Jianlv Huang, Cheryl A. Winkler, Stephen J. O'Brien, Xinping Ye, Tao Peng
Biology Faculty Articles

Whole Genome Sequencing and Re-sequencing of the Sable Antelope (Hippotragus niger): A resource for monitoring diversity in ex situ and in situ populations, Klaus Peter Koepfli, Gaik Tamazian, David Wildt, Pavel Dobrynin, Changhoon Kim, Paul B. Frandsen, Raquel Godinho, Andrey A. Yurchenko, Aleksey Komissarov, Ksenia Krasheninnikova, Sergei Kliver, Sofia Kolchanova, Margarida Gonçalves, Miguel Carneiro, Pedro Vaz Pinto, Nuno Ferrand, Jesús E. Maldonado, Gina M. Ferrie, Leona Chemnick, Oliver A. Ryder, Warren E. Johnson, Pierre Comizzoli, Stephen J. O'Brien, Budhan S. Pukazhenthi
Biology Faculty Articles

Recent History of Gombe Chimpanzees through Ancient DNA Analysis, Andrew T. Ozga, Timothy H. Webster, Ian C. Gilby, Rebecca Nockerts, Michael A. Wilson, Anne Pusey, Anne C. Stone
Biology Faculty Proceedings, Presentations, Speeches, Lectures

Multiple Facets of Marine Invertebrate Conservation Genomics, Jose V. Lopez, Bishoy Kamel, Monica Medina, Timothy Collins, Iliana B. Baums
Jose Lopez

X Chromosome Evolution in Cetartiodactyla, Anastasiya A. Proskuryakova, Anastasia I. Kulemzina, Polina L. Perelman, Alexey I. Makunin, Natalya A. Lemskaya, Violetta R. Beklemisheva, Denis M. Larkin, Marta Farre, Anna V. Kukekova, Oliver A. Ryder, Stephen James O'Brien, Alexander S. Graphodatsky
Stephen O'Brien

Pinniped Karyotype Evolution Substantiated by Comparative Chromosome Painting of 10 Pinniped Species (Pinnipedia, Carnivora), Violetta R. Beklemisheva, Polina L. Perelman, Natalya A. Lemskaya, Anastasia I. Kulemzina, Anastasiya A. Proskuryakova, Vladimir N. Burkanov, Stephen James O'Brien, Alexander S. Graphodatsky
Stephen O'Brien

A Moving Landscape for Comparative Genomics in Mammals, Stephen James O'Brien, Gaik Tamazian, Aleksey Komissarov, Pavel Dobrynin, Ksenia Krasheninnikova, Sergey Kliver, Nikolay Cherkasov, Klaus-Peter Koepfli
Stephen O'Brien

Analytical “Bake-Off” of Whole Genome Sequencing Quality for the Genome Russia Project Using a Small Cohort for Autoimmune Hepatitis, Daria V. Zhernakova, Sergei Kliver, Nikolay Cherkasov, Gaik Tamazian, Mikhail Rotkevich, Ksenia Krasheninnikova, Igor Evsyukov, Sviatoslav Sidorov, Pavel Dobrynin, Andrey A. Yurchenko, Valentin Shimansky, Irina V. Shcherbakova, Andrey S. Glotov, David L. Valle, Minzhong Tang, Emilia Shin, Kathleen B. Schwarz, Stephen James O'Brien
Stephen O'Brien

Genetic Connectivity and Phylogeography of the Night Shark (Carcharhinus signatus) in the Western Atlantic Ocean: Implications for Conservation Management, Rodrigo R. Domingues, Christine C. Bruels, Otto B. F. Gadig, Demian D. Chapman, Alexandre W. S. Hilsdorf, Mahmood S. Shivji
Mahmood Shivji

Deep Mitochondrial Lineage Divergence Among Populations of the Southern Stingray (Hypanus americanus (Hildebrand & Schroeder, 1928)) Throughout the Southeastern United States and Caribbean, Vincent P. Richards, Melissa B. DeBiasse, Mahmood S. Shivji
Mahmood Shivji

Internal validation of STRmix™ – A multi laboratory response to PCAST, Jo-Anne Bright, Rebecca Richards, Maarten Kruijver, Hannah Kelly, Catherine McGovern, Alan Magee, Andrew McWhorter, Anne Cieko, Brian Peck, Chase Baumgartner, Christina Buettner, Scott McWilliams, Claire McKenna, Colin Gallacher, Ben Mallinder, Darren Wright, Deven Johnson, Dorothy Catella, Eugene Lien, Craig O'Connor, George Duncan, Jason Bundy, Jillian Echard, John Lowe, Joshua Stewart, Kathleen Corrado, Sheila Gentile, Marla Kaplan, Michelle Hassler, Naomi McDonald, Paul Hulme, Rachel H. Oefelein, Shawn Montpetit, Melissa Strong, Sarah Noel, Simon Malsom, Steven Myers, Susan Welti, Tamyra Moretti, Teresa McMahon, Thomas Grill, Tim Kalafut, Mary Margaret Greer-Ritzheimer, Vickie Beamer, Duncan A. Taylor, John S. Buckleton
George Duncan

Genome-Wide Evolutionary Analysis of Natural History and Adaptation in the World’s Tigers, Yue-Chen Liu, Xin Sun, Carlos Driscoll, Dale G. Miquelle, Xiao Xu, Paolo Martelli, Olga Uphyrkina, James L. D. Smith, Stephen James O'Brien, Shu-Jin Luo
Biology Faculty Articles

Genome-Wide Evolutionary Analysis of Natural History and Adaptation in the World's Tigers, Yue Chen Liu, Xin Sun, Carlos Driscoll, Dale G. Miquelle, Xiao Xu, Paolo Martelli, Olga Uphyrkina, James L.D. Smith, Stephen J. O'Brien, Shu Jin Luo
Biology Faculty Articles

Deep Mitochondrial Lineage Divergence Among Populations of the Southern Stingray (Hypanus americanus (Hildebrand & Schroeder, 1928)) Throughout the Southeastern United States and Caribbean, Vincent P. Richards, Melissa B. DeBiasse, Mahmood S. Shivji
Biology Faculty Articles

Ripor2 is Involved in Auditory Hair Cell Stereociliary Bundle Structure and Orientation, Oscar Diaz-Horta, Clemer Abad, Filiz Basak Cengiz, Guney Bademci, Patricia Blackwelder, Katherina Walz, Mustafa Tekin
Marine & Environmental Sciences Faculty Articles

Recent Adaptation in Kauai's Feral Gallus gallus, Eben Gering
Biology Faculty Proceedings, Presentations, Speeches, Lectures

Red fox genome assembly identifies genomic regions associated with tame and aggressive behaviours, Anna V. Kukekova, Jennifer L. Johnson, Xueyan Xiang, Shaohong Feng, Shiping Liu, Halie M. Rando, Anastasiya V. Kharlamova, Yury Herbeck, Natalya A. Serdyukova, Zijun Xiong, Violetta Beklemischeva, Klaus Peter Koepfli, Rimma G. Gulevich, Anastasiya V. Vladimirova, Jessica P. Hekman, Polina L. Perelman, Aleksander S. Graphodatsky, Stephen J. O’Brien, Xu Wang, Andrew G. Clark, Gregory M. Acland, Lyudmila N. Trut, Guojie Zhang
Biology Faculty Articles

Erratum to: Red fox genome assembly identifies genomic regions associated with tame and aggressive behaviours (Nature Ecology & Evolution, (2018), 2, 9, (1479-1491), 10.1038/s41559-018-0611-6), Anna V. Kukekova, Jennifer L. Johnson, Xueyan Xiang, Shaohong Feng, Shiping Liu, Halie M. Rando, Anastasiya V. Kharlamova, Yury Herbeck, Natalya A. Serdyukova, Zijun Xiong, Violetta Beklemischeva, Klaus Peter Koepfli, Rimma G. Gulevich, Anastasiya V. Vladimirova, Jessica P. Hekman, Polina L. Perelman, Aleksander S. Graphodatsky, Stephen J. O’Brien, Xu Wang, Andrew G. Clark, Gregory M. Acland, Lyudmila N. Trut, Guojie Zhang
Biology Faculty Articles

Genetic Connectivity and Phylogeography of the Night Shark (Carcharhinus signatus) in the Western Atlantic Ocean: Implications for Conservation Management, Rodrigo R. Domingues, Christine C. Bruels, Otto B. F. Gadig, Demian D. Chapman, Alexandre W. S. Hilsdorf, Mahmood S. Shivji
Biology Faculty Articles

Identified OAS3 gene variants associated with coexistence of HBsAg and anti-HBs in chronic HBV infection, S. Wang, J. Wang, M. J. Fan, T. Y. Li, H. Pan, X. Wang, H. K. Liu, Q. F. Lin, J. G. Zhang, L. P. Guan, D. V. Zhernakova, S. J. O’Brien, Z. R. Feng, L. Chang, E. H. Dai, J. H. Lu, H. L. Xi, Z. Zeng, Y. Y. Yu, B. B. Wang
Biology Faculty Articles

Microbial Ecology of South Florida Surface Waters: Examining the Potential for Anthropogenic Influences, Chase P. Donnelly
HCNSO Student Theses and Dissertations

Contingencies and Parallels in the Rapid Evolution of Feral Populations, Eben Gering, M. Johnsson, Dominic Wright, A. Steep, H. Cheng, Thomas Getty
Biology Faculty Proceedings, Presentations, Speeches, Lectures

Rapid Evolution of Feral Fowl from Bermuda and Kauai, Eben Gering
Biology Faculty Proceedings, Presentations, Speeches, Lectures

DNA sequences of the mitochondrial Cytochrome c oxidase I (COI) genes from deep sea fishes, cruises DP03 and DP04 from May 2016 - August 2016, Max Weber, Kimberly A. Finnegan, Andrea Bernard, Ron Eytan, Mahmood S. Shivji
Andrea Bernard

Comparison of Porifera Bacterial Symbiont Community Profiles Based on Host Species and Source Template, Celeste Banfill, Jose Lopez
Jose Lopez

Analytical “Bake-Off” of Whole Genome Sequencing Quality for the Genome Russia Project Using a Small Cohort for Autoimmune Hepatitis, Daria V. Zhernakova, Sergei Kliver, Nikolay Cherkasov, Gaik Tamazian, Mikhail Rotkevich, Ksenia Krasheninnikova, Igor Evsyukov, Sviatoslav Sidorov, Pavel Dobrynin, Andrey A. Yurchenko, Valentin Shimansky, Irina V. Shcherbakova, Andrey S. Glotov, David L. Valle, Minzhong Tang, Emilia Shin, Kathleen B. Schwarz, Stephen James O'Brien
Biology Faculty Articles

Fine grained compositional analysis of Port Everglades Inlet microbiome using high throughput DNA sequencing, Lauren M. O'Connell, Song Gao, Donald S. McCorquodale Jr., Jay M. Fleisher, Jose Lopez
Jose Lopez

Innovative assembly strategy contributes to understanding the evolution and conservation genetics of the endangered Solenodon paradoxus from the island of Hispaniola, Kirill Grigorev, Sergey Kliver, Pavel Dobrynin, Aleksey Komissarov, Walter Wolfsberger, Ksenia Krasheninnikova, Yashira M. Afanador-Hernández, Adam L. Brandt, Liz A. Paulino, Rosanna Carreras, Luis E. Rodríguez, Adrell Núñez, Jessica R. Brandt, Filipe Silva, J. David Hernández-Martich, Audrey J. Majeske, Agostinho Antunes, Alfred L. Roca, Stephen J. O'Brien, Juan Carlos Martínez-Cruzado, Taras K. Oleksyk
Biology Faculty Articles

Characterization of the Bioluminescent Symbionts from Ceratioids Collected in the Gulf of Mexico, Lindsay L. Freed
HCNSO Student Theses and Dissertations

Differential preservation of endogenous human and microbial DNA in dental calculus and dentin, Allison E. Mann, Susanna Sabin, Kirsten Ziesemer, Ashild J. Vagene, Hannes Schroeder, Andrew T. Ozga, Krithivasan Sankaranarayanan, Courtney A. Hofman, James A. Fellows Yates, Domingo C. Salazar-Garcia, Bruno Frohlich, Mark Aldenderfer, Menno Hoogland, Christopher Read, George R. Milner, Anne C. Stone, Cecil M. Lewis Jr., Johannes Krause, Corinne Hofman, Kirsten I. Bos, Christina Warinner
Biology Faculty Articles

Internal validation of STRmix™ – A multi laboratory response to PCAST, Jo-Anne Bright, Rebecca Richards, Maarten Kruijver, Hannah Kelly, Catherine McGovern, Alan Magee, Andrew McWhorter, Anne Cieko, Brian Peck, Chase Baumgartner, Christina Buettner, Scott McWilliams, Claire McKenna, Colin Gallacher, Ben Mallinder, Darren Wright, Deven Johnson, Dorothy Catella, Eugene Lien, Craig O'Connor, George Duncan, Jason Bundy, Jillian Echard, John Lowe, Joshua Stewart, Kathleen Corrado, Sheila Gentile, Marla Kaplan, Michelle Hassler, Naomi McDonald, Paul Hulme, Rachel H. Oefelein, Shawn Montpetit, Melissa Strong, Sarah Noel, Simon Malsom, Steven Myers, Susan Welti, Tamyra Moretti, Teresa McMahon, Thomas Grill, Tim Kalafut, Mary Margaret Greer-Ritzheimer, Vickie Beamer, Duncan A. Taylor, John S. Buckleton
Biology Faculty Articles

Life table estimator revisited, Sergey V. Malov, Stephen J. O’Brien
Biology Faculty Articles

Fine grained compositional analysis of Port Everglades Inlet microbiome using high throughput DNA sequencing, Lauren M. O'Connell, Song Gao, Donald S. McCorquodale Jr., Jay M. Fleisher, Jose Lopez
Marine & Environmental Sciences Faculty Articles

Serology and DNA Typing, George Duncan, Martin L. Tracey
George Duncan

Techniques of Data Analysis, George Duncan, Martin L. Tracey, Eric Stauffer
George Duncan

Tissue-Specific DNA Methylation Patterns in Forensic Samples Detected by Pyrosequencing®, Joana Antunes, Kuppareddi Balamurugan, George Duncan, Bruce McCord
George Duncan

The Interplay of TLR9, Myeloid Cells, and A20 in Periodontal Inflammation, Katie E. Crump, Jennifer C. Oakley, Xia Xia-Juan, Theandra C. Madu, Swathi Devaki, Erin C. Mooney, Sinem E. Sahingur
Katie Crump

Impeding the rhinoceros surge of slaughter in southern Africa with DNA genetic forensic matching, Stephen James O'Brien, Cindy K. Harper, Anette Ludwig, Amy Clarke, Kagiso Makgopela, Andrey A. Yurchenko, Alan Guthrie, Pavel Dobrynin, Gaik Tamazian, Richard Emsli, Marile van Heerden, Markus Hofmeyr, Roderick Potter, Johannes Roets, Piet Beytell, Moses Otiende, Linus Kariuki, Raoul du Toit, Natasha Anderson, Joseph Okori, Alexey Antonik, Klaus-Peter Koepfli, Peter Thompson
Stephen O'Brien

The Complete Phylogeny of Pangolins: Scaling Up Resources for the Molecular Tracing of the Most Trafficked Mammals on Earth, Philippe Gaubert, Agostinho Antunes, Hao Meng, Lin Miao, Stéphane Peigné, Fabienne Justy, Flobert Njiokou, Sylvain Dufour, Emmanuel Danquah, Jayanthi Alahakoon, Erik Verheyen, William T. Stanley, Stephen J. O'Brien, Warren E. Johnson, Shu Jin Luo
Biology Faculty Articles

Marker of proliferation Ki-67 expression is associated with transforming growth factor beta 1 and can predict the prognosis of patients with hepatic B virus-related hepatocellular carcinoma, Chengkun Yang, Hao Su, Xiwen Liao, Chuangye Han, Tingdong Yu, Guangzhi Zhu, Xiangkun Wang, Cheryl Ann Winkler, Stephen J. O’Brien, Tao Peng
Biology Faculty Articles

Whole-genome analysis of mycobacterium tuberculosis from patients with tuberculous spondylitis, Russia, Ekaterina Chernyaeva, Mikhail Rotkevich, Ksenia Krasheninnikova, Andrey Yurchenko, Anna Vyazovaya, Igor Mokrousov, Natalia Solovieva, Viacheslav Zhuravlev, Piotr Yablonsky, Stephen J. O’Brien
Biology Faculty Articles

New high copy tandem repeat in the content of the chicken W chromosome, Aleksey S. Komissarov, Svetlana A. Galkina, Elena I. Koshel, Maria M. Kulak, Aleksander G. Dyomin, Stephen J. O’Brien, Elena R. Gaginskaya, Alsu F. Saifitdinova
Biology Faculty Articles

Microbiome and bacterioplankton rRNA gene sequence data collected from Gulf of Mexico seawater samples, cruises DP03 and DP04 from April - August 2016, Cole Easson, Lindsey Freed
DEEPEND Datasets

Shannon Information Entropy in the Genetic Code, Louis R. Nemzer
Chemistry and Physics Faculty Proceedings, Presentations, Speeches, Lectures

Shannon Information Entropy in the Genetic Code, Louis R. Nemzer
Louis R Nemzer

Adaptive genomic evolution of opsins reveals that early mammals flourished in nocturnal environments, Rui Borges, Warren E. Johnson, Stephen J. O'Brien, Cidália Gomes, Christopher P. Heesy, Agostinho Antunes
Biology Faculty Articles

DNA sequences of the mitochondrial Cytochrome c oxidase I (COI) genes from deep sea fishes, cruises DP03 and DP04 from May 2016 - August 2016, Max Weber, Kimberly A. Finnegan, Andrea Bernard, Ron Eytan, Mahmood S. Shivji
DEEPEND Datasets

X Chromosome Evolution in Cetartiodactyla, Anastasiya A. Proskuryakova, Anastasia I. Kulemzina, Polina L. Perelman, Alexey I. Makunin, Natalya A. Lemskaya, Violetta R. Beklemisheva, Denis M. Larkin, Marta Farre, Anna V. Kukekova, Oliver A. Ryder, Stephen James O'Brien, Alexander S. Graphodatsky
Biology Faculty Proceedings, Presentations, Speeches, Lectures

Pinniped Karyotype Evolution Substantiated by Comparative Chromosome Painting of 10 Pinniped Species (Pinnipedia, Carnivora), Violetta R. Beklemisheva, Polina L. Perelman, Natalya A. Lemskaya, Anastasia I. Kulemzina, Anastasiya A. Proskuryakova, Vladimir N. Burkanov, Stephen James O'Brien, Alexander S. Graphodatsky
Biology Faculty Proceedings, Presentations, Speeches, Lectures

A Moving Landscape for Comparative Genomics in Mammals, Stephen James O'Brien, Gaik Tamazian, Aleksey Komissarov, Pavel Dobrynin, Ksenia Krasheninnikova, Sergey Kliver, Nikolay Cherkasov, Klaus-Peter Koepfli
Biology Faculty Proceedings, Presentations, Speeches, Lectures

Foreword, Stephen J. O'Brien
Biology Faculty Articles

DNA sequences of mitochondrial Cytochrome c oxidase I (COI) genes from deep sea fishes collected during DEEPEND cruise DP05 from 2017-05-01 to 2017-05-11, Kimberly A. Finnegan, Andrea Bernard, M. Weber, Ron Eytan, Mahmood S. Shivji
DEEPEND Datasets

Comparison of Porifera Bacterial Symbiont Community Profiles Based on Host Species and Source Template, Celeste Banfill, Jose Lopez
Lopez Laboratory: Genomics & Microbial Data

16S and COI barcoding sequences for crustaceans collected from the northern Gulf of Mexico for cruises DP02, DP03, and DP04 from August 2015 - August 2016, Heather Bracken-Grissom Dr.
DEEPEND Datasets

Mitochondrial and nuclear sequences for phylogenetic analysis of three cephalopod species, northern Gulf of Mexico, May 2015 to May 2017, Amanda Sosnowki
DEEPEND Datasets

Two Tickets to Paradise: Genome Variation in the Feral Fowl (Gallus gallus) of Bermuda and Kauai, Eben Gering
Biology Faculty Proceedings, Presentations, Speeches, Lectures

Mitochondrial DNA sequence alignments and raw fastq files for the population genetic analysis of the deep sea isopod, Bathynomus giganteus, Laura Timm, Barbara Moahamed
DEEPEND Datasets

Impeding the rhinoceros surge of slaughter in southern Africa with DNA genetic forensic matching, Stephen James O'Brien, Cindy K. Harper, Anette Ludwig, Amy Clarke, Kagiso Makgopela, Andrey A. Yurchenko, Alan Guthrie, Pavel Dobrynin, Gaik Tamazian, Richard Emsli, Marile van Heerden, Markus Hofmeyr, Roderick Potter, Johannes Roets, Piet Beytell, Moses Otiende, Linus Kariuki, Raoul du Toit, Natasha Anderson, Joseph Okori, Alexey Antonik, Klaus-Peter Koepfli, Peter Thompson
HCAS Ocean Science Research Symposium

Complete Nucleotide Sequences of the Domestic Cat (Felis catus) Mitochondrial Genome and a Transposed mtDNA Tandem Repeat (Numt) in the Nuclear Genome, Jose V. Lopez, Stanley Cevario, Stephen J. O'Brien
Jose Lopez

Genetic and Phylogenetic Evidence for Horizontal Gene Transfer Among Ecologically Disparate Groups of Marine Vibrio, Maria Hoffman, Steven R. Monday, Peter J. McCarthy, Jose V. Lopez, Markus Fischer, Eric W. Brown
Jose Lopez

HSV-2-induced Tumorigenicity in HPV 16-immortalized Human Genital Keratinocytes, Joseph A. Dipaolo, Craig D. Woodworth, Nicholas C. Popescu, Debra L. Koval, Jose V. Lopez, Jay Doniger
Jose Lopez

Microbiome and bacterioplankton rRNA gene sequence data collected from Gulf of Mexico seawater samples, Cruises DP01 and DP02 from May 2015 - August 2015, Cole Easson, Jose V. Lopez
Jose Lopez

Complete bacterial symbiont genome sequences from anglerfish Cryptopsaras couesii and Melanocetus johnsonii, Lindsay L. Freed, Dana Fadera, Dante Fenolio, Tracey Sutton, Jose V. Lopez
Jose Lopez

Patterns of Population Structure for Inshore Bottlenose Dolphins along the Eastern United States, Vincent P. Richards, Thomas W. Greig, Patricia A. Fair, Stephen D. McCullouch, Christine Politz, Ada Natoli, Carlos A. Driscoll, A. Rus Hoelzel, Victor David, Gregory D. Bossart, Jose V. Lopez
Jose Lopez

Molecular Phylogeny of Mitochondrial Cytochrome b and 12S rRNA Sequences in the Felidae: Ocelot and Domestic Cat Lineages, Ryuichi Masuda, Jose V. Lopez, Jill Pecon Slattery, Naoya Yuhki, Stephen James O'Brien
Jose Lopez

Molecular Determination of Species Boundaries in Corals: Genetic Analysis of the Montastraea annularis Complex Using Amplified Fragment Length Polymorphisms and a Microsatellite Marker, Jose V. Lopez, Ralf Kersanach, Stephen A. Rehner, Nancy Knowlton
Jose Lopez

Polyketide Synthase Genes from Marine Dinoflagellates, R. V. Snyder, P. D. L. Gibbs, A. Palacios, L. Abiy, R. Dickey, Jose V. Lopez, K. S. Rein
Jose Lopez

Rapid Evolution of a Heteroplasmic Repetitive Sequence in the Mitochondrial DNA Control Region of Carnivores, A Rus Hoelzel, Jose V. Lopez, Gabriel A. Dover, Stephen James O'Brien
Jose Lopez

Numt, a Recent Transfer and Tandem Amplification of Mitochondrial DNA in the Nuclear Genome of the Domestic Cat, Jose V. Lopez, Naoya Yuhki, Ryuichi Masuda, William Modi, Stephen James O'Brien
Jose Lopez

Naturally Mosaic Operons for Secondary Metabolite Biosynthesis: Variability and Putative Horizontal Transfer of Discrete Catalytic Domains of the Epothilone Polyketide Synthase Locus, Jose V. Lopez
Jose Lopez

Localization of Polyketide Synthase Encoding Genes to the Toxic Dinoflagellate Karenia brevis, Richard V. Snyder, Maria A. Guerrero, Christopher D. Sinigalliano, Jamie Winshell, Roberto Perez, Jose V. Lopez, Kathleen S. Rein
Jose Lopez

Rates of Nuclear and Cytoplasmic Mitochondrial DNA Sequence Divergence in Mammals, Jose V. Lopez, Melanie Culver, J. Claiborne Stephens, Warren E. Johnson, Stephen James O'Brien
Jose Lopez

The Long and Short of Nuclear Mitochondrial DNA (Numt) Lineages, Jose V. Lopez, J. Claiborne Stephens, Stephen J. O'Brien
Jose Lopez

Population Dynamics of Vibrio spp. Associated with Marine Sponge Microcosms, Maria Hoffman, Markus Fischer, Andrea Ottesen, Peter J. McCarthy, Jose V. Lopez, Eric W. Brown, Steven R. Monday
Jose Lopez

Use of Real-Time qPCR to Quantify Members of the Unculturable Heterotrophic Bacterial Community in a Deep Sea Marine Sponge, Vetulina sp., M. Cassler, C. L. Peterson, A. Ledger, Shirley A. Pomponi, A. E. Wright, R. Winegar, P. J. McCarthy, Jose V. Lopez
Jose Lopez

Vibrio caribbeanicus sp. nov., Isolated from the Marine Sponge Scleritoderma cyanea, Maria Hoffman, Steven R. Monday, Marc W. Allard, Errol A. Strain, Paul Whittaker, Marianna Naum, Peter J. McCarthy, Jose V. Lopez, Markus Fischer, Eric W. Brown
Jose Lopez

Chromosomal-Level Assembly of the Asian Seabass Genome Using Long Sequence Reads and Multi-layered Scaffolding, Shubha Vij, Heiner Kuhl, Inna S. Kuznetsova, Aleksey Komissarov, Andrey A. Yurchenko, Peter Van Heusden, Siddharth Singh, Natascha May Thevasagayam, Sai Rama Sridatta Prakki, Kathiresan Purushothaman, Jolly M. Saju, Junhui Jiang, Stanley Kimbung Mbandi, Mario Jonas, Amy Hin Yan Tong, Sarah Mwangi, Doreen Lau, Si Yan Ngoh, Woei Chang Liew, Xueyan Shen, Lawrence S. Hon, James P. Drake, Matthew Boitano, Richard Hall, Chen-Shan Chin, Ramkumar Lachumanan, Jonas Korlach, Vladimir Trifonov, Marsel Kabilov, Alexey Tupikin, Darrell Green, Simon Moxon, Tyler Garvin, Fritz J. Sedlazeck, Gregory W. Vurture, Gopikrishna Gopalapillai, Vinaya Kumar Katneni, Tansyn H. Noble, Vinod Scaria, Sridhar Sivasubbu, Dean R. Jerry, Stephen J. O'Brien, Michael C. Schatz, Tamas Dalmay, Stephen W. Turner, Si Lok, Alan Christoffels, Laszlo Orban
Stephen O'Brien

A High-Resolution SNP Array-Based Linkage Map Anchors a New Domestic Cat Draft Genome Assembly and Provides Detailed Patterns of Recombination, Gang Li, LaDeana W. Hillier, Robert A. Grahn, Aleksey V. Zimin, Victor A. David, Marilyn Menotti-Raymond, Rondo Middleton, Steven S. Hannah, Sher L. Hendrickson, Alexey Makunin, Stephen J. O'Brien, Patrick Minx, Richard K. Wilson, Leslie A. Lyons, Wesley C. Warren, William J. Murphy
Stephen O'Brien

Continued Decline in Genetic Diversity Among Wild Cheetahs (Acinonyx jubatus) Without Further Loss of Semen Quality, Kimberly A. Terrell, Adrienne E. Crosier, David E. Wildt, Stephen J. O'Brien, Nicola M. Anthony, Laurie Marker, Warren E. Johnson
Stephen O'Brien

Chromosomer: A Reference-Based Genome Arrangement Tool for Producing Draft Chromosome Sequences, Gaik Tamazian, Pavel Dobrynin, Ksenia Krasheninnikova, Aleksey Komissarov, Klaus-Peter Koepfli, Stephen J. O'Brien
Stephen O'Brien

Genetic Ancestry of the Extinct Javan and Bali Tigers, Hao-Ran Xue, Nobuyuki Yamaguchi, Carlos A. Driscoll, Yu Han, Gila Kahila Bar-Gal, Yan Zhuang, Ji H. Mazak, David W. Macdonald, Stephen J. O'Brien, Shu-Jin Luo
Stephen O'Brien

De Novo Sequencing, Assembly and Analysis of Eight Different Transcriptomes from the Malayan Pangolin, Aini Mohamed Yusoff, Tze King Tan, Ranjeev Hari, Klaus-Peter Koepfli, Wei Yee Wee, Agostinho Antunes, Frankie Thomas Sitam, Jeffrine Japning Rovie-Ryan, Kayal Vizi Karuppannan, Guat Jah Wong, Leonard Lipovich, Wesley C. Warren, Stephen J. O'Brien, Siew Woh Choo
Stephen O'Brien

Conservation Genetics of the Cheetah: Lessons Learned and New Opportunities, Stephen J. O'Brien, Warren E. Johnson, Carlos A. Driscoll, Pavel Dobrynin, Laurie Marker
Stephen O'Brien

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, Wesley C. Warren
Stephen O'Brien

A Mutation in LTBP2 Causes Congenital Glaucoma in Domestic Cats (Felis catus), Markus H. Kuehn, Koren A. Lipsett, Marilyn Menotti-Raymond, S. Scott Whitmore, Todd E. Scheetz, Victor A. David, Stephen J. O'Brien, Zhongyuan Zhao, Jackie K. Jens, Elizabeth M. Snella, N. Matthew Ellinwood, Gillian J. McLellan
Stephen O'Brien

Development of MHC-Linked Microsatellite Markers in the Domestic Cat and Their Use to Evaluate MHC Diversity in Domestic Cats, Cheetahs, and Gir Lions, Katrina M. Morris, Katherine Kirby, Julia A. Beatty, Vanessa R. Barrs, Sonia Cattley, Victor David, Stephen J. O'Brien, Marilyn Menotti-Raymond, Katherine Belov
Stephen O'Brien

Contrasting Origin of B Chromosomes in Two Cervids (Siberian Roe Deer and Grey Brocket Deer) Unravelled by Chromosome-Specific DNA Sequencing, Alexey I. Makunin, Ilya G. Kichigin, Denis M. Larkin, Patricia C. M. O'Brien, Malcolm A. Ferguson-Smith, Fengtang Yang, Anastasiya A. Proskuryakova, Nadezhda V. Vorobieva, Ekaterina N. Chernyaeva, Stephen J. O'Brien, Alexander S. Graphodatsky, Vladimir Trifonov
Stephen O'Brien

The Asian Arowana (Scleropages formosus) Genome Provides New Insights into the Evolution of an Early Lineage of Teleosts, Chao Bian, Yinchang Hu, Vydianathan Ravi, Inna S. Kuznetsova, Xueyan Shen, Xidong Mu, Ying Sun, Xinxin You, Jia Li, Xiaofeng Li, Ying Qiu, Boon-Hui Tay, Natascha May Thevasagayam, Aleksey S. Komissarov, Vladimir Trifonov, Marsel Kabilov, Alexey Tupikin, Jianren Luo, Yi Liu, Hongmei Song, Chao Liu, Xuejie Wang, Dangen Gu, Yexin Yang, Wujiao Li, Gianluca Polgar, Guangyi Fan, Peng Zeng, He Zhang, Zijun Xiong, Zhujing Tang, Chao Peng, Zhiqiang Ruan, Hui Yu, Jieming Chen, Mingjun Fan, Yu Huang, Min Wang, Xiaomeng Zhao, Guojun Hu, Huanming Yang, Jian Wang, Jun Wang, Xun Xu, Linsheng Song, Gangchun Xu, Junmin Xu, Stephen J. O'Brien, Laszlo Orban, Byrappa Venkatesh, Qiong Shi
Stephen O'Brien

Perspectives Provided by Leopard and Other Cat Genomes: How Diet Determined the Evolutionary History of Carnivores, Omnivores, and Herbivores, Soonok Kim, Yun Sung Cho, Jong Bhak, Stephen J. O'Brien, Joo-Hong Yeo
Stephen O'Brien

X Chromosome Evolution in Cetartiodactyla, Anastasiya A. Proskuryakova, Anastasia I. Kulemzina, Polina L. Perelman, Alexey I. Makunin, Denis M. Larkin, Marta Farre, Anna V. Kukekova, Jennifer Lynn Johnson, Natalya A. Lemskaya, Violetta R. Beklemisheva, M. Roelke-Parker, June Bellizzi, Oliver A. Ryder, Stephen James O'Brien, Alexander S. Graphodatsky
Stephen O'Brien

Molecular Phylogeny of Mitochondrial Cytochrome b and 12S rRNA Sequences in the Felidae: Ocelot and Domestic Cat Lineages, Ryuichi Masuda, Jose V. Lopez, Jill Pecon Slattery, Naoya Yuhki, Stephen James O'Brien
Stephen O'Brien

Rates of Nuclear and Cytoplasmic Mitochondrial DNA Sequence Divergence in Mammals, Jose V. Lopez, Melanie Culver, J. Claiborne Stephens, Warren E. Johnson, Stephen James O'Brien
Stephen O'Brien

Positive Selection Linked with Generation of Novel Mammalian Dentition Patterns, Joao P. Machado, Siby Philip, Emanuel Maldonado, Stephen J. O'Brien, Warren E. Johnson
Stephen O'Brien

Signal Localization: A New Approach in Signal Discovery, Sergey Malov, Alexey Antonik, Minzhong Tang, Alexandre Berred, Yi Zeng, Stephen J. O'Brien
Stephen O'Brien

Rapid Evolution of a Heteroplasmic Repetitive Sequence in the Mitochondrial DNA Control Region of Carnivores, A Rus Hoelzel, Jose V. Lopez, Gabriel A. Dover, Stephen James O'Brien
Stephen O'Brien

Numt, a Recent Transfer and Tandem Amplification of Mitochondrial DNA in the Nuclear Genome of the Domestic Cat, Jose V. Lopez, Naoya Yuhki, Ryuichi Masuda, William Modi, Stephen James O'Brien
Stephen O'Brien

Mitogenomic Sequences Support a North–South Subspecies Subdivision within Solenodon paradoxus, Adam L. Brandt, Kirill Grigorev, Yashira M. Afanador-Hernandez, Liz A. Paulino, William J. Murphy, Adrell Nunez, Aleksey Komissarov, Jessica R. Brandt, Pavel Dobrynin, J. David Hernandez-Martich, Roberta Maria, Stephen J. O'Brien, Luis Rodriguez, Juan C. Martinez-Cruzado, T. K. Oleksyk, Alfred L. Roca
Stephen O'Brien

Whole-Genome Identification, Phylogeny, and Evolution of the Cytochrome P450 Family 2 (CYP2) Subfamilies in Birds, Daniela Almeida, Emanuel Maldonado, Imran Khan, Liliana Silva, M. Thomas P. Gilbert, Guojie Zhang, Erich D. Jarvis, Stephen J. O'Brien, Warren E. Johnson, Agostinho Antunes
Stephen O'Brien

DNA sequences of the mitochondrial Cytochrome c oxidase I (COI) genes from deep sea fishes. Cruises DP01 and DP02 from May 2015 - August 2015, Andrea Bernard, Max Weber, Kimberly A. Finnegan, Mahmood S. Shivji, Ron Eytan
Mahmood Shivji

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, C. Martins
Mahmood Shivji

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, George Amato
Mahmood Shivji

Characterization of the Pelagic Shark-Fin Trade in North-Central Chile by Genetic Identification and Trader Surveys, H. Sebastian, P. A. Haye, Mahmood S. Shivji
Mahmood Shivji

Effects of the Pleistocene on the Mitochondrial Population Genetic Structure and Demographic History of the Silky Shark (Carcharhinus falciformis) in the Western Atlantic Ocean, Rodrigo R. Domingues, Alexandre W. S. Hilsdorf, Mahmood S. Shivji, Fabio H.V. Hazin, O. B. F. Gadig
Mahmood Shivji

Comparative Transcriptomics of Elasmobranchs and Teleosts Highlight Important Processes in Adaptive Immunity and Regional Endothermy, Nicholas J. Marra, Vincent P. Richards, Angela Early, Steve M. Bogdanowicz, Paulina D. Pavinski Bitar, Michael J. Stanhope, Mahmood S. Shivji
Mahmood Shivji

Genetic Profiling Reveals Illegal International Trade in Fins of the Great White Shark, Carcharodon carcharias, Mahmood S. Shivji, Demian D. Chapman, Ellen K. Pikitch, Paul W. Raymond
Mahmood Shivji

Genetic Diversity of White Sharks, Carcharodon carcharias, in the Northwest Atlantic and Southern Africa, Shannon J. O'Leary, Kevin A. Feldheim, Andrew T. Fields, Lisa Natanson, Sabine Wintner, Nigel Hussey, Mahmood S. Shivji, Demian D. Chapman
Mahmood Shivji

Effects of Species Misidentification on Population Assessment of Overfished White Marlin Tetrapturus albidus and Roundscale Spearfish T. georgii, Lawrence R. Beerkircher, Freddy Arocha, Ann Barse, Eric D. Prince, Victor Restrepo, Joseph Serafy, Mahmood S. Shivji
Mahmood Shivji

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, Paulo A. Prodohl
Mahmood Shivji

Global Estimates of Shark Catches Using Trade Records From Commercial Markets, Shelley C. Clarke, Murdoch K. McAllister, E. J. Milner-Gulland, G. P. Kirkwood, Catherine G. J. Michielsens, David J. Agnew, Ellen K. Pikitch, Hideki Nakano, Mahmood S. Shivji
Mahmood Shivji

Genetic Identification of Pelagic Shark Body Parts for Conservation and Trade Monitoring, Mahmood S. Shivji, Shelley C. Clarke, Melissa Pank, Lisa Natanson, Nancy Kohler
Mahmood Shivji

Molecular Phylogenetic Evidence Refuting the Hypothesis of Batoidea (Rays and Skates) as Derived Sharks, C. J. Douady, Mine Dosay, Mahmood S. Shivji, Michael Stanhope
Mahmood Shivji

Identification of the Larval and Juvenile Stages of the Cubera Snapper, Lutjanus cyanopterus, Using DNA Barcoding, Benjamin C. Victor, Robert H. Hanner, Mahmood S. Shivji, John Hyde, Chris Caldow
Mahmood Shivji

Shark Virgin Birth Produces Multiple, Viable Offspring, Kevin A. Feldheim, Demian D. Chapman, Doug Sweet, Sean Fitzpatrick, Paulo A. Prodohl, Mahmood S. Shivji, Bob Snowden
Mahmood Shivji

Shark Diversity in the Arabian/Persian Gulf Higher Than Previously Thought: Insights Based on Species Composition of Shark Landings in the United Arab Emirates, Rima W. Jabado, Saif M. Al Ghais, Waleed Hamza, Mahmood S. Shivji, Aaron C. Henderson
Mahmood Shivji

Parthenogenesis in a Large-Bodied Requiem Shark, the Blacktip Carcharhinus limbatus, Demian D. Chapman, B. Firchau, Mahmood S. Shivji
Mahmood Shivji

Low Worldwide Genetic Diversity in the Basking Shark (Cetorhinus maximus), A. Rus Hoelzel, Mahmood S. Shivji, Jennifer E. Magnussen, Malcom Francis
Mahmood Shivji

Mammalian Evolution and the Interphotoreceptor Retinoid Binding Protein (IRBP) Gene: Convincing Evidence for Several Superordinal Clades, Michael Stanhope, Marta R. Smith, Victor G. Waddell, Calvin A. Porter, Mahmood S. Shivji, Morris Goodman
Mahmood Shivji

The Larval, Juvenile, and Adult Stages of the Caribbean Goby, Coryphopterus kuna (Teleostei: Gobiidae): A Reef Fish with a Pelagic Larval Duration Longer Than the Post-Settlement Lifespan, Benjamin C. Victor, Lourdes Vasquez-Yeomans, Martha Valdez-Moreno, Leslie Wilk, David L. Jones, Monica R. Lara, Chris Caldow, Mahmood S. Shivji
Mahmood Shivji

The Complete Mitochondrial Genome of the Endangered Great Hammerhead Shark, Sphyrna mokarran, Cassandra L. Ruck, Nicholas J. Marra, Mahmood S. Shivji, Michael Stanhope
Mahmood Shivji

The Complete Mitochondrial Genome of the Critically Endangered Angelshark, Squatina squatina, Cristin Keelin Fitzpatrick, Kimberly A. Finnegan, Filip Osaer, Krupskaya Narvaez, Mahmood S. Shivji
Mahmood Shivji

Complete bacterial symbiont genome sequences from anglerfish Cryptopsaras couesii and Melanocetus johnsonii, Lindsay L. Freed, Dana Fadera, Dante Fenolio, Tracey Sutton, Jose V. Lopez
Tracey Sutton

Comparative Population Genetics and Evolutionary History of Two Commonly Misidentified Billfishes of Management and Conservation Concern, Andrea M. Bernard, Mahmood S. Shivji, Eric Prince, Fabio H.V. Hazin, Freddy Arocha, Andres Domingo, Kevin A. Feldheim
Andrea Bernard

Development and Characterization of 11 Novel Microsatellite Loci for the Roundscale Spearfish Tetrapturus georgii and Their Cross-Species Amplification Among Other Istiophorid Species, Andrea M. Bernard, Kevin A. Feldheim, Mahmood S. Shivji
Andrea Bernard

Complete mitochondrial genomes of Baikal oilfishes (Perciformes: Cottoidei), earth’s deepest-swimming freshwater fishes, Michael W. Sandel, Andres Aguilar, Kayla Fast, Stephen O’Brien, Alla Lapidus, David B. Allison, Veronika Teterina, Sergei Kirilchik
Biology Faculty Articles