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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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
Biology Faculty Articles

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
Biology Faculty Articles

Pangolin genomes and the evolution of mammalian scales and immunity, Siew Who Choo, Mike Rayko, Tze King Tan, Ranjeev Hari, Aleksey Komissarov, Wei Yee Wee, Andrey A. Yurchenko, Sergey Kliver, Gaik Tamazian, Agostinho Antunes, Richard K. Wilson, Wesley C. Warren, Klaus Peter Koepfli, Patrick Minx, Ksenia Krasheninnikova, Antoinette Kotze, Desire L. Dalton, Elaine Vermaak, Ian C. Paterson, Pavel Dobrynin, Frankie Thomas Sitam, Jeffrine J. Rovie-Ryan, Warren E. Johnson, Aini Mohamed Yusoff, Shu Jin Luo, Kayal Vizi Karuppannan, Gang Fang, Deyou Zheng, Mark B. Gerstein
Biology Faculty Articles

Adaptive Evolution of the Matrix Extracellular Phosphoglycoprotein in Mammals, Joao P. Machado, Warren E. Johnson, Stephen J. O'Brien, Vitor Vasconcelos, Agostinho Antunes
Stephen O'Brien

Annotated Features of Domestic Cat – Felis catus Genome, Gaik Tamazian, Serguei Simonov, Pavel Dobrynin, Alexey Makunin, Anton Logachev, Aleksey Komissarov, Andrey Shevchenko, Vladimir Brukhin, Nikolay Cherkasov, Anton Svitin, Klaus-Peter Koepfli, Joan Pontius, Carlos A. Driscoll, Kevin Blackistone, Cristina Barr, David Goldman, Agostinho Antunes, Javier Quilez, Belen Lorente-Galdos, Can Alkan, Tomas Marques-Bonet, Marilyn Menotti-Raymond, Victor A. David, Kristina Narfstrom, Stephen J. O'Brien
Stephen O'Brien

Bone-Associated Gene Evolution and the Origin of Flight in Birds, Joao P. Machado, Warren E. Johnson, M. Thomas P. Gilbert, Guojie Zhang, Erich D. Jarvis, Stephen J. O'Brien, Agostinho Antunes
Stephen O'Brien

Emerging Viruses in the Felidae: Shifting Paradigms, Stephen J. O'Brien, Jennifer L. Troyer, Meredith Brown, Warren E. Johnson, Agostinho Antunes, Melody E. Roelke, Jill Pecon-Slattery
Stephen O'Brien

Evolutionary Genomics and Adaptive Evolution of the Hedgehog Gene Family (Shh, Ihh and Dhh) in Vertebrates, Joana Pereira, Warren E. Johnson, Stephen J. O'Brien, Erich D. Jarvis, Guojie Zhang, M. Thomas P. Gilbert, Vitor Vasconcelos, Agostinho Antunes
Stephen O'Brien

Gene Loss, Adaptive Evolution and the Co-Evolution of Plumage Coloration Genes with Opsins in Birds, Rui Borges, Imran Khan, Warren E. Johnson, M. Thomas P. Gilbert, Guojie Zhang, Erich D. Jarvis, Stephen J. O'Brien, Agostinho Antunes
Stephen O'Brien

Genomic Legacy of the African Cheetah, Acinonyx jubatus, Pavel Dobrynin, Shiping Liu, Gaik Tamazian, Zijun Xiong, Andrey A. Yurchenko, Ksenia Krasheninnikova, Sergey Kliver, A. Schmidt-Kunzel, Klaus-Peter Koepfli, Warren E. Johnson, Lukas F. K. Kuderna, Raquel Garcia-Perez, Marc de Manuel, Ricardo Godinez, Aleksey Komissarov, Alexey Makunin, Vladimir Brukhin, Weilin Qiu, Long Zhou, Fang Li, Jian Yi, Carlos A. Driscoll, Agostinho Antunes, T. K. Oleksyk, Eduardo Eizirik, Polina Perelman, Melody E. Roelke, David E. Wildt, Mark Diekhans, Tomas Marques-Bonet, Laurie Marker, Jong Bhak, Jun Wang, Guojie Zhang, Stephen J. O'Brien
Stephen O'Brien

Initial Sequence and Comparative Analysis of the Cat Genome, J. U. Pontius, James C. Mullikin, Douglas R. Smith, Kerstin Lindblad-Toh, Sante Gnerre, Michele Clamp, Jean Chang, R. Stephens, Beena A. Neelam, Natalia Volfovsky, Alejandro A. Schaffer, R. Agarwala, Kristina Narfstrom, William J. Murphy, Urs Giger, Alfred L. Roca, Agostinho Antunes, Marilyn Menotti-Raymond, Naoya Yuhki, Jill Pecon-Slattery, Warren E. Johnson, Guillaume Bourque, Glenn Tesler, Stephen J. O'Brien
Stephen O'Brien

Molecular Evolution and the Role of Oxidative Stress in the Expansion and Functional Diversification of Cytosolic Glutathione Transferases, Rute R. da Fonseca, Warren E. Johnson, Stephen J. O'Brien, Vitor Vasconcelos, Agostinho Antunes
Stephen O'Brien

The Adaptive Evolution of the Mammalian Mitochondrial Genome, Rute R. da Fonseca, Warren E. Johnson, Stephen J. O'Brien, Maria J. Ramos, Agostinho Antunes
Stephen O'Brien

The Evolutionary Dynamics of the Lion Panthera leo Revealed by Host and Viral Population Genomics, Agostinho Antunes, Jennifer L. Troyer, Melody E. Roelke, Jill Pecon-Slattery, Craig Packer, Christiaan Winterbach, Graham Hemson, Laurence G. Frank, Philip Stander, Ludwig Siefert, Margaret Driciru, Paul J. Funston, Kathy A. Alexander, Katherine C. Prager, Gus Mills, David E. Wildt, Mitch E. Bush, Stephen J. O'Brien, Warren E. Johnson
Stephen O'Brien

Mammalian Keratin Associated Proteins (KRTAPs) Subgenomes: Disentangling Hair Diversity and Adaptation to Terrestrial and Aquatic Environments, Imran Khan, Emanuel Maldonado, Vitor Vasconcelos, Stephen J. O'Brien, Warren E. Johnson, Agostinho Antunes
Stephen O'Brien

The Role of Gene Duplication and Unconstrained Selective Pressures in the Melanopsin Gene Family Evolution and Vertebrate Circadian Rhythm Regulation, Rui Borges, Warren E. Johnson, Stephen J. O'Brien, Vitor Vasconcelos, Agostinho Antunes
Stephen O'Brien

The Evolutionary Dynamics of the Lion Panthera leo Revealed by Host and Viral Population Genomics, Agostinho Antunes, Jennifer L. Troyer, Melody E. Roelke, Jill Pecon-Slattery, Craig Packer, Christiaan Winterbach, Graham Hemson, Laurence G. Frank, Philip Stander, Ludwig Siefert, Margaret Driciru, Paul J. Funston, Kathy A. Alexander, Katherine C. Prager, Gus Mills, David E. Wildt, Mitch E. Bush, Stephen J. O'Brien, Warren E. Johnson
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
Biology Faculty Articles

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
Biology Faculty Articles

Bone-Associated Gene Evolution and the Origin of Flight in Birds, Joao P. Machado, Warren E. Johnson, M. Thomas P. Gilbert, Guojie Zhang, Erich D. Jarvis, Stephen J. O'Brien, Agostinho Antunes
Biology Faculty Articles

Genetic Evidence for Contrasting Wetland and Savannah Habitat Specializations in Different Populations of Lions (Panthera leo), Andy E. Moore, Fenton P. D. (Woody) Cotterill, Christiaan W. Winterbach, Hanlie E. K. Winterbach, Agostinho Antunes, Stephen J. O'Brien
Biology Faculty Articles

Genomic Legacy of the African Cheetah, Acinonyx jubatus, Pavel Dobrynin, Shiping Liu, Gaik Tamazian, Zijun Xiong, Andrey A. Yurchenko, Ksenia Krasheninnikova, Sergey Kliver, A. Schmidt-Kunzel, Klaus-Peter Koepfli, Warren E. Johnson, Lukas F. K. Kuderna, Raquel Garcia-Perez, Marc de Manuel, Ricardo Godinez, Aleksey Komissarov, Alexey Makunin, Vladimir Brukhin, Weilin Qiu, Long Zhou, Fang Li, Jian Yi, Carlos A. Driscoll, Agostinho Antunes, T. K. Oleksyk, Eduardo Eizirik, Polina Perelman, Melody E. Roelke, David E. Wildt, Mark Diekhans, Tomas Marques-Bonet, Laurie Marker, Jong Bhak, Jun Wang, Guojie Zhang, Stephen J. O'Brien
Biology Faculty Articles

Olfactory Receptor Subgenomes Linked with Broad Ecological Adaptations in Sauropsida, Imran Khan, Zhikai Yang, Emanuel Maldonado, Cai Li, Guojie Zhang, M. Thomas P. Gilbert, Erich D. Jarvis, Stephen J. O'Brien, Warren E. Johnson, Agostinho Antunes
Biology Faculty Articles

Gene Loss, Adaptive Evolution and the Co-Evolution of Plumage Coloration Genes with Opsins in Birds, Rui Borges, Imran Khan, Warren E. Johnson, M. Thomas P. Gilbert, Guojie Zhang, Erich D. Jarvis, Stephen J. O'Brien, Agostinho Antunes
Biology Faculty Articles

Comparative Genomics Reveals Insights into Avian Genome Evolution and Adaptation, Guojie Zhang, Cai Li, Qiye Li, Bo Li, Denis M. Larkin, Chul Lee, Jay F. Storz, Agostinho Antunes, Matthew J. Greenwold, Robert W. Meredith, Anders Odeen, Jie Cui, Qi Zhou, Luohao Xu, Hailin Pan, Zongji Wang, Lijun Jin, Pei Zhang, Haofu Hu, Wei Yang, Jiang Hu, Jin Xiao, Zhikai Yang, Yang Liu, Qiaolin Xie, Hao Yu, Jinmin Lian, Ping Wen, Fang Zhang, Hui Li, Yongli Zeng, Zijun Xiong, Shiping Liu, Long Zhou, Zhiyong Huang, Na An, Jie Wang, Qiumei Zheng, Yingqi Xiong, Guangbiao Wang, Bo Wang, Jingjing Wang, Yu Fan, Rute R. da Fonseca, Alonzo Alfaro-Nunez, Mikkel Schubert, Ludovic Orlando, Tobias Mourier, Jason T. Howard, Ganeshkumar Ganapathy, Andreas Pfenning, Osceola Whitney, Miram V. Rivas, Erina Hara, Julia Smith, Marta Farre, Jitendra Narayan, Gancho Slavov, MIchael N. Romanov, Rui Borges, Joao Paulo Machado, Imran Khan, Mark S. Springer, John Gatesy, Frederico G. Hoffmann, Juan C. Opazo, Olle Hastad, Roger H. Sawyer, Heebal Kim, Kyu-Won Kim, Hyeon Jeong Kim, Seoae Cho, Ning Li, Yinhua Huang, Michael W. Bruford, Xiangjiang Zhan, Andrew Dixon, Mads F. Bertelsen, Elizabeth Derryberry, Wesley Warren, Richard K. Wilson, Shengbin Li, David A. Ray, Richard E. Green, Stephen J. O'Brien, Darren Griffin, Warren E. Johnson, David Haussler, Oliver A. Ryder, Eske Willerslev, Gary R. Graves, Per Alstrom, Jon Fjeldsa, David P. Mindell, Scott V. Edwards, Edward L. Braun, Carsten Rahbek, David W. Burt, Peter Houde, Yong Zhang, Huanming Yang, Jian Wang, Avian Genome Consortium, Erich D. Jarvis, M. Thomas P. Gilbert, Jun Wang
Biology Faculty Articles

Evolutionary Genomics and Adaptive Evolution of the Hedgehog Gene Family (Shh, Ihh and Dhh) in Vertebrates, Joana Pereira, Warren E. Johnson, Stephen J. O'Brien, Erich D. Jarvis, Guojie Zhang, M. Thomas P. Gilbert, Vitor Vasconcelos, Agostinho Antunes
Biology Faculty Articles

Mammalian Keratin Associated Proteins (KRTAPs) Subgenomes: Disentangling Hair Diversity and Adaptation to Terrestrial and Aquatic Environments, Imran Khan, Emanuel Maldonado, Vitor Vasconcelos, Stephen J. O'Brien, Warren E. Johnson, Agostinho Antunes
Marine & Environmental Sciences Faculty Articles

Annotated Features of Domestic Cat – Felis catus Genome, Gaik Tamazian, Serguei Simonov, Pavel Dobrynin, Alexey Makunin, Anton Logachev, Aleksey Komissarov, Andrey Shevchenko, Vladimir Brukhin, Nikolay Cherkasov, Anton Svitin, Klaus-Peter Koepfli, Joan Pontius, Carlos A. Driscoll, Kevin Blackistone, Cristina Barr, David Goldman, Agostinho Antunes, Javier Quilez, Belen Lorente-Galdos, Can Alkan, Tomas Marques-Bonet, Marilyn Menotti-Raymond, Victor A. David, Kristina Narfstrom, Stephen J. O'Brien
Biology Faculty Articles

Sympatric Asian Felid Phylogeography Reveals A Major Indochinese-Sundaic Divergence, Shu-Jin Luo, Yue Zhang, Warren E. Johnson, Lin Miao, Paolo Martelli, Agostinho Antunes, James L. D. Smith, Stephen J. O'Brien
Marine & Environmental Sciences Faculty Articles

The Role of Gene Duplication and Unconstrained Selective Pressures in the Melanopsin Gene Family Evolution and Vertebrate Circadian Rhythm Regulation, Rui Borges, Warren E. Johnson, Stephen J. O'Brien, Vitor Vasconcelos, Agostinho Antunes
Biology Faculty Articles

Fish Lateral Line Innovation: Insights into the Evolutionary Genomic Dynamics of a Unique Mechanosensory Organ, Siby Philip, Joao P. Machado, Emanuel Maldonado, Vitor Vasconcelos, Stephen J. O'Brien, Warren E. Johnson, Agostinho Antunes
Biology Faculty Articles

Evolution of CRISPs Associated with Toxicoferan-Reptilian Venom and Mammalian Reproduction, Kartik Sunagar, Warren E. Johnson, Stephen J. O'Brien, Vitor Vasconcelos, Agostinho Antunes
Biology Faculty Articles

Emerging Viruses in the Felidae: Shifting Paradigms, Stephen J. O'Brien, Jennifer L. Troyer, Meredith Brown, Warren E. Johnson, Agostinho Antunes, Melody E. Roelke, Jill Pecon-Slattery
Biology Faculty Articles

Adaptive Evolution of the Matrix Extracellular Phosphoglycoprotein in Mammals, Joao P. Machado, Warren E. Johnson, Stephen J. O'Brien, Vitor Vasconcelos, Agostinho Antunes
Biology Faculty Articles

Molecular Evolution and the Role of Oxidative Stress in the Expansion and Functional Diversification of Cytosolic Glutathione Transferases, Rute R. da Fonseca, Warren E. Johnson, Stephen J. O'Brien, Vitor Vasconcelos, Agostinho Antunes
Biology Faculty Articles

The Evolutionary Dynamics of the Lion Panthera leo Revealed by Host and Viral Population Genomics, Agostinho Antunes, Jennifer L. Troyer, Melody E. Roelke, Jill Pecon-Slattery, Craig Packer, Christiaan Winterbach, Graham Hemson, Laurence G. Frank, Philip Stander, Ludwig Siefert, Margaret Driciru, Paul J. Funston, Kathy A. Alexander, Katherine C. Prager, Gus Mills, David E. Wildt, Mitch E. Bush, Stephen J. O'Brien, Warren E. Johnson
Biology Faculty Articles

FIV Cross-Species Transmission: An Evolutionary Prospective, Jennifer L. Troyer, Sue VandeWoude, Jill Pecon-Slattery, Carl McIntosh, Sam Franklin, Agostinho Antunes, Warren E. Johnson, Stephen J. O'Brien
Biology Faculty Articles

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, Stephen J. O'Brien
Biology Faculty Articles

The Adaptive Evolution of the Mammalian Mitochondrial Genome, Rute R. da Fonseca, Warren E. Johnson, Stephen J. O'Brien, Maria J. Ramos, Agostinho Antunes
Biology Faculty Articles

Initial Sequence and Comparative Analysis of the Cat Genome, J. U. Pontius, James C. Mullikin, Douglas R. Smith, Agencourt Bioscience Corporation, Kerstin Lindblad-Toh, Sante Gnerre, Michele Clamp, Jean Chang, R. Stephens, Beena A. Neelam, Natalia Volfovsky, Alejandro A. Schaffer, R. Agarwala, Kristina Narfstrom, William J. Murphy, Urs Giger, Alfred L. Roca, Agostinho Antunes, Marilyn Menotti-Raymond, Naoya Yuhki, Jill Pecon-Slattery, Warren E. Johnson, Guillaume Bourque, Glenn Tesler, NISC Comparative Sequencing Program, Stephen J. O'Brien
Biology Faculty Articles

Mitochondrial Introgressions into the Nuclear Genome of the Domestic Cat, Agostinho Antunes, J. U. Pontius, Maria J. Ramos, Stephen J. O'Brien, Warren E. Johnson
Biology Faculty Articles

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, Warren E. Johnson
Biology Faculty Articles

Evolutionary Analysis of a Large mtDNA Translocation (numt) into the Nuclear Genome of the Panthera Genus Species, Jae-Heup Kim, Agostinho Antunes, Shu-Jin Luo, Joan C. Menninger, William G. Nash, Stephen J. O'Brien, Warren E. Johnson
Biology Faculty Articles

The Late Miocene Radiation of Modern Felidae: A Genetic Assessment, Warren E. Johnson, Eduardo Eizirik, Jill Pecon-Slattery, William J. Murphy, Agostinho Antunes, Emma C. Teeling, Stephen J. O'Brien
Biology Faculty Articles