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All publications for Warren E. Johnson

Borges, Rui, Johnson, Warren E., O'Brien, Stephen J., Gomes, Cidalia, Heesy, Christopher P. and Antunes, Agostinho. 2018. Adaptive genomic evolution of opsins reveals that early mammals flourished in nocturnal environments. Bmc Genomics, 121-121. http://dx.doi.org/10.1186/s12864-017-4417-8
Gaubert, Philippe, Antunes, Agostinho, Meng, Hao, Miao, Lin, Peigné, Stéphane, Justy, Fabienne, Njiokou, Flobert, Dufour, Sylvain, Danquah, Emmanuel, Alahakoon, Jayanthi, Verheyen, Erik, Stanley, William T., O'Brien, Stephen J., Johnson, Warren E. and Luo, Shu-Jin. 2018. The complete phylogeny of pangolins: scaling up resources for the molecular tracing of the most trafficked mammals on Earth. The Journal of heredity, 347-359. http://dx.doi.org/10.1093/jhered/esx097
Lewin, Harris A., Robinson, Gene E., Kress, W. John, Baker, William J., Coddington, Jonathan, Crandall, Keith A., Durbin, Richard, Edwards, Scott V., Forest, Felix, Gilbert, M. Thomas P., Goldstein, Melissa M., Grigoriev, Igor V., Hackett, Kevin J., Haussler, David, Jarvis, Erich D., Johnson, Warren E., Patrinos, Aristides, Richards, Stephen, Castilla-Rubio, Juan Carlos, van Sluys, Marie-Anne, Soltis, Pamela S., Xu, Xun, Yang, Huanming and Zhang, Guojie. 2018. Earth BioGenome Project: Sequencing life for the future of life. Proceedings of the National Academy of Sciences of the United States of America, 4325-4333. http://dx.doi.org/10.1073/pnas.1720115115
Ramos, Barbara, Gonzalez-Acuna, Daniel, Loyola, David E., Johnson, Warren E., Parker, Patricia G., Massaro, Melanie, Dantas, Gisele P. M., Miranda, Marcelo D. and Vianna, Juliana A. 2018. Landscape genomics: natural selection drives the evolution of mitogenome in penguins. BMC Genomics, 53-53. http://dx.doi.org/10.1186/s12864-017-4424-9
Kitchener, A. C., Breitenmoser-Würsten, C., Eizirik, E., Gentry, A., Werdelin, Lars, Wilting, A., Yamaguchi, N. and Johnson, Warren E. 2017. A revised taxonomy of the Felidae : The final report of the Cat Classification Task Force of the IUCN Cat Specialist Group. Cat News.
Lee, Mu-Yeong, Kwon, In-Ki, Lee, Kisup, Choi, Sung Kyoung, Jeon, Hey Sook, Lee, Ji-Yeon, Eo, Kyung-yeon, Kim, Hwa-Jung, Kim, Jin-Han, Johnson, Warren E., Yoo, Jeong-Chil and An, Junghwa. 2017. Genetic diversity and population structure of the Black-faced Spoonbill (Platalea minor) among its breeding sites in South Korea: Implication for conservation. Biochemical systematics and ecology, 106-113. http://dx.doi.org/10.1016/j.bse.2017.01.014
OBrien, Stephen J., Johnson, Warren E., Driscoll, Carlos A., Dobrynin, Pavel and Marker, Laurie. 2017. Conservation Genetics of the cheetah-Lessons Learned and New Opportunities. Journal of Heredity, 671-677. http://dx.doi.org/10.1093/jhered/esx047
Torres-Florez, Juan, Johnson, Warren E., Nery, Mariana F., Eizirik, Eduardo, Oliveira-Miranda, Mar and Galetti, Pedro Manoel. 2017. The coming of age of conservation genetics in Latin America: what has been achieved and what needs to be done. Conservation Genetics, 1-15. http://dx.doi.org/10.1007/s10592-017-1006-y
Almeida, Daniela, Maldonado, Emanuel, Khan, Imran, Silva, Liliana, Gilbert, M. T., Zhang, Guojie, Jarvis, Erich D., O'Brien, Stephen J., Johnson, Warren E. and Antunes, Agostinho. 2016. Whole-Genome Identification, Phylogeny, and Evolution of the Cytochrome P450 Family 2 (CYP2) Subfamilies in Birds. Genome Biology and Evolution, 1115-1131. http://dx.doi.org/10.1093/gbe/evw041
Choo, Siew Woh, Rayko, Mike, Tan, Tze King, Hari, Ranjeev, Komissarov, Aleksey, Wee, Wei Yee, Yurchenko, Andrey A., Kliver, Sergey, Tamazian, Gaik, Antunes, Agostinho, Wilson, Richard K., Warren, Wesley C., Koepfli, Klaus-Peter, Minx, Patrick, Krasheninnikova, Ksenia, Kotze, Antoinette, Dalton, Desire L., Vermaak, Elaine, Paterson, Ian C., Dobrynin, Pavel, Sitam, Frankie Thomas, Rovie-Ryan, Jeffrine, Johnson, Warren E., Yusoff, Aini Mohamed, Luo, Shu-Jin, et al. 2016. Pangolin genomes and the evolution of mammalian scales and immunity. Genome research, 1312-1322. http://dx.doi.org/10.1101/gr.203521.115
Lee, Mu-Yeong, Lee, Seon-Mi, Song, Eui-Geun, An, Jung Hwa, Voloshina, Inna, Chong, Jong Royl, Johnson, Warren E., Min, Mi-Sook and Lee, Hang. 2016. Phylogenetic relationships and genetic diversity of badgers from the Korean Peninsula: Implications for the taxonomic status of the Korean badger. Biochemical systematics and ecology, 18-26. http://dx.doi.org/10.1016/j.bse.2016.07.015
Machado, João Paulo, Johnson, Warren E., Gilbert, M. T., Zhang, Guojie, Jarvis, Erich D., O'Brien, Stephen J. and Antunes, Agostinho. 2016. Bone-associated gene evolution and the origin of flight in birds. BMC Genomics, 1-15. http://dx.doi.org/10.1186/s12864-016-2681-7
Machado, João Paulo, Philip, Siby, Maldonado, Emanuel, O'Brien, Stephen J., Johnson, Warren E. and Antunes, Agostinho. 2016. Positive Selection Linked with Generation of Novel Mammalian Dentition Patterns. Genome Biology and Evolution, 2748-2759. http://dx.doi.org/10.1093/gbe/evw200
O'Brien, Stephen J., Koepfli, Klaus Peter, Eizirik, Eduardo, Johnson, Warren, Driscoll, Carlos, Antunes, Agostinho, Schmidt-Kuntzel, Anne, Marker, Laurie and Dobrynin, Pavel. 2016. Response to Comment by Faurby, Werdelin and Svenning. Genome biology, 90. http://dx.doi.org/10.1186/s13059-016-0942-z
Tan, Tze King, Tan, Ka Yun, Hari, Ranjeev, Mohamed Yusoff, Aini, Wong, Guat Jah, Siow, Cheuk Chuen, Mutha, Naresh V. R., Rayko, Mike, Komissarov, Aleksey, Dobrynin, Pavel, Krasheninnikova, Ksenia, Tamazian, Gaik, Paterson, Ian C., Warren, Wesley C., Johnson, Warren E., O'Brien, Stephen J. and Choo, Siew Woh. 2016. PGD: a pangolin genome hub for the research community. Database: The Journal of Biological Databases and Curation. http://dx.doi.org/10.1093/database/baw063
Tchaicka, Ligia, Freitas, Thales Renato Ochotorena de, Bager, Alex, Vidal, Stela Luengos, Lucherini, Mauro, Iriarte, Agustín, Novaro, Andres, Geffen, Eli, Garcez, Fabricio Silva, Johnson, Warren E., Wayne, Robert K. and Eizirik, Eduardo. 2016. Molecular assessment of the phylogeny and biogeography of a recently diversified endemic group of South American canids (Mammalia: Carnivora: Canidae). Genetics and Molecular Biology, 442-451. http://dx.doi.org/10.1590/1678-4685-GMB-2015-0189
Terrell, Kimberly A., Crosier, Adrienne E., Wildt, David E., O'Brien, Stephen J., Anthony, Nicola M., Marker, Laurie and Johnson, Warren E. 2016. Continued decline in genetic diversity among wild cheetahs (Acinonyx jubatus) without further loss of semen quality. Biological Conservation, 192-199. http://dx.doi.org/10.1016/j.biocon.2016.05.034
Avila, Felipe, Baily, Malorie P., Perelman, Polina, Das, Pranab J., Pontius, Joan, Chowdhary, Renuka, Owens, Elaine, Johnson, Warren E., Merriwether, David A. and Raudsepp, Terje. 2015. A Comprehensive Whole-Genome Integrated Cytogenetic Map for the Alpaca (Lama pacos). Cytogenetic and Genome Research, 196-207. http://dx.doi.org/10.1159/000370329
Borges, Rui, Khan, Imran, Johnson, Warren E., Gilbert, M. T., Zhang, Guojie, Jarvis, Erich D., O'Brien, Stephen J. and Antunes, Agostinho. 2015. Gene loss, adaptive evolution and the co-evolution of plumage coloration genes with opsins in birds. BMC Genomics, 751. http://dx.doi.org/10.1186/s12864-015-1924-3
Dobrynin, Pavel, Liu, Shiping, Tamazian, Gaik, Xiong, Zijun, Yurchenko, Andrey A., Krasheninnikova, Ksenia, Kliver, Sergey, Schmidt-Küntzel, Anne, Koepfli, Klaus-Peter, Johnson, Warren, Kuderna, Lukas F. K., García-Pérez, Raquel, Manuel, Marc de, Godinez, Ricardo, Komissarov, Aleksey, Makunin, Alexey, Brukhin, Vladimir, Qiu, Weilin, Zhou, Long, Li, Fang, Yi, Jian, Driscoll, Carlos, Antunes, Agostinho, Oleksyk, Taras K., Eizirik, Eduardo, et al. 2015. Genomic legacy of the African cheetah, Acinonyx jubatus. Genome biology, 277. http://dx.doi.org/10.1186/s13059-015-0837-4
Khan, Imran, Yang, Zhikai, Maldonado, Emanuel, Li, Cai, Zhang, Guojie, Gilbert, M. T., Jarvis, Erich D., O'Brien, Stephen J., Johnson, Warren E. and Antunes, Agostinho. 2015. Olfactory receptor subgenomes linked with broad ecological adaptations in Sauropsida. Molecular biology and evolution, 2832-2843. http://dx.doi.org/10.1093/molbev/msv155
Koepfli, Klaus-Peter, Pollinger, John, Godinho, Raquel, Robinson, Jacqueline, Lea, Amanda, Hendricks, Sarah, Schweizer, Rena M, Thalmann, Olaf, Silva, Pedro, Fan, Zhenxin, Yurchenko, Andrey A, Dobrynin, Pavel, Makunin, Alexey, Cahill, James A, Shapiro, Beth, Álvares, Francisco, Brito, José C, Geffen, Eli, Leonard, Jennifer A, Helgen, Kristofer M., Johnson, Warren E, O’Brien, Stephen J, Van Valkenburgh, Blaire and Wayne, Robert K. 2015. Genome-wide Evidence Reveals that African and Eurasian Golden Jackals Are Distinct Species. Current Biology, 2158-2165. http://dx.doi.org/10.1016/j.cub.2015.06.060
Napolitano, Constanza, Díaz, Diego, Sanderson, Jim, Johnson, Warren E., Ritland, Kermit, Ritland, Carol E. and Poulin, Elie. 2015. Reduced Genetic Diversity and Increased Dispersal in Guigna (Leopardus guigna) in Chilean Fragmented Landscapes. Journal of Heredity, 522-536. http://dx.doi.org/10.1093/jhered/esv025
Baginsky, Cecilia, Brito, Belén, Scherson, Rosita, Pertuzé, Ricardo, Seguel, Oscar, Cañete, Alejandro, Araneda, Cristian and Johnson, Warren E. 2014. Genetic diversity of Rhizobium from nodulating beans grown in a variety of Mediterranean climate soils of Chile. Archives of Microbiology, 1-11. http://dx.doi.org/10.1007/s00203-014-1067-y
González, Benito A., Orozco-terWengel, Pablo, von Borries, Rainer, Johnson, Warren E., Franklin, William L. and Marín, Juan C. 2014. Maintenance of Genetic Diversity in an Introduced Island Population of Guanacos after Seven Decades and Two Severe Demographic Bottlenecks: Implications for Camelid Conservation. PLoS ONE, 1-13. http://dx.doi.org/10.1371/journal.pone.0091714
Jarvis, Erich D., Mirarab, Siavash, Aberer, Andre J., Li, Bo, Houde, Peter, Li, Cai, Ho, Simon Y. W., Faircloth, Brant C., Nabholz, Benoit, Howard, Jason T., Suh, Alexander, Weber, Claudia C., Fonseca, Rute R. da, Li, Jianwen, Zhang, Fang, Li, Hui, Zhou, Long, Narula, Nitish, Liu, Liang, Ganapathy, Ganesh, Boussau, Bastien, Bayzid, Md Shamsuzzoha, Zavidovych, Volodymyr, Subramanian, Sankar, Gabaldón, Toni, et al. 2014. Whole-genome analyses resolve early branches in the tree of life of modern birds. Science, 1320-1331. http://dx.doi.org/10.1126/science.1253451
Johnson, Warren E. 2014. Camelid Genetics and Reproductive Biotechnologies. Journal of Heredity, 931-932. http://dx.doi.org/10.1093/jhered/esu069
Johnson, Warren E. and Koepfli, Klaus-Peter. 2014. The Role of Genomics in Conservation and Reproductive Sciences. Advances in Experimental Medicine and Biology, 71-96. http://dx.doi.org/10.1007/978-1-4939-0820-2_5
Khan, Imran, Maldonado, Emanuel, Vasconcelos, Vitor, O'Brien, Stephen J., Johnson, Warren E. and Antunes, Agostinho. 2014. Mammalian keratin associated proteins (KRTAPs) subgenomes: disentangling hair diversity and adaptation to terrestrial and aquatic environments. BMC Genomics. http://dx.doi.org/10.1186/1471-2164-15-779
Luo, Shu-Jin, Zhang, Yue, Johnson, Warren E., Miao, Lin, Martelli, Paolo, Antunes, Agostinho, Smith, James L. D. and O'Brien, Stephen J. 2014. Sympatric Asian Felid Phylogeography Reveals A Major Indochinese-Sundaic Divergence. Molecular Ecology, 2072-2092. http://dx.doi.org/10.1111/mec.12716
Pereira, Joana, Johnson, Warren E., O'Brien, Stephen J., Jarvis, Erich D., Zhang, Guojie, Gilbert, M. T., Vasconcelos, Vitor and Antunes, Agostinho. 2014. Evolutionary genomics and adaptive evolution of the hedgehog gene family (Shh, Ihh and Dhh) in vertebrates. PloS One, 1-35. http://dx.doi.org/10.1371/journal.pone.0074132
Walters-Conte, Kathryn, Le Johnson, Diana, Johnson, Warren E., O'Brien, Stephen J. and Pecon-Slattery, Jill. 2014. The Dynamic Proliferation of CanSINEs Mirrors the Complex Evolution of Feliforms. BMC Evolutionary Biology. http://dx.doi.org/10.1186/1471-2148-14-137
Zhang, Guojie, Li, Cai, Li, Qiye, Li, Bo, Larkin, Denis M., Lee, Chul, Storz, Jay F., Antunes, Agostinho, Greenwold, Matthew J., Meredith, Robert W., Ödeen, Anders, Cui, Jie, Zhou, Qi, Xu, Luohao, Pan, Hailin, Wang, Zongji, Jin, Lijun, Zhang, Pei, Hu, Haofu, Yang, Wei, Hu, Jiang, Xiao, Jin, Yang, Zhikai, Liu, Yang, Xie, Qiaolin, et al. 2014. Comparative genomics reveals insights into avian genome evolution and adaptation. Science, 1311-1320. http://dx.doi.org/10.1126/science.1251385
Matte, Eunice M., Castilho, Camila S., Miotto, Renata A., Sana, Denis A., Johnson, Warren E., O'Brien, Stephen J., Freitas, Thales R. O. de and Eizirik, Eduardo. 2013. Molecular evidence for a recent demographic expansion in the puma (Puma concolor) (Mammalia, Felidae). Genetics and Molecular Biology, 586-597. http://dx.doi.org/10.1590/S1415-47572013000400018
Benson, John F., Hostetler, Jeffrey A., Onorato, David P., Johnson, Warren E., Roelke, Melody E., O'Brien, Stephen J., Jansen, Deborah and Oli, Madan K. 2011. Intentional genetic introgression influences survival of adults and subadults in a small, inbred felid population. Journal of Animal Ecology, 958-967. http://dx.doi.org/10.1111/j.1365-2656.2011.01809.x
Johnson, Warren E., Onorato, David P., Roelke, Melody E., Land, E. Darrell, Cunningham, Mark, Belden, Robert C., McBride, Roy, Jansen, Deborah, Lotz, Mark, Shindle, David, Howard, JoGayle, Wildt, David E., Penfold, Linda M., Hostetler, Jeffrey A., Oli, Madan K. and O'Brien, Stephen J. 2010. Genetic Restoration of the Florida Panther. Science, 1641-1645. http://dx.doi.org/10.1126/science.1192891
Haussler, David, O'Brien, Stephen J., Ryder, Oliver A., Barker, F. Keith, Clamp, Michele, Crawford, Andrew J., Hanner, Robert, Hanotte, Olivier, Johnson, Warren E., McGuire, Jimmy A., Miller, Webb, Murphy, Robert W., Murphy, William J., Sheldon, Frederick H., Sinervo, Barry, Venkatesh, Byrappa, Wiley, Edward O., Allendorf, Fred W., Amato, George, Baker, C. Scott, Bauer, Aaron, Beja-Pereira, Albano, Bermingham, Eldredge, Bernardi, Giacomo, Bonvicino, Cibele R., et al. 2009. Genome 10K: A Proposal to Obtain Whole-Genome Sequence for 10 000 Vertebrate Species. Journal of Heredity, 659-674. http://dx.doi.org/10.1093/jhered/esp086
Buckley-Beason, V. A., Johnson, Warren E., Nash, W. G., Stanyon, R., Menninger, J. C., Driscoll, C. A., Howard, JoGayle, Bush, R. Mitchell, Page, J. E., Roelke, Melody E., Stone, G., Martelli, P. P., Wen, C., Ling, L., Duraisingam, R. K., Lam, P. V. and O'Brien, Stephen J. 2006. Molecular evidence for species-level distinctions in clouded leopards. Current Biology, 2371-2376.
Troyer, Jennifer L., Pecon-Slattery, Jill, Roelke, Melody E., Johnson, Warren E., VandeWoude, Sue, Vazquez-Salat, Nuria, Brown, Meredith, Frank, Laurence, Woodroffe, Rosie, Winterbach, Christiaan, Winterbach, Hanlie, Hemson, Graham, Bush, R. Mitchell, Alexander, Kathleen A., Revilla, Eloy and O'Brien, Stephen J. 2005. Seroprevalence and Genomic Divergence of Circulating Strains of Feline Immunodeficiency Virus among Felidae and Hyaenidae Species. Journal of virology, 8282-8294.
Swanson, William F., Johnson, Warren E., Cambre, Richard C., Citino, Scott B., Quigley, K. B., Brousset, D. M., Morais, R. N., Moreira, N., O'Brien, Stephen J. and Wildt, David E. 2003. Reproductive status of endemic field species in Latin American zoos and implications for ex situ conservation. Zoo biology, 421-441.
Uphyrkina, O., Johnson, Warren E., Quigley, H., Miquelle, D., Marker, L., Bush, R. Mitchell and O'Brien, Stephen J. 2001. Phylogenetics, genome diversity and origin of modern leopard, Panthera pardus. Molecular Ecology, 2617-2633.
Johnson, Warren E., Shinyashiki, F., Menotti-Raymond, M., Driscoll, C., Leh, C., Sunquist, M., Johnston, M., Bush, R. Mitchell, Wildt, David E., Yuhki, N. and O'Brien, S. J. 1999. Molecular genetic characterization of two insular Asian cat species, Bornean bay cat and Iriomote cat. , 223-248.