The comparative genomics and complex population history of Papio baboons

Jeffrey Rogers, Muthuswamy Raveendran, R. Alan Harris, Thomas Mailund, Kalle Leppälä, Georgios Athanasiadis, Mikkel Heide Schierup, Jade Cheng, Kasper Munch, Jerilyn A. Walker, Miriam K. Konkel, Vallmer Jordan, Cody J. Steely, Thomas O. Beckstrom, Christina Bergey, Andrew Burrell, Dominik Schrempf, Angela Noll, Maximillian Kothe, Gisela H. Kopp & 216 others Yue Liu, Shwetha Murali, Konstantinos Billis, Fergal J. Martin, Matthieu Muffato, Laura Cox, James Else, Todd Disotell, Donna M. Muzny, Jane Phillips-Conroy, Bronwen Aken, Evan E. Eichler, Tomas Marques-Bonet, Carolin Kosiol, Mark A. Batzer, Matthew W. Hahn, Jenny Tung, Dietmar Zinner, Christian Roos, Clifford J. Jolly, Richard A. Gibbs, Kim C. Worley, Bronwen Aken, Nicoletta Archidiacono, Georgios Athanasiadis, Mark A. Batzer, Thomas O. Beckstrom, Christina Bergey, Konstantinos Billis, Andrew Burrell, Oronzo Capozzi, Claudia R. Catacchio, Jade Cheng, Laura A. Cox, Huyen H. Dinh, Todd Disotell, Harsha Vardhan Doddapaneni, Evan E. Eichler, James Else, Richard A. Gibbs, Matthew W. Hahn, Yi Han, R. Alan Harris, John Huddleston, Shalini N. Jhangiani, Clifford J. Jolly, Vallmer E. Jordan, Anis Karimpour-Fard, Miriam K. Konkel, Gisela H. Kopp, Viktoriya Korchina, Carolin Kosiol, Maximillian Kothe, Christie L. Kovar, Lukas Kuderna, Sandra L. Lee, Kalle Leppälä, Xiaoming Liu, Yue Liu, Thomas Mailund, Tomas Marques-Bonet, Alessia Marra-Campanale, Fergal J. Martin, Christopher E. Mason, Marc de Manuel Montero, Matthieu Muffato, Kasper Munch, Shwetha Murali, Donna M. Muzny, Angela Noll, Kymberleigh A. Pagel, Antonio Palazzo, Jera Pecotte, Vikas Pejaver, Jane Phillips-Conroy, Lenore Pipes, Veronica Searles Quick, Predrag Radivojac, Archana Raja, Brian J. Raney, Muthuswamy Raveendran, Karen Rice, Mariano Rocchi, Jeffrey Rogers, Christian Roos, Mikkel Heide Schierup, Dominik Schrempf, James M. Sikela, Roscoe Stanyon, Cody J. Steely, Gregg W.C. Thomas, Jenny Tung, Mario Ventura, Tauras P. Vilgalys, Tomas Vinar, Jerilyn A. Walker, Lutz Walter, Kim C. Worley, Dietmar Zinner, J. Rogers, K. C. Worley, R. A. Gibbs, D. M. Muzny, C. L. Kovar, H. H. Dinh, Y. Han, H. Doddapaneni, S. Lee, D. M. Muzny, K. C. Worley, Y. Liu, S. Murali, R. A. Harris, D. M. Muzny, M. Raveendran, R. A. Harris, K. C. Worley, S. N. Jhangiani, V. Korchina, C. Kovar, B. Aken, F. J. Martin, M. Muffato, K. Billis, X. Liu, M. A. Batzer, J. A. Walker, M. K. Konkel, V. E. Jordan, C. J. Steely, T. O. Beckstrom, R. A. Harris, M. Raveendran, T. Mailund, M. H. Schierup, K. Leppälä, J. Cheng, K. Munch, G. Athanasiadis, C. Bergey, A. Burrell, A. Noll, D. Schrempf, C. Kosiol, G. H. Kopp, G. Athanasiadis, K. Munch, J. Phillips-Conroy, M. Kothe, T. Disotell, J. Tung, J. Rogers, C. J. Jolly, D. Zinner, C. Roos, M. Rocchi, R. Stanyon, E. E. Eichler, N. Archidiacono, A. Palazzo, O. Capozzi, M. W. Hahn, J. Sikela, G. W.C. Thomas, V. Searles Quick, A. Karimpour-Fard, L. Walter, J. Tung, T. P. Vilgalys, C. Kosiol, T. Vinar, B. J. Raney, P. Radivojac, K. A. Pagel, V. Pejaver, E. E. Eichler, M. Ventura, A. Raja, C. Catacchio, A. Marra-Campanale, J. Huddleston, T. Marques-Bonet, L. Kuderna, M. D.M. Montero, C. E. Mason, L. Pipes, K. Rice, J. Pecotte, J. Phillips-Conroy, C. J. Jolly, J. Rogers, J. Else, L. A. Cox, D. Zinner, C. Roos, T. Mailund, K. Leppälä, E. E. Eichler, G. Athanasiadis, J. Cheng, K. Munch, C. Kosiol, C. Bergey, A. Burrell, M. K. Konkel, J. A. Walker, M. A. Batzer, J. Tung, J. Rogers, C. J. Jolly, J. Tung, M. Hahn, D. Zinner, C. Roos, T. Marques-Bonet, K. C. Worley

    Research output: Contribution to journalArticle

    Abstract

    Recent studies suggest that closely related species can accumulate substantial genetic and phenotypic differences despite ongoing gene flow, thus challenging traditional ideas regarding the genetics of speciation. Baboons (genus Papio) are Old World monkeys consisting of six readily distinguishable species. Baboon species hybridize in the wild, and prior data imply a complex history of differentiation and introgression. We produced a reference genome assembly for the olive baboon (Papio anubis) and whole-genome sequence data for all six extant species. We document multiple episodes of admixture and introgression during the radiation of Papio baboons, thus demonstrating their value as a model of complex evolutionary divergence, hybridization, and reticulation. These results help inform our understanding of similar cases, including modern humans, Neanderthals, Denisovans, and other ancient hominins.

    Original languageEnglish (US)
    Article numbereaau6947
    JournalScience Advances
    Volume5
    Issue number1
    DOIs
    StatePublished - Jan 30 2019

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    Metagenomics
    Papio
    Papio anubis
    Genetic Speciation
    Neanderthals
    Genome
    Cercopithecidae
    Gene Flow
    Hominidae
    Radiation

    ASJC Scopus subject areas

    • General

    Cite this

    Rogers, J., Raveendran, M., Harris, R. A., Mailund, T., Leppälä, K., Athanasiadis, G., ... Worley, K. C. (2019). The comparative genomics and complex population history of Papio baboons. Science Advances, 5(1), [eaau6947]. https://doi.org/10.1126/sciadv.aau6947

    The comparative genomics and complex population history of Papio baboons. / Rogers, Jeffrey; Raveendran, Muthuswamy; Harris, R. Alan; Mailund, Thomas; Leppälä, Kalle; Athanasiadis, Georgios; Schierup, Mikkel Heide; Cheng, Jade; Munch, Kasper; Walker, Jerilyn A.; Konkel, Miriam K.; Jordan, Vallmer; Steely, Cody J.; Beckstrom, Thomas O.; Bergey, Christina; Burrell, Andrew; Schrempf, Dominik; Noll, Angela; Kothe, Maximillian; Kopp, Gisela H.; Liu, Yue; Murali, Shwetha; Billis, Konstantinos; Martin, Fergal J.; Muffato, Matthieu; Cox, Laura; Else, James; Disotell, Todd; Muzny, Donna M.; Phillips-Conroy, Jane; Aken, Bronwen; Eichler, Evan E.; Marques-Bonet, Tomas; Kosiol, Carolin; Batzer, Mark A.; Hahn, Matthew W.; Tung, Jenny; Zinner, Dietmar; Roos, Christian; Jolly, Clifford J.; Gibbs, Richard A.; Worley, Kim C.; Aken, Bronwen; Archidiacono, Nicoletta; Athanasiadis, Georgios; Batzer, Mark A.; Beckstrom, Thomas O.; Bergey, Christina; Billis, Konstantinos; Burrell, Andrew; Capozzi, Oronzo; Catacchio, Claudia R.; Cheng, Jade; Cox, Laura A.; Dinh, Huyen H.; Disotell, Todd; Doddapaneni, Harsha Vardhan; Eichler, Evan E.; Else, James; Gibbs, Richard A.; Hahn, Matthew W.; Han, Yi; Harris, R. Alan; Huddleston, John; Jhangiani, Shalini N.; Jolly, Clifford J.; Jordan, Vallmer E.; Karimpour-Fard, Anis; Konkel, Miriam K.; Kopp, Gisela H.; Korchina, Viktoriya; Kosiol, Carolin; Kothe, Maximillian; Kovar, Christie L.; Kuderna, Lukas; Lee, Sandra L.; Leppälä, Kalle; Liu, Xiaoming; Liu, Yue; Mailund, Thomas; Marques-Bonet, Tomas; Marra-Campanale, Alessia; Martin, Fergal J.; Mason, Christopher E.; Montero, Marc de Manuel; Muffato, Matthieu; Munch, Kasper; Murali, Shwetha; Muzny, Donna M.; Noll, Angela; Pagel, Kymberleigh A.; Palazzo, Antonio; Pecotte, Jera; Pejaver, Vikas; Phillips-Conroy, Jane; Pipes, Lenore; Quick, Veronica Searles; Radivojac, Predrag; Raja, Archana; Raney, Brian J.; Raveendran, Muthuswamy; Rice, Karen; Rocchi, Mariano; Rogers, Jeffrey; Roos, Christian; Schierup, Mikkel Heide; Schrempf, Dominik; Sikela, James M.; Stanyon, Roscoe; Steely, Cody J.; Thomas, Gregg W.C.; Tung, Jenny; Ventura, Mario; Vilgalys, Tauras P.; Vinar, Tomas; Walker, Jerilyn A.; Walter, Lutz; Worley, Kim C.; Zinner, Dietmar; Rogers, J.; Worley, K. C.; Gibbs, R. A.; Muzny, D. M.; Kovar, C. L.; Dinh, H. H.; Han, Y.; Doddapaneni, H.; Lee, S.; Muzny, D. M.; Worley, K. C.; Liu, Y.; Murali, S.; Harris, R. A.; Muzny, D. M.; Raveendran, M.; Harris, R. A.; Worley, K. C.; Jhangiani, S. N.; Korchina, V.; Kovar, C.; Aken, B.; Martin, F. J.; Muffato, M.; Billis, K.; Liu, X.; Batzer, M. A.; Walker, J. A.; Konkel, M. K.; Jordan, V. E.; Steely, C. J.; Beckstrom, T. O.; Harris, R. A.; Raveendran, M.; Mailund, T.; Schierup, M. H.; Leppälä, K.; Cheng, J.; Munch, K.; Athanasiadis, G.; Bergey, C.; Burrell, A.; Noll, A.; Schrempf, D.; Kosiol, C.; Kopp, G. H.; Athanasiadis, G.; Munch, K.; Phillips-Conroy, J.; Kothe, M.; Disotell, T.; Tung, J.; Rogers, J.; Jolly, C. J.; Zinner, D.; Roos, C.; Rocchi, M.; Stanyon, R.; Eichler, E. E.; Archidiacono, N.; Palazzo, A.; Capozzi, O.; Hahn, M. W.; Sikela, J.; Thomas, G. W.C.; Quick, V. Searles; Karimpour-Fard, A.; Walter, L.; Tung, J.; Vilgalys, T. P.; Kosiol, C.; Vinar, T.; Raney, B. J.; Radivojac, P.; Pagel, K. A.; Pejaver, V.; Eichler, E. E.; Ventura, M.; Raja, A.; Catacchio, C.; Marra-Campanale, A.; Huddleston, J.; Marques-Bonet, T.; Kuderna, L.; Montero, M. D.M.; Mason, C. E.; Pipes, L.; Rice, K.; Pecotte, J.; Phillips-Conroy, J.; Jolly, C. J.; Rogers, J.; Else, J.; Cox, L. A.; Zinner, D.; Roos, C.; Mailund, T.; Leppälä, K.; Eichler, E. E.; Athanasiadis, G.; Cheng, J.; Munch, K.; Kosiol, C.; Bergey, C.; Burrell, A.; Konkel, M. K.; Walker, J. A.; Batzer, M. A.; Tung, J.; Rogers, J.; Jolly, C. J.; Tung, J.; Hahn, M.; Zinner, D.; Roos, C.; Marques-Bonet, T.; Worley, K. C.

    In: Science Advances, Vol. 5, No. 1, eaau6947, 30.01.2019.

    Research output: Contribution to journalArticle

    Rogers, J, Raveendran, M, Harris, RA, Mailund, T, Leppälä, K, Athanasiadis, G, Schierup, MH, Cheng, J, Munch, K, Walker, JA, Konkel, MK, Jordan, V, Steely, CJ, Beckstrom, TO, Bergey, C, Burrell, A, Schrempf, D, Noll, A, Kothe, M, Kopp, GH, Liu, Y, Murali, S, Billis, K, Martin, FJ, Muffato, M, Cox, L, Else, J, Disotell, T, Muzny, DM, Phillips-Conroy, J, Aken, B, Eichler, EE, Marques-Bonet, T, Kosiol, C, Batzer, MA, Hahn, MW, Tung, J, Zinner, D, Roos, C, Jolly, CJ, Gibbs, RA, Worley, KC, Aken, B, Archidiacono, N, Athanasiadis, G, Batzer, MA, Beckstrom, TO, Bergey, C, Billis, K, Burrell, A, Capozzi, O, Catacchio, CR, Cheng, J, Cox, LA, Dinh, HH, Disotell, T, Doddapaneni, HV, Eichler, EE, Else, J, Gibbs, RA, Hahn, MW, Han, Y, Harris, RA, Huddleston, J, Jhangiani, SN, Jolly, CJ, Jordan, VE, Karimpour-Fard, A, Konkel, MK, Kopp, GH, Korchina, V, Kosiol, C, Kothe, M, Kovar, CL, Kuderna, L, Lee, SL, Leppälä, K, Liu, X, Liu, Y, Mailund, T, Marques-Bonet, T, Marra-Campanale, A, Martin, FJ, Mason, CE, Montero, MDM, Muffato, M, Munch, K, Murali, S, Muzny, DM, Noll, A, Pagel, KA, Palazzo, A, Pecotte, J, Pejaver, V, Phillips-Conroy, J, Pipes, L, Quick, VS, Radivojac, P, Raja, A, Raney, BJ, Raveendran, M, Rice, K, Rocchi, M, Rogers, J, Roos, C, Schierup, MH, Schrempf, D, Sikela, JM, Stanyon, R, Steely, CJ, Thomas, GWC, Tung, J, Ventura, M, Vilgalys, TP, Vinar, T, Walker, JA, Walter, L, Worley, KC, Zinner, D, Rogers, J, Worley, KC, Gibbs, RA, Muzny, DM, Kovar, CL, Dinh, HH, Han, Y, Doddapaneni, H, Lee, S, Muzny, DM, Worley, KC, Liu, Y, Murali, S, Harris, RA, Muzny, DM, Raveendran, M, Harris, RA, Worley, KC, Jhangiani, SN, Korchina, V, Kovar, C, Aken, B, Martin, FJ, Muffato, M, Billis, K, Liu, X, Batzer, MA, Walker, JA, Konkel, MK, Jordan, VE, Steely, CJ, Beckstrom, TO, Harris, RA, Raveendran, M, Mailund, T, Schierup, MH, Leppälä, K, Cheng, J, Munch, K, Athanasiadis, G, Bergey, C, Burrell, A, Noll, A, Schrempf, D, Kosiol, C, Kopp, GH, Athanasiadis, G, Munch, K, Phillips-Conroy, J, Kothe, M, Disotell, T, Tung, J, Rogers, J, Jolly, CJ, Zinner, D, Roos, C, Rocchi, M, Stanyon, R, Eichler, EE, Archidiacono, N, Palazzo, A, Capozzi, O, Hahn, MW, Sikela, J, Thomas, GWC, Quick, VS, Karimpour-Fard, A, Walter, L, Tung, J, Vilgalys, TP, Kosiol, C, Vinar, T, Raney, BJ, Radivojac, P, Pagel, KA, Pejaver, V, Eichler, EE, Ventura, M, Raja, A, Catacchio, C, Marra-Campanale, A, Huddleston, J, Marques-Bonet, T, Kuderna, L, Montero, MDM, Mason, CE, Pipes, L, Rice, K, Pecotte, J, Phillips-Conroy, J, Jolly, CJ, Rogers, J, Else, J, Cox, LA, Zinner, D, Roos, C, Mailund, T, Leppälä, K, Eichler, EE, Athanasiadis, G, Cheng, J, Munch, K, Kosiol, C, Bergey, C, Burrell, A, Konkel, MK, Walker, JA, Batzer, MA, Tung, J, Rogers, J, Jolly, CJ, Tung, J, Hahn, M, Zinner, D, Roos, C, Marques-Bonet, T & Worley, KC 2019, 'The comparative genomics and complex population history of Papio baboons', Science Advances, vol. 5, no. 1, eaau6947. https://doi.org/10.1126/sciadv.aau6947
    Rogers J, Raveendran M, Harris RA, Mailund T, Leppälä K, Athanasiadis G et al. The comparative genomics and complex population history of Papio baboons. Science Advances. 2019 Jan 30;5(1). eaau6947. https://doi.org/10.1126/sciadv.aau6947
    Rogers, Jeffrey ; Raveendran, Muthuswamy ; Harris, R. Alan ; Mailund, Thomas ; Leppälä, Kalle ; Athanasiadis, Georgios ; Schierup, Mikkel Heide ; Cheng, Jade ; Munch, Kasper ; Walker, Jerilyn A. ; Konkel, Miriam K. ; Jordan, Vallmer ; Steely, Cody J. ; Beckstrom, Thomas O. ; Bergey, Christina ; Burrell, Andrew ; Schrempf, Dominik ; Noll, Angela ; Kothe, Maximillian ; Kopp, Gisela H. ; Liu, Yue ; Murali, Shwetha ; Billis, Konstantinos ; Martin, Fergal J. ; Muffato, Matthieu ; Cox, Laura ; Else, James ; Disotell, Todd ; Muzny, Donna M. ; Phillips-Conroy, Jane ; Aken, Bronwen ; Eichler, Evan E. ; Marques-Bonet, Tomas ; Kosiol, Carolin ; Batzer, Mark A. ; Hahn, Matthew W. ; Tung, Jenny ; Zinner, Dietmar ; Roos, Christian ; Jolly, Clifford J. ; Gibbs, Richard A. ; Worley, Kim C. ; Aken, Bronwen ; Archidiacono, Nicoletta ; Athanasiadis, Georgios ; Batzer, Mark A. ; Beckstrom, Thomas O. ; Bergey, Christina ; Billis, Konstantinos ; Burrell, Andrew ; Capozzi, Oronzo ; Catacchio, Claudia R. ; Cheng, Jade ; Cox, Laura A. ; Dinh, Huyen H. ; Disotell, Todd ; Doddapaneni, Harsha Vardhan ; Eichler, Evan E. ; Else, James ; Gibbs, Richard A. ; Hahn, Matthew W. ; Han, Yi ; Harris, R. Alan ; Huddleston, John ; Jhangiani, Shalini N. ; Jolly, Clifford J. ; Jordan, Vallmer E. ; Karimpour-Fard, Anis ; Konkel, Miriam K. ; Kopp, Gisela H. ; Korchina, Viktoriya ; Kosiol, Carolin ; Kothe, Maximillian ; Kovar, Christie L. ; Kuderna, Lukas ; Lee, Sandra L. ; Leppälä, Kalle ; Liu, Xiaoming ; Liu, Yue ; Mailund, Thomas ; Marques-Bonet, Tomas ; Marra-Campanale, Alessia ; Martin, Fergal J. ; Mason, Christopher E. ; Montero, Marc de Manuel ; Muffato, Matthieu ; Munch, Kasper ; Murali, Shwetha ; Muzny, Donna M. ; Noll, Angela ; Pagel, Kymberleigh A. ; Palazzo, Antonio ; Pecotte, Jera ; Pejaver, Vikas ; Phillips-Conroy, Jane ; Pipes, Lenore ; Quick, Veronica Searles ; Radivojac, Predrag ; Raja, Archana ; Raney, Brian J. ; Raveendran, Muthuswamy ; Rice, Karen ; Rocchi, Mariano ; Rogers, Jeffrey ; Roos, Christian ; Schierup, Mikkel Heide ; Schrempf, Dominik ; Sikela, James M. ; Stanyon, Roscoe ; Steely, Cody J. ; Thomas, Gregg W.C. ; Tung, Jenny ; Ventura, Mario ; Vilgalys, Tauras P. ; Vinar, Tomas ; Walker, Jerilyn A. ; Walter, Lutz ; Worley, Kim C. ; Zinner, Dietmar ; Rogers, J. ; Worley, K. C. ; Gibbs, R. A. ; Muzny, D. M. ; Kovar, C. L. ; Dinh, H. H. ; Han, Y. ; Doddapaneni, H. ; Lee, S. ; Muzny, D. M. ; Worley, K. C. ; Liu, Y. ; Murali, S. ; Harris, R. A. ; Muzny, D. M. ; Raveendran, M. ; Harris, R. A. ; Worley, K. C. ; Jhangiani, S. N. ; Korchina, V. ; Kovar, C. ; Aken, B. ; Martin, F. J. ; Muffato, M. ; Billis, K. ; Liu, X. ; Batzer, M. A. ; Walker, J. A. ; Konkel, M. K. ; Jordan, V. E. ; Steely, C. J. ; Beckstrom, T. O. ; Harris, R. A. ; Raveendran, M. ; Mailund, T. ; Schierup, M. H. ; Leppälä, K. ; Cheng, J. ; Munch, K. ; Athanasiadis, G. ; Bergey, C. ; Burrell, A. ; Noll, A. ; Schrempf, D. ; Kosiol, C. ; Kopp, G. H. ; Athanasiadis, G. ; Munch, K. ; Phillips-Conroy, J. ; Kothe, M. ; Disotell, T. ; Tung, J. ; Rogers, J. ; Jolly, C. J. ; Zinner, D. ; Roos, C. ; Rocchi, M. ; Stanyon, R. ; Eichler, E. E. ; Archidiacono, N. ; Palazzo, A. ; Capozzi, O. ; Hahn, M. W. ; Sikela, J. ; Thomas, G. W.C. ; Quick, V. Searles ; Karimpour-Fard, A. ; Walter, L. ; Tung, J. ; Vilgalys, T. P. ; Kosiol, C. ; Vinar, T. ; Raney, B. J. ; Radivojac, P. ; Pagel, K. A. ; Pejaver, V. ; Eichler, E. E. ; Ventura, M. ; Raja, A. ; Catacchio, C. ; Marra-Campanale, A. ; Huddleston, J. ; Marques-Bonet, T. ; Kuderna, L. ; Montero, M. D.M. ; Mason, C. E. ; Pipes, L. ; Rice, K. ; Pecotte, J. ; Phillips-Conroy, J. ; Jolly, C. J. ; Rogers, J. ; Else, J. ; Cox, L. A. ; Zinner, D. ; Roos, C. ; Mailund, T. ; Leppälä, K. ; Eichler, E. E. ; Athanasiadis, G. ; Cheng, J. ; Munch, K. ; Kosiol, C. ; Bergey, C. ; Burrell, A. ; Konkel, M. K. ; Walker, J. A. ; Batzer, M. A. ; Tung, J. ; Rogers, J. ; Jolly, C. J. ; Tung, J. ; Hahn, M. ; Zinner, D. ; Roos, C. ; Marques-Bonet, T. ; Worley, K. C. / The comparative genomics and complex population history of Papio baboons. In: Science Advances. 2019 ; Vol. 5, No. 1.
    @article{6c4d1ebbc0414392be4c7fa2d21d66e1,
    title = "The comparative genomics and complex population history of Papio baboons",
    abstract = "Recent studies suggest that closely related species can accumulate substantial genetic and phenotypic differences despite ongoing gene flow, thus challenging traditional ideas regarding the genetics of speciation. Baboons (genus Papio) are Old World monkeys consisting of six readily distinguishable species. Baboon species hybridize in the wild, and prior data imply a complex history of differentiation and introgression. We produced a reference genome assembly for the olive baboon (Papio anubis) and whole-genome sequence data for all six extant species. We document multiple episodes of admixture and introgression during the radiation of Papio baboons, thus demonstrating their value as a model of complex evolutionary divergence, hybridization, and reticulation. These results help inform our understanding of similar cases, including modern humans, Neanderthals, Denisovans, and other ancient hominins.",
    author = "Jeffrey Rogers and Muthuswamy Raveendran and Harris, {R. Alan} and Thomas Mailund and Kalle Lepp{\"a}l{\"a} and Georgios Athanasiadis and Schierup, {Mikkel Heide} and Jade Cheng and Kasper Munch and Walker, {Jerilyn A.} and Konkel, {Miriam K.} and Vallmer Jordan and Steely, {Cody J.} and Beckstrom, {Thomas O.} and Christina Bergey and Andrew Burrell and Dominik Schrempf and Angela Noll and Maximillian Kothe and Kopp, {Gisela H.} and Yue Liu and Shwetha Murali and Konstantinos Billis and Martin, {Fergal J.} and Matthieu Muffato and Laura Cox and James Else and Todd Disotell and Muzny, {Donna M.} and Jane Phillips-Conroy and Bronwen Aken and Eichler, {Evan E.} and Tomas Marques-Bonet and Carolin Kosiol and Batzer, {Mark A.} and Hahn, {Matthew W.} and Jenny Tung and Dietmar Zinner and Christian Roos and Jolly, {Clifford J.} and Gibbs, {Richard A.} and Worley, {Kim C.} and Bronwen Aken and Nicoletta Archidiacono and Georgios Athanasiadis and Batzer, {Mark A.} and Beckstrom, {Thomas O.} and Christina Bergey and Konstantinos Billis and Andrew Burrell and Oronzo Capozzi and Catacchio, {Claudia R.} and Jade Cheng and Cox, {Laura A.} and Dinh, {Huyen H.} and Todd Disotell and Doddapaneni, {Harsha Vardhan} and Eichler, {Evan E.} and James Else and Gibbs, {Richard A.} and Hahn, {Matthew W.} and Yi Han and Harris, {R. Alan} and John Huddleston and Jhangiani, {Shalini N.} and Jolly, {Clifford J.} and Jordan, {Vallmer E.} and Anis Karimpour-Fard and Konkel, {Miriam K.} and Kopp, {Gisela H.} and Viktoriya Korchina and Carolin Kosiol and Maximillian Kothe and Kovar, {Christie L.} and Lukas Kuderna and Lee, {Sandra L.} and Kalle Lepp{\"a}l{\"a} and Xiaoming Liu and Yue Liu and Thomas Mailund and Tomas Marques-Bonet and Alessia Marra-Campanale and Martin, {Fergal J.} and Mason, {Christopher E.} and Montero, {Marc de Manuel} and Matthieu Muffato and Kasper Munch and Shwetha Murali and Muzny, {Donna M.} and Angela Noll and Pagel, {Kymberleigh A.} and Antonio Palazzo and Jera Pecotte and Vikas Pejaver and Jane Phillips-Conroy and Lenore Pipes and Quick, {Veronica Searles} and Predrag Radivojac and Archana Raja and Raney, {Brian J.} and Muthuswamy Raveendran and Karen Rice and Mariano Rocchi and Jeffrey Rogers and Christian Roos and Schierup, {Mikkel Heide} and Dominik Schrempf and Sikela, {James M.} and Roscoe Stanyon and Steely, {Cody J.} and Thomas, {Gregg W.C.} and Jenny Tung and Mario Ventura and Vilgalys, {Tauras P.} and Tomas Vinar and Walker, {Jerilyn A.} and Lutz Walter and Worley, {Kim C.} and Dietmar Zinner and J. Rogers and Worley, {K. C.} and Gibbs, {R. A.} and Muzny, {D. M.} and Kovar, {C. L.} and Dinh, {H. H.} and Y. Han and H. Doddapaneni and S. Lee and Muzny, {D. M.} and Worley, {K. C.} and Y. Liu and S. Murali and Harris, {R. A.} and Muzny, {D. M.} and M. Raveendran and Harris, {R. A.} and Worley, {K. C.} and Jhangiani, {S. N.} and V. Korchina and C. Kovar and B. Aken and Martin, {F. J.} and M. Muffato and K. Billis and X. Liu and Batzer, {M. A.} and Walker, {J. A.} and Konkel, {M. K.} and Jordan, {V. E.} and Steely, {C. J.} and Beckstrom, {T. O.} and Harris, {R. A.} and M. Raveendran and T. Mailund and Schierup, {M. H.} and K. Lepp{\"a}l{\"a} and J. Cheng and K. Munch and G. Athanasiadis and C. Bergey and A. Burrell and A. Noll and D. Schrempf and C. Kosiol and Kopp, {G. H.} and G. Athanasiadis and K. Munch and J. Phillips-Conroy and M. Kothe and T. Disotell and J. Tung and J. Rogers and Jolly, {C. J.} and D. Zinner and C. Roos and M. Rocchi and R. Stanyon and Eichler, {E. E.} and N. Archidiacono and A. Palazzo and O. Capozzi and Hahn, {M. W.} and J. Sikela and Thomas, {G. W.C.} and Quick, {V. Searles} and A. Karimpour-Fard and L. Walter and J. Tung and Vilgalys, {T. P.} and C. Kosiol and T. Vinar and Raney, {B. J.} and P. Radivojac and Pagel, {K. A.} and V. Pejaver and Eichler, {E. E.} and M. Ventura and A. Raja and C. Catacchio and A. Marra-Campanale and J. Huddleston and T. Marques-Bonet and L. Kuderna and Montero, {M. D.M.} and Mason, {C. E.} and L. Pipes and K. Rice and J. Pecotte and J. Phillips-Conroy and Jolly, {C. J.} and J. Rogers and J. Else and Cox, {L. A.} and D. Zinner and C. Roos and T. Mailund and K. Lepp{\"a}l{\"a} and Eichler, {E. E.} and G. Athanasiadis and J. Cheng and K. Munch and C. Kosiol and C. Bergey and A. Burrell and Konkel, {M. K.} and Walker, {J. A.} and Batzer, {M. A.} and J. Tung and J. Rogers and Jolly, {C. J.} and J. Tung and M. Hahn and D. Zinner and C. Roos and T. Marques-Bonet and Worley, {K. C.}",
    year = "2019",
    month = "1",
    day = "30",
    doi = "10.1126/sciadv.aau6947",
    language = "English (US)",
    volume = "5",
    journal = "Science advances",
    issn = "2375-2548",
    publisher = "American Association for the Advancement of Science",
    number = "1",

    }

    TY - JOUR

    T1 - The comparative genomics and complex population history of Papio baboons

    AU - Rogers, Jeffrey

    AU - Raveendran, Muthuswamy

    AU - Harris, R. Alan

    AU - Mailund, Thomas

    AU - Leppälä, Kalle

    AU - Athanasiadis, Georgios

    AU - Schierup, Mikkel Heide

    AU - Cheng, Jade

    AU - Munch, Kasper

    AU - Walker, Jerilyn A.

    AU - Konkel, Miriam K.

    AU - Jordan, Vallmer

    AU - Steely, Cody J.

    AU - Beckstrom, Thomas O.

    AU - Bergey, Christina

    AU - Burrell, Andrew

    AU - Schrempf, Dominik

    AU - Noll, Angela

    AU - Kothe, Maximillian

    AU - Kopp, Gisela H.

    AU - Liu, Yue

    AU - Murali, Shwetha

    AU - Billis, Konstantinos

    AU - Martin, Fergal J.

    AU - Muffato, Matthieu

    AU - Cox, Laura

    AU - Else, James

    AU - Disotell, Todd

    AU - Muzny, Donna M.

    AU - Phillips-Conroy, Jane

    AU - Aken, Bronwen

    AU - Eichler, Evan E.

    AU - Marques-Bonet, Tomas

    AU - Kosiol, Carolin

    AU - Batzer, Mark A.

    AU - Hahn, Matthew W.

    AU - Tung, Jenny

    AU - Zinner, Dietmar

    AU - Roos, Christian

    AU - Jolly, Clifford J.

    AU - Gibbs, Richard A.

    AU - Worley, Kim C.

    AU - Aken, Bronwen

    AU - Archidiacono, Nicoletta

    AU - Athanasiadis, Georgios

    AU - Batzer, Mark A.

    AU - Beckstrom, Thomas O.

    AU - Bergey, Christina

    AU - Billis, Konstantinos

    AU - Burrell, Andrew

    AU - Capozzi, Oronzo

    AU - Catacchio, Claudia R.

    AU - Cheng, Jade

    AU - Cox, Laura A.

    AU - Dinh, Huyen H.

    AU - Disotell, Todd

    AU - Doddapaneni, Harsha Vardhan

    AU - Eichler, Evan E.

    AU - Else, James

    AU - Gibbs, Richard A.

    AU - Hahn, Matthew W.

    AU - Han, Yi

    AU - Harris, R. Alan

    AU - Huddleston, John

    AU - Jhangiani, Shalini N.

    AU - Jolly, Clifford J.

    AU - Jordan, Vallmer E.

    AU - Karimpour-Fard, Anis

    AU - Konkel, Miriam K.

    AU - Kopp, Gisela H.

    AU - Korchina, Viktoriya

    AU - Kosiol, Carolin

    AU - Kothe, Maximillian

    AU - Kovar, Christie L.

    AU - Kuderna, Lukas

    AU - Lee, Sandra L.

    AU - Leppälä, Kalle

    AU - Liu, Xiaoming

    AU - Liu, Yue

    AU - Mailund, Thomas

    AU - Marques-Bonet, Tomas

    AU - Marra-Campanale, Alessia

    AU - Martin, Fergal J.

    AU - Mason, Christopher E.

    AU - Montero, Marc de Manuel

    AU - Muffato, Matthieu

    AU - Munch, Kasper

    AU - Murali, Shwetha

    AU - Muzny, Donna M.

    AU - Noll, Angela

    AU - Pagel, Kymberleigh A.

    AU - Palazzo, Antonio

    AU - Pecotte, Jera

    AU - Pejaver, Vikas

    AU - Phillips-Conroy, Jane

    AU - Pipes, Lenore

    AU - Quick, Veronica Searles

    AU - Radivojac, Predrag

    AU - Raja, Archana

    AU - Raney, Brian J.

    AU - Raveendran, Muthuswamy

    AU - Rice, Karen

    AU - Rocchi, Mariano

    AU - Rogers, Jeffrey

    AU - Roos, Christian

    AU - Schierup, Mikkel Heide

    AU - Schrempf, Dominik

    AU - Sikela, James M.

    AU - Stanyon, Roscoe

    AU - Steely, Cody J.

    AU - Thomas, Gregg W.C.

    AU - Tung, Jenny

    AU - Ventura, Mario

    AU - Vilgalys, Tauras P.

    AU - Vinar, Tomas

    AU - Walker, Jerilyn A.

    AU - Walter, Lutz

    AU - Worley, Kim C.

    AU - Zinner, Dietmar

    AU - Rogers, J.

    AU - Worley, K. C.

    AU - Gibbs, R. A.

    AU - Muzny, D. M.

    AU - Kovar, C. L.

    AU - Dinh, H. H.

    AU - Han, Y.

    AU - Doddapaneni, H.

    AU - Lee, S.

    AU - Muzny, D. M.

    AU - Worley, K. C.

    AU - Liu, Y.

    AU - Murali, S.

    AU - Harris, R. A.

    AU - Muzny, D. M.

    AU - Raveendran, M.

    AU - Harris, R. A.

    AU - Worley, K. C.

    AU - Jhangiani, S. N.

    AU - Korchina, V.

    AU - Kovar, C.

    AU - Aken, B.

    AU - Martin, F. J.

    AU - Muffato, M.

    AU - Billis, K.

    AU - Liu, X.

    AU - Batzer, M. A.

    AU - Walker, J. A.

    AU - Konkel, M. K.

    AU - Jordan, V. E.

    AU - Steely, C. J.

    AU - Beckstrom, T. O.

    AU - Harris, R. A.

    AU - Raveendran, M.

    AU - Mailund, T.

    AU - Schierup, M. H.

    AU - Leppälä, K.

    AU - Cheng, J.

    AU - Munch, K.

    AU - Athanasiadis, G.

    AU - Bergey, C.

    AU - Burrell, A.

    AU - Noll, A.

    AU - Schrempf, D.

    AU - Kosiol, C.

    AU - Kopp, G. H.

    AU - Athanasiadis, G.

    AU - Munch, K.

    AU - Phillips-Conroy, J.

    AU - Kothe, M.

    AU - Disotell, T.

    AU - Tung, J.

    AU - Rogers, J.

    AU - Jolly, C. J.

    AU - Zinner, D.

    AU - Roos, C.

    AU - Rocchi, M.

    AU - Stanyon, R.

    AU - Eichler, E. E.

    AU - Archidiacono, N.

    AU - Palazzo, A.

    AU - Capozzi, O.

    AU - Hahn, M. W.

    AU - Sikela, J.

    AU - Thomas, G. W.C.

    AU - Quick, V. Searles

    AU - Karimpour-Fard, A.

    AU - Walter, L.

    AU - Tung, J.

    AU - Vilgalys, T. P.

    AU - Kosiol, C.

    AU - Vinar, T.

    AU - Raney, B. J.

    AU - Radivojac, P.

    AU - Pagel, K. A.

    AU - Pejaver, V.

    AU - Eichler, E. E.

    AU - Ventura, M.

    AU - Raja, A.

    AU - Catacchio, C.

    AU - Marra-Campanale, A.

    AU - Huddleston, J.

    AU - Marques-Bonet, T.

    AU - Kuderna, L.

    AU - Montero, M. D.M.

    AU - Mason, C. E.

    AU - Pipes, L.

    AU - Rice, K.

    AU - Pecotte, J.

    AU - Phillips-Conroy, J.

    AU - Jolly, C. J.

    AU - Rogers, J.

    AU - Else, J.

    AU - Cox, L. A.

    AU - Zinner, D.

    AU - Roos, C.

    AU - Mailund, T.

    AU - Leppälä, K.

    AU - Eichler, E. E.

    AU - Athanasiadis, G.

    AU - Cheng, J.

    AU - Munch, K.

    AU - Kosiol, C.

    AU - Bergey, C.

    AU - Burrell, A.

    AU - Konkel, M. K.

    AU - Walker, J. A.

    AU - Batzer, M. A.

    AU - Tung, J.

    AU - Rogers, J.

    AU - Jolly, C. J.

    AU - Tung, J.

    AU - Hahn, M.

    AU - Zinner, D.

    AU - Roos, C.

    AU - Marques-Bonet, T.

    AU - Worley, K. C.

    PY - 2019/1/30

    Y1 - 2019/1/30

    N2 - Recent studies suggest that closely related species can accumulate substantial genetic and phenotypic differences despite ongoing gene flow, thus challenging traditional ideas regarding the genetics of speciation. Baboons (genus Papio) are Old World monkeys consisting of six readily distinguishable species. Baboon species hybridize in the wild, and prior data imply a complex history of differentiation and introgression. We produced a reference genome assembly for the olive baboon (Papio anubis) and whole-genome sequence data for all six extant species. We document multiple episodes of admixture and introgression during the radiation of Papio baboons, thus demonstrating their value as a model of complex evolutionary divergence, hybridization, and reticulation. These results help inform our understanding of similar cases, including modern humans, Neanderthals, Denisovans, and other ancient hominins.

    AB - Recent studies suggest that closely related species can accumulate substantial genetic and phenotypic differences despite ongoing gene flow, thus challenging traditional ideas regarding the genetics of speciation. Baboons (genus Papio) are Old World monkeys consisting of six readily distinguishable species. Baboon species hybridize in the wild, and prior data imply a complex history of differentiation and introgression. We produced a reference genome assembly for the olive baboon (Papio anubis) and whole-genome sequence data for all six extant species. We document multiple episodes of admixture and introgression during the radiation of Papio baboons, thus demonstrating their value as a model of complex evolutionary divergence, hybridization, and reticulation. These results help inform our understanding of similar cases, including modern humans, Neanderthals, Denisovans, and other ancient hominins.

    UR - http://www.scopus.com/inward/record.url?scp=85060670885&partnerID=8YFLogxK

    UR - http://www.scopus.com/inward/citedby.url?scp=85060670885&partnerID=8YFLogxK

    U2 - 10.1126/sciadv.aau6947

    DO - 10.1126/sciadv.aau6947

    M3 - Article

    VL - 5

    JO - Science advances

    JF - Science advances

    SN - 2375-2548

    IS - 1

    M1 - eaau6947

    ER -