Genome sequence of the Brown Norway rat yields insights into mammalian evolution

Richard A. Gibbs, George M. Weinstock, Michael L. Metzker, Donna M. Muzny, Erica J. Sodergren, Steven Scherer, Graham Scott, David Steffen, Kim C. Worley, Paula E. Burch, Geoffrey Okwuonu, Sandra Hines, Lora Lewis, Christine Deramo, Oliver Delgado, Shannon Dugan-Rocha, George Miner, Margaret Morgan, Alicia Hawes, Rachel GillRobert A. Holt, Mark D. Adams, Peter G. Amanatides, Holly Baden-Tillson, Mary Barnstead, Soo Chin, Cheryl A. Evans, Steve Ferriera, Carl Fosler, Anna Glodek, Zhiping Gu, Don Jennings, Cheryl L. Kraft, Trixie Nguyen, Cynthia M. Pfannkoch, Cynthia Sitter, Granger G. Sutton, J. Craig Venter, Trevor Woodage, Douglas Smith, Hong Mei Lee, Erik Gustafson, Patrick Cahill, Arnold Kana, Lynn Doucette-Stamm, Keith Weinstock, Kim Fechtel, Robert B. Weiss, Diane M. Dunn, Eric D. Green, Robert W. Blakesley, Gerard G. Bouffard, Pieter J. de Jong, Kazutoyo Osoegawa, Baoli Zhu, Marco Marra, Jacqueline Schein, Ian Bosdet, Chris Fjell, Steven Jones, Martin Krzywinski, Carrie Mathewson, Asim Siddiqui, Natasja Wye, John McPherson, Shaying Zhao, Claire M. Fraser, Jyoti Shetty, Sofiya Shatsman, Keita Geer, Yixin Chen, Sofyia Abramzon, William C. Nierman, Richard A. Gibbs, George M. Weinstock, Paul H. Havlak, Rui Chen, K. James Durbin, Amy Egan, Yanru Ren, Xing Zhi Song, Bingshan Li, Yue Liu, Xiang Qin, Simon Cawley, George M. Weinstock, Kim C. Worley, A. J. Cooney, Richard A. Gibbs, Lisa M. D'Souza, Kirt Martin, Jia Qian Wu, Manuel L. Gonzalez-Garay, Andrew R. Jackson, Kenneth J. Kalafus, Michael P. McLeod, Aleksandar Milosavljevic, Davinder Virk, Andrei Volkov, David A. Wheeler, Zhengdong Zhang, Jeffrey A. Bailey, Evan E. Eichler, Eray Tuzun, Ewan Birney, Emmanuel Mongin, Abel Ureta-Vidal, Cara Woodwark, Evgeny Zdobnov, Peer Bork, Mikita Suyama, David Torrents, Marina Alexandersson, Barbara J. Trask, Janet M. Young, Douglas Smith, Hui Huang, Kim Fechtel, Huajun Wang, Heming Xing, Keith Weinstock, Sue Daniels, Darryl Gietzen, Jeanette Schmidt, Kristian Stevens, Ursula Vitt, Jim Wingrove, Francisco Camara, M. Mar Albà, Josep F. Abril, Roderic Guigo, Arian Smit, Inna Dubchak, Edward M. Rubin, Olivier Couronne, Alexander Poliakov, Norbert Hübner, Detlev Ganten, Claudia Goesele, Oliver Hummel, Thomas Kreitler, Young Ae Lee, Jan Monti, Herbert Schulz, Heike Zimdahl, Heinz Himmelbauer, Hans Lehrach, Howard J. Jacob, Susan Bromberg, Jo Gullings-Handley, Michael I. Jensen-Seaman, Anne E. Kwitek, Jozef Lazar, Dean Pasko, Peter J. Tonellato, Simon Twigger, Chris P. Ponting, Jose M. Duarte, Stephen Rice, Leo Goodstadt, Scott A. Beatson, Richard D. Emes, Eitan E. Winter, Caleb Webber, Petra Brandt, Gerald Nyakatura, Margaret Adetobi, Francesca Chiaromonte, Laura Elnitski, Pallavi Eswara, Ross C. Hardison, Minmei Hou, Diana Kolbe, Kateryna Makova, Webb Miller, Anton Nekrutenko, Cathy Riemer, Scott Schwartz, James Taylor, Shan Yang, Yi Zhang, Klaus Lindpaintner, T. Dan Andrews, Mario Caccamo, Michele Clamp, Laura Clarke, Valerie Curwen, Richard Durbin, Eduardo Eyras, Stephen M. Searle, Gregory M. Cooper, Serafim Batzoglou, Michael Brudno, Arend Sidow, Eric A. Stone, J. Craig Venter, Bret A. Payseur, Guillaume Bourque, Carlos López-Otín, Xose S. Puente, Kushal Chakrabarti, Sourav Chatterji, Colin Dewey, Lior Pachter, Nicolas Bray, Von Bing Yap, Anat Caspi, San Diego Glenn Tesler, Pavel A. Pevzner, Santa Cruz David Haussler, Krishna M. Roskin, Robert Baertsch, Hiram Clawson, Terrence S. Furey, Angie S. Hinrichs, Donna Karolchik, William J. Kent, Kate R. Rosenbloom, Heather Trumbower, Matt Weirauch, David N. Cooper, Peter D. Stenson, Bin Ma, Michael Brent, Manimozhiyan Arumugam, David Shteynberg, Richard R. Copley, Martin S. Taylor, Harold Riethman, Uma Mudunuri, Jane Peterson, Mark Guyer, Adam Felsenfeld, Susan Old, Stephen Mockrin, Francis Collins

Research output: Contribution to journalArticle

1451 Citations (Scopus)

Abstract

The laboratory rat (Rattus norvegicus) is an indispensable tool in experimental medicine and drug development, having made inestimable contributions to human health. We report here the genome sequence of the Brown Norway (BN) rat strain. The sequence represents a high-quality 'draft' covering over 90% of the genome. The BN rat sequence is the third complete mammalian genome to be deciphered, and three-way comparisons with the human and mouse genomes resolve details of mammalian evolution. This first comprehensive analysis includes genes and proteins and their relation to human disease, repeated sequences, comparative genome-wide studies of mammalian orthologous chromosomal regions and rearrangement breakpoints, reconstruction of ancestral karyotypes and the events leading to existing species, rates of variation, and lineage-specific and lineage-independent evolutionary events such as expansion of gene families, orthology relations and protein evolution.

Original languageEnglish (US)
Pages (from-to)493-520
Number of pages28
JournalNature
Volume428
Issue number6982
DOIs
StatePublished - Apr 1 2004

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Genome
Human Genome
Karyotype
Biomedical Research
Proteins
Health
Pharmaceutical Preparations
Genes

All Science Journal Classification (ASJC) codes

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Gibbs, R. A., Weinstock, G. M., Metzker, M. L., Muzny, D. M., Sodergren, E. J., Scherer, S., ... Collins, F. (2004). Genome sequence of the Brown Norway rat yields insights into mammalian evolution. Nature, 428(6982), 493-520. https://doi.org/10.1038/nature02426
Gibbs, Richard A. ; Weinstock, George M. ; Metzker, Michael L. ; Muzny, Donna M. ; Sodergren, Erica J. ; Scherer, Steven ; Scott, Graham ; Steffen, David ; Worley, Kim C. ; Burch, Paula E. ; Okwuonu, Geoffrey ; Hines, Sandra ; Lewis, Lora ; Deramo, Christine ; Delgado, Oliver ; Dugan-Rocha, Shannon ; Miner, George ; Morgan, Margaret ; Hawes, Alicia ; Gill, Rachel ; Holt, Robert A. ; Adams, Mark D. ; Amanatides, Peter G. ; Baden-Tillson, Holly ; Barnstead, Mary ; Chin, Soo ; Evans, Cheryl A. ; Ferriera, Steve ; Fosler, Carl ; Glodek, Anna ; Gu, Zhiping ; Jennings, Don ; Kraft, Cheryl L. ; Nguyen, Trixie ; Pfannkoch, Cynthia M. ; Sitter, Cynthia ; Sutton, Granger G. ; Venter, J. Craig ; Woodage, Trevor ; Smith, Douglas ; Lee, Hong Mei ; Gustafson, Erik ; Cahill, Patrick ; Kana, Arnold ; Doucette-Stamm, Lynn ; Weinstock, Keith ; Fechtel, Kim ; Weiss, Robert B. ; Dunn, Diane M. ; Green, Eric D. ; Blakesley, Robert W. ; Bouffard, Gerard G. ; de Jong, Pieter J. ; Osoegawa, Kazutoyo ; Zhu, Baoli ; Marra, Marco ; Schein, Jacqueline ; Bosdet, Ian ; Fjell, Chris ; Jones, Steven ; Krzywinski, Martin ; Mathewson, Carrie ; Siddiqui, Asim ; Wye, Natasja ; McPherson, John ; Zhao, Shaying ; Fraser, Claire M. ; Shetty, Jyoti ; Shatsman, Sofiya ; Geer, Keita ; Chen, Yixin ; Abramzon, Sofyia ; Nierman, William C. ; Gibbs, Richard A. ; Weinstock, George M. ; Havlak, Paul H. ; Chen, Rui ; Durbin, K. James ; Egan, Amy ; Ren, Yanru ; Song, Xing Zhi ; Li, Bingshan ; Liu, Yue ; Qin, Xiang ; Cawley, Simon ; Weinstock, George M. ; Worley, Kim C. ; Cooney, A. J. ; Gibbs, Richard A. ; D'Souza, Lisa M. ; Martin, Kirt ; Wu, Jia Qian ; Gonzalez-Garay, Manuel L. ; Jackson, Andrew R. ; Kalafus, Kenneth J. ; McLeod, Michael P. ; Milosavljevic, Aleksandar ; Virk, Davinder ; Volkov, Andrei ; Wheeler, David A. ; Zhang, Zhengdong ; Bailey, Jeffrey A. ; Eichler, Evan E. ; Tuzun, Eray ; Birney, Ewan ; Mongin, Emmanuel ; Ureta-Vidal, Abel ; Woodwark, Cara ; Zdobnov, Evgeny ; Bork, Peer ; Suyama, Mikita ; Torrents, David ; Alexandersson, Marina ; Trask, Barbara J. ; Young, Janet M. ; Smith, Douglas ; Huang, Hui ; Fechtel, Kim ; Wang, Huajun ; Xing, Heming ; Weinstock, Keith ; Daniels, Sue ; Gietzen, Darryl ; Schmidt, Jeanette ; Stevens, Kristian ; Vitt, Ursula ; Wingrove, Jim ; Camara, Francisco ; Albà, M. Mar ; Abril, Josep F. ; Guigo, Roderic ; Smit, Arian ; Dubchak, Inna ; Rubin, Edward M. ; Couronne, Olivier ; Poliakov, Alexander ; Hübner, Norbert ; Ganten, Detlev ; Goesele, Claudia ; Hummel, Oliver ; Kreitler, Thomas ; Lee, Young Ae ; Monti, Jan ; Schulz, Herbert ; Zimdahl, Heike ; Himmelbauer, Heinz ; Lehrach, Hans ; Jacob, Howard J. ; Bromberg, Susan ; Gullings-Handley, Jo ; Jensen-Seaman, Michael I. ; Kwitek, Anne E. ; Lazar, Jozef ; Pasko, Dean ; Tonellato, Peter J. ; Twigger, Simon ; Ponting, Chris P. ; Duarte, Jose M. ; Rice, Stephen ; Goodstadt, Leo ; Beatson, Scott A. ; Emes, Richard D. ; Winter, Eitan E. ; Webber, Caleb ; Brandt, Petra ; Nyakatura, Gerald ; Adetobi, Margaret ; Chiaromonte, Francesca ; Elnitski, Laura ; Eswara, Pallavi ; Hardison, Ross C. ; Hou, Minmei ; Kolbe, Diana ; Makova, Kateryna ; Miller, Webb ; Nekrutenko, Anton ; Riemer, Cathy ; Schwartz, Scott ; Taylor, James ; Yang, Shan ; Zhang, Yi ; Lindpaintner, Klaus ; Andrews, T. Dan ; Caccamo, Mario ; Clamp, Michele ; Clarke, Laura ; Curwen, Valerie ; Durbin, Richard ; Eyras, Eduardo ; Searle, Stephen M. ; Cooper, Gregory M. ; Batzoglou, Serafim ; Brudno, Michael ; Sidow, Arend ; Stone, Eric A. ; Venter, J. Craig ; Payseur, Bret A. ; Bourque, Guillaume ; López-Otín, Carlos ; Puente, Xose S. ; Chakrabarti, Kushal ; Chatterji, Sourav ; Dewey, Colin ; Pachter, Lior ; Bray, Nicolas ; Yap, Von Bing ; Caspi, Anat ; Tesler, San Diego Glenn ; Pevzner, Pavel A. ; Haussler, Santa Cruz David ; Roskin, Krishna M. ; Baertsch, Robert ; Clawson, Hiram ; Furey, Terrence S. ; Hinrichs, Angie S. ; Karolchik, Donna ; Kent, William J. ; Rosenbloom, Kate R. ; Trumbower, Heather ; Weirauch, Matt ; Cooper, David N. ; Stenson, Peter D. ; Ma, Bin ; Brent, Michael ; Arumugam, Manimozhiyan ; Shteynberg, David ; Copley, Richard R. ; Taylor, Martin S. ; Riethman, Harold ; Mudunuri, Uma ; Peterson, Jane ; Guyer, Mark ; Felsenfeld, Adam ; Old, Susan ; Mockrin, Stephen ; Collins, Francis. / Genome sequence of the Brown Norway rat yields insights into mammalian evolution. In: Nature. 2004 ; Vol. 428, No. 6982. pp. 493-520.
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title = "Genome sequence of the Brown Norway rat yields insights into mammalian evolution",
abstract = "The laboratory rat (Rattus norvegicus) is an indispensable tool in experimental medicine and drug development, having made inestimable contributions to human health. We report here the genome sequence of the Brown Norway (BN) rat strain. The sequence represents a high-quality 'draft' covering over 90{\%} of the genome. The BN rat sequence is the third complete mammalian genome to be deciphered, and three-way comparisons with the human and mouse genomes resolve details of mammalian evolution. This first comprehensive analysis includes genes and proteins and their relation to human disease, repeated sequences, comparative genome-wide studies of mammalian orthologous chromosomal regions and rearrangement breakpoints, reconstruction of ancestral karyotypes and the events leading to existing species, rates of variation, and lineage-specific and lineage-independent evolutionary events such as expansion of gene families, orthology relations and protein evolution.",
author = "Gibbs, {Richard A.} and Weinstock, {George M.} and Metzker, {Michael L.} and Muzny, {Donna M.} and Sodergren, {Erica J.} and Steven Scherer and Graham Scott and David Steffen and Worley, {Kim C.} and Burch, {Paula E.} and Geoffrey Okwuonu and Sandra Hines and Lora Lewis and Christine Deramo and Oliver Delgado and Shannon Dugan-Rocha and George Miner and Margaret Morgan and Alicia Hawes and Rachel Gill and Holt, {Robert A.} and Adams, {Mark D.} and Amanatides, {Peter G.} and Holly Baden-Tillson and Mary Barnstead and Soo Chin and Evans, {Cheryl A.} and Steve Ferriera and Carl Fosler and Anna Glodek and Zhiping Gu and Don Jennings and Kraft, {Cheryl L.} and Trixie Nguyen and Pfannkoch, {Cynthia M.} and Cynthia Sitter and Sutton, {Granger G.} and Venter, {J. Craig} and Trevor Woodage and Douglas Smith and Lee, {Hong Mei} and Erik Gustafson and Patrick Cahill and Arnold Kana and Lynn Doucette-Stamm and Keith Weinstock and Kim Fechtel and Weiss, {Robert B.} and Dunn, {Diane M.} and Green, {Eric D.} and Blakesley, {Robert W.} and Bouffard, {Gerard G.} and {de Jong}, {Pieter J.} and Kazutoyo Osoegawa and Baoli Zhu and Marco Marra and Jacqueline Schein and Ian Bosdet and Chris Fjell and Steven Jones and Martin Krzywinski and Carrie Mathewson and Asim Siddiqui and Natasja Wye and John McPherson and Shaying Zhao and Fraser, {Claire M.} and Jyoti Shetty and Sofiya Shatsman and Keita Geer and Yixin Chen and Sofyia Abramzon and Nierman, {William C.} and Gibbs, {Richard A.} and Weinstock, {George M.} and Havlak, {Paul H.} and Rui Chen and Durbin, {K. James} and Amy Egan and Yanru Ren and Song, {Xing Zhi} and Bingshan Li and Yue Liu and Xiang Qin and Simon Cawley and Weinstock, {George M.} and Worley, {Kim C.} and Cooney, {A. J.} and Gibbs, {Richard A.} and D'Souza, {Lisa M.} and Kirt Martin and Wu, {Jia Qian} and Gonzalez-Garay, {Manuel L.} and Jackson, {Andrew R.} and Kalafus, {Kenneth J.} and McLeod, {Michael P.} and Aleksandar Milosavljevic and Davinder Virk and Andrei Volkov and Wheeler, {David A.} and Zhengdong Zhang and Bailey, {Jeffrey A.} and Eichler, {Evan E.} and Eray Tuzun and Ewan Birney and Emmanuel Mongin and Abel Ureta-Vidal and Cara Woodwark and Evgeny Zdobnov and Peer Bork and Mikita Suyama and David Torrents and Marina Alexandersson and Trask, {Barbara J.} and Young, {Janet M.} and Douglas Smith and Hui Huang and Kim Fechtel and Huajun Wang and Heming Xing and Keith Weinstock and Sue Daniels and Darryl Gietzen and Jeanette Schmidt and Kristian Stevens and Ursula Vitt and Jim Wingrove and Francisco Camara and Alb{\`a}, {M. Mar} and Abril, {Josep F.} and Roderic Guigo and Arian Smit and Inna Dubchak and Rubin, {Edward M.} and Olivier Couronne and Alexander Poliakov and Norbert H{\"u}bner and Detlev Ganten and Claudia Goesele and Oliver Hummel and Thomas Kreitler and Lee, {Young Ae} and Jan Monti and Herbert Schulz and Heike Zimdahl and Heinz Himmelbauer and Hans Lehrach and Jacob, {Howard J.} and Susan Bromberg and Jo Gullings-Handley and Jensen-Seaman, {Michael I.} and Kwitek, {Anne E.} and Jozef Lazar and Dean Pasko and Tonellato, {Peter J.} and Simon Twigger and Ponting, {Chris P.} and Duarte, {Jose M.} and Stephen Rice and Leo Goodstadt and Beatson, {Scott A.} and Emes, {Richard D.} and Winter, {Eitan E.} and Caleb Webber and Petra Brandt and Gerald Nyakatura and Margaret Adetobi and Francesca Chiaromonte and Laura Elnitski and Pallavi Eswara and Hardison, {Ross C.} and Minmei Hou and Diana Kolbe and Kateryna Makova and Webb Miller and Anton Nekrutenko and Cathy Riemer and Scott Schwartz and James Taylor and Shan Yang and Yi Zhang and Klaus Lindpaintner and Andrews, {T. Dan} and Mario Caccamo and Michele Clamp and Laura Clarke and Valerie Curwen and Richard Durbin and Eduardo Eyras and Searle, {Stephen M.} and Cooper, {Gregory M.} and Serafim Batzoglou and Michael Brudno and Arend Sidow and Stone, {Eric A.} and Venter, {J. Craig} and Payseur, {Bret A.} and Guillaume Bourque and Carlos L{\'o}pez-Ot{\'i}n and Puente, {Xose S.} and Kushal Chakrabarti and Sourav Chatterji and Colin Dewey and Lior Pachter and Nicolas Bray and Yap, {Von Bing} and Anat Caspi and Tesler, {San Diego Glenn} and Pevzner, {Pavel A.} and Haussler, {Santa Cruz David} and Roskin, {Krishna M.} and Robert Baertsch and Hiram Clawson and Furey, {Terrence S.} and Hinrichs, {Angie S.} and Donna Karolchik and Kent, {William J.} and Rosenbloom, {Kate R.} and Heather Trumbower and Matt Weirauch and Cooper, {David N.} and Stenson, {Peter D.} and Bin Ma and Michael Brent and Manimozhiyan Arumugam and David Shteynberg and Copley, {Richard R.} and Taylor, {Martin S.} and Harold Riethman and Uma Mudunuri and Jane Peterson and Mark Guyer and Adam Felsenfeld and Susan Old and Stephen Mockrin and Francis Collins",
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Gibbs, RA, Weinstock, GM, Metzker, ML, Muzny, DM, Sodergren, EJ, Scherer, S, Scott, G, Steffen, D, Worley, KC, Burch, PE, Okwuonu, G, Hines, S, Lewis, L, Deramo, C, Delgado, O, Dugan-Rocha, S, Miner, G, Morgan, M, Hawes, A, Gill, R, Holt, RA, Adams, MD, Amanatides, PG, Baden-Tillson, H, Barnstead, M, Chin, S, Evans, CA, Ferriera, S, Fosler, C, Glodek, A, Gu, Z, Jennings, D, Kraft, CL, Nguyen, T, Pfannkoch, CM, Sitter, C, Sutton, GG, Venter, JC, Woodage, T, Smith, D, Lee, HM, Gustafson, E, Cahill, P, Kana, A, Doucette-Stamm, L, Weinstock, K, Fechtel, K, Weiss, RB, Dunn, DM, Green, ED, Blakesley, RW, Bouffard, GG, de Jong, PJ, Osoegawa, K, Zhu, B, Marra, M, Schein, J, Bosdet, I, Fjell, C, Jones, S, Krzywinski, M, Mathewson, C, Siddiqui, A, Wye, N, McPherson, J, Zhao, S, Fraser, CM, Shetty, J, Shatsman, S, Geer, K, Chen, Y, Abramzon, S, Nierman, WC, Gibbs, RA, Weinstock, GM, Havlak, PH, Chen, R, Durbin, KJ, Egan, A, Ren, Y, Song, XZ, Li, B, Liu, Y, Qin, X, Cawley, S, Weinstock, GM, Worley, KC, Cooney, AJ, Gibbs, RA, D'Souza, LM, Martin, K, Wu, JQ, Gonzalez-Garay, ML, Jackson, AR, Kalafus, KJ, McLeod, MP, Milosavljevic, A, Virk, D, Volkov, A, Wheeler, DA, Zhang, Z, Bailey, JA, Eichler, EE, Tuzun, E, Birney, E, Mongin, E, Ureta-Vidal, A, Woodwark, C, Zdobnov, E, Bork, P, Suyama, M, Torrents, D, Alexandersson, M, Trask, BJ, Young, JM, Smith, D, Huang, H, Fechtel, K, Wang, H, Xing, H, Weinstock, K, Daniels, S, Gietzen, D, Schmidt, J, Stevens, K, Vitt, U, Wingrove, J, Camara, F, Albà, MM, Abril, JF, Guigo, R, Smit, A, Dubchak, I, Rubin, EM, Couronne, O, Poliakov, A, Hübner, N, Ganten, D, Goesele, C, Hummel, O, Kreitler, T, Lee, YA, Monti, J, Schulz, H, Zimdahl, H, Himmelbauer, H, Lehrach, H, Jacob, HJ, Bromberg, S, Gullings-Handley, J, Jensen-Seaman, MI, Kwitek, AE, Lazar, J, Pasko, D, Tonellato, PJ, Twigger, S, Ponting, CP, Duarte, JM, Rice, S, Goodstadt, L, Beatson, SA, Emes, RD, Winter, EE, Webber, C, Brandt, P, Nyakatura, G, Adetobi, M, Chiaromonte, F, Elnitski, L, Eswara, P, Hardison, RC, Hou, M, Kolbe, D, Makova, K, Miller, W, Nekrutenko, A, Riemer, C, Schwartz, S, Taylor, J, Yang, S, Zhang, Y, Lindpaintner, K, Andrews, TD, Caccamo, M, Clamp, M, Clarke, L, Curwen, V, Durbin, R, Eyras, E, Searle, SM, Cooper, GM, Batzoglou, S, Brudno, M, Sidow, A, Stone, EA, Venter, JC, Payseur, BA, Bourque, G, López-Otín, C, Puente, XS, Chakrabarti, K, Chatterji, S, Dewey, C, Pachter, L, Bray, N, Yap, VB, Caspi, A, Tesler, SDG, Pevzner, PA, Haussler, SCD, Roskin, KM, Baertsch, R, Clawson, H, Furey, TS, Hinrichs, AS, Karolchik, D, Kent, WJ, Rosenbloom, KR, Trumbower, H, Weirauch, M, Cooper, DN, Stenson, PD, Ma, B, Brent, M, Arumugam, M, Shteynberg, D, Copley, RR, Taylor, MS, Riethman, H, Mudunuri, U, Peterson, J, Guyer, M, Felsenfeld, A, Old, S, Mockrin, S & Collins, F 2004, 'Genome sequence of the Brown Norway rat yields insights into mammalian evolution', Nature, vol. 428, no. 6982, pp. 493-520. https://doi.org/10.1038/nature02426

Genome sequence of the Brown Norway rat yields insights into mammalian evolution. / Gibbs, Richard A.; Weinstock, George M.; Metzker, Michael L.; Muzny, Donna M.; Sodergren, Erica J.; Scherer, Steven; Scott, Graham; Steffen, David; Worley, Kim C.; Burch, Paula E.; Okwuonu, Geoffrey; Hines, Sandra; Lewis, Lora; Deramo, Christine; Delgado, Oliver; Dugan-Rocha, Shannon; Miner, George; Morgan, Margaret; Hawes, Alicia; Gill, Rachel; Holt, Robert A.; Adams, Mark D.; Amanatides, Peter G.; Baden-Tillson, Holly; Barnstead, Mary; Chin, Soo; Evans, Cheryl A.; Ferriera, Steve; Fosler, Carl; Glodek, Anna; Gu, Zhiping; Jennings, Don; Kraft, Cheryl L.; Nguyen, Trixie; Pfannkoch, Cynthia M.; Sitter, Cynthia; Sutton, Granger G.; Venter, J. Craig; Woodage, Trevor; Smith, Douglas; Lee, Hong Mei; Gustafson, Erik; Cahill, Patrick; Kana, Arnold; Doucette-Stamm, Lynn; Weinstock, Keith; Fechtel, Kim; Weiss, Robert B.; Dunn, Diane M.; Green, Eric D.; Blakesley, Robert W.; Bouffard, Gerard G.; de Jong, Pieter J.; Osoegawa, Kazutoyo; Zhu, Baoli; Marra, Marco; Schein, Jacqueline; Bosdet, Ian; Fjell, Chris; Jones, Steven; Krzywinski, Martin; Mathewson, Carrie; Siddiqui, Asim; Wye, Natasja; McPherson, John; Zhao, Shaying; Fraser, Claire M.; Shetty, Jyoti; Shatsman, Sofiya; Geer, Keita; Chen, Yixin; Abramzon, Sofyia; Nierman, William C.; Gibbs, Richard A.; Weinstock, George M.; Havlak, Paul H.; Chen, Rui; Durbin, K. James; Egan, Amy; Ren, Yanru; Song, Xing Zhi; Li, Bingshan; Liu, Yue; Qin, Xiang; Cawley, Simon; Weinstock, George M.; Worley, Kim C.; Cooney, A. J.; Gibbs, Richard A.; D'Souza, Lisa M.; Martin, Kirt; Wu, Jia Qian; Gonzalez-Garay, Manuel L.; Jackson, Andrew R.; Kalafus, Kenneth J.; McLeod, Michael P.; Milosavljevic, Aleksandar; Virk, Davinder; Volkov, Andrei; Wheeler, David A.; Zhang, Zhengdong; Bailey, Jeffrey A.; Eichler, Evan E.; Tuzun, Eray; Birney, Ewan; Mongin, Emmanuel; Ureta-Vidal, Abel; Woodwark, Cara; Zdobnov, Evgeny; Bork, Peer; Suyama, Mikita; Torrents, David; Alexandersson, Marina; Trask, Barbara J.; Young, Janet M.; Smith, Douglas; Huang, Hui; Fechtel, Kim; Wang, Huajun; Xing, Heming; Weinstock, Keith; Daniels, Sue; Gietzen, Darryl; Schmidt, Jeanette; Stevens, Kristian; Vitt, Ursula; Wingrove, Jim; Camara, Francisco; Albà, M. Mar; Abril, Josep F.; Guigo, Roderic; Smit, Arian; Dubchak, Inna; Rubin, Edward M.; Couronne, Olivier; Poliakov, Alexander; Hübner, Norbert; Ganten, Detlev; Goesele, Claudia; Hummel, Oliver; Kreitler, Thomas; Lee, Young Ae; Monti, Jan; Schulz, Herbert; Zimdahl, Heike; Himmelbauer, Heinz; Lehrach, Hans; Jacob, Howard J.; Bromberg, Susan; Gullings-Handley, Jo; Jensen-Seaman, Michael I.; Kwitek, Anne E.; Lazar, Jozef; Pasko, Dean; Tonellato, Peter J.; Twigger, Simon; Ponting, Chris P.; Duarte, Jose M.; Rice, Stephen; Goodstadt, Leo; Beatson, Scott A.; Emes, Richard D.; Winter, Eitan E.; Webber, Caleb; Brandt, Petra; Nyakatura, Gerald; Adetobi, Margaret; Chiaromonte, Francesca; Elnitski, Laura; Eswara, Pallavi; Hardison, Ross C.; Hou, Minmei; Kolbe, Diana; Makova, Kateryna; Miller, Webb; Nekrutenko, Anton; Riemer, Cathy; Schwartz, Scott; Taylor, James; Yang, Shan; Zhang, Yi; Lindpaintner, Klaus; Andrews, T. Dan; Caccamo, Mario; Clamp, Michele; Clarke, Laura; Curwen, Valerie; Durbin, Richard; Eyras, Eduardo; Searle, Stephen M.; Cooper, Gregory M.; Batzoglou, Serafim; Brudno, Michael; Sidow, Arend; Stone, Eric A.; Venter, J. Craig; Payseur, Bret A.; Bourque, Guillaume; López-Otín, Carlos; Puente, Xose S.; Chakrabarti, Kushal; Chatterji, Sourav; Dewey, Colin; Pachter, Lior; Bray, Nicolas; Yap, Von Bing; Caspi, Anat; Tesler, San Diego Glenn; Pevzner, Pavel A.; Haussler, Santa Cruz David; Roskin, Krishna M.; Baertsch, Robert; Clawson, Hiram; Furey, Terrence S.; Hinrichs, Angie S.; Karolchik, Donna; Kent, William J.; Rosenbloom, Kate R.; Trumbower, Heather; Weirauch, Matt; Cooper, David N.; Stenson, Peter D.; Ma, Bin; Brent, Michael; Arumugam, Manimozhiyan; Shteynberg, David; Copley, Richard R.; Taylor, Martin S.; Riethman, Harold; Mudunuri, Uma; Peterson, Jane; Guyer, Mark; Felsenfeld, Adam; Old, Susan; Mockrin, Stephen; Collins, Francis.

In: Nature, Vol. 428, No. 6982, 01.04.2004, p. 493-520.

Research output: Contribution to journalArticle

TY - JOUR

T1 - Genome sequence of the Brown Norway rat yields insights into mammalian evolution

AU - Gibbs, Richard A.

AU - Weinstock, George M.

AU - Metzker, Michael L.

AU - Muzny, Donna M.

AU - Sodergren, Erica J.

AU - Scherer, Steven

AU - Scott, Graham

AU - Steffen, David

AU - Worley, Kim C.

AU - Burch, Paula E.

AU - Okwuonu, Geoffrey

AU - Hines, Sandra

AU - Lewis, Lora

AU - Deramo, Christine

AU - Delgado, Oliver

AU - Dugan-Rocha, Shannon

AU - Miner, George

AU - Morgan, Margaret

AU - Hawes, Alicia

AU - Gill, Rachel

AU - Holt, Robert A.

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PY - 2004/4/1

Y1 - 2004/4/1

N2 - The laboratory rat (Rattus norvegicus) is an indispensable tool in experimental medicine and drug development, having made inestimable contributions to human health. We report here the genome sequence of the Brown Norway (BN) rat strain. The sequence represents a high-quality 'draft' covering over 90% of the genome. The BN rat sequence is the third complete mammalian genome to be deciphered, and three-way comparisons with the human and mouse genomes resolve details of mammalian evolution. This first comprehensive analysis includes genes and proteins and their relation to human disease, repeated sequences, comparative genome-wide studies of mammalian orthologous chromosomal regions and rearrangement breakpoints, reconstruction of ancestral karyotypes and the events leading to existing species, rates of variation, and lineage-specific and lineage-independent evolutionary events such as expansion of gene families, orthology relations and protein evolution.

AB - The laboratory rat (Rattus norvegicus) is an indispensable tool in experimental medicine and drug development, having made inestimable contributions to human health. We report here the genome sequence of the Brown Norway (BN) rat strain. The sequence represents a high-quality 'draft' covering over 90% of the genome. The BN rat sequence is the third complete mammalian genome to be deciphered, and three-way comparisons with the human and mouse genomes resolve details of mammalian evolution. This first comprehensive analysis includes genes and proteins and their relation to human disease, repeated sequences, comparative genome-wide studies of mammalian orthologous chromosomal regions and rearrangement breakpoints, reconstruction of ancestral karyotypes and the events leading to existing species, rates of variation, and lineage-specific and lineage-independent evolutionary events such as expansion of gene families, orthology relations and protein evolution.

UR - http://www.scopus.com/inward/record.url?scp=1842684068&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=1842684068&partnerID=8YFLogxK

U2 - 10.1038/nature02426

DO - 10.1038/nature02426

M3 - Article

C2 - 15057822

AN - SCOPUS:1842684068

VL - 428

SP - 493

EP - 520

JO - Nature

JF - Nature

SN - 0028-0836

IS - 6982

ER -

Gibbs RA, Weinstock GM, Metzker ML, Muzny DM, Sodergren EJ, Scherer S et al. Genome sequence of the Brown Norway rat yields insights into mammalian evolution. Nature. 2004 Apr 1;428(6982):493-520. https://doi.org/10.1038/nature02426