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

TitleGenome sequence of the Brown Norway rat yields insights into mammalian evolution.
Publication TypeJournal Article
Year of Publication2004
AuthorsGibbs, 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, J Venter, C, Woodage, T, Smith, D, Lee, H-M, 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, Havlak, PH, Chen, R, K Durbin, J, Egan, A, Ren, Y, Song, X-Z, Li, B, Liu, Y, Qin, X, Cawley, S, Worley, KC, Cooney, AJ, D'Souza, LM, Martin, K, Wu, JQian, 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, Huang, H, Wang, H, Xing, H, Daniels, S, Gietzen, D, Schmidt, J, Stevens, K, Vitt, U, Wingrove, J, Camara, F, M Albà, M, Abril, JF, Guigó, R, Smit, A, Dubchak, I, Rubin, EM, Couronne, O, Poliakov, A, Hübner, N, Ganten, D, Goesele, C, Hummel, O, Kreitler, T, Lee, Y-A, 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, T Andrews, D, Caccamo, M, Clamp, M, Clarke, L, Curwen, V, Durbin, R, Eyras, E, Searle, SM, Cooper, GM, Batzoglou, S, Brudno, M, Sidow, A, Stone, EA, J Venter, C, Payseur, BA, Bourque, G, López-Otín, C, Puente, XS, Chakrabarti, K, Chatterji, S, Dewey, C, Pachter, L, Bray, N, Yap, VBing, Caspi, A, Tesler, G, Pevzner, PA, Haussler, D, 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
Corporate AuthorsRat Genome Sequencing Project Consortium
JournalNature
Volume428
Issue6982
Pagination493-521
Date Published2004 Apr 01
ISSN1476-4687
KeywordsAnimals, Base Composition, Centromere, Chromosomes, Mammalian, CpG Islands, DNA Transposable Elements, DNA, Mitochondrial, Evolution, Molecular, Gene Duplication, Genome, Genomics, Humans, Introns, Male, Mice, Models, Molecular, Mutagenesis, Polymorphism, Single Nucleotide, Rats, Rats, Inbred BN, Regulatory Sequences, Nucleic Acid, Retroelements, RNA Splice Sites, RNA, Untranslated, Sequence Analysis, DNA, Telomere
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.

DOI10.1038/nature02426
Alternate JournalNature
PubMed ID15057822
Grant ListR01 HL064541 / HL / NHLBI NIH HHS / United States
U01 HG002137-02S2 / HG / NHGRI NIH HHS / United States
U54 HG003273 / HG / NHGRI NIH HHS / United States
R01 HG002939 / HG / NHGRI NIH HHS / United States
U01 HG002137 / HG / NHGRI NIH HHS / United States