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

Gibbs, Richard A. and Pachter, Lior (2004) Genome sequence of the Brown Norway rat yields insights into mammalian evolution. Nature, 428 (6982). pp. 493-521. ISSN 0028-0836. doi:10.1038/nature02426. https://resolver.caltech.edu/CaltechAUTHORS:20170308-145138306

	MS Word (Supplementary Information. Additional history of the rat, rat genetics, and the rat genome sequencing project) - Supplemental Material See Usage Policy. 157kB
	PDF (Supplementary Figure 1. BAC clone selection process) - Supplemental Material See Usage Policy. 45kB
	Image (JPEG) (Supplementary Figure 2. Coverage of finished BACs based on depth of BAC bait coverage) - Supplemental Material See Usage Policy. 24kB
	PDF (Supplementary Figure 3. Partitioning of the Fingerprint and YAC map contigs against the rat sequence assembly) - Supplemental Material See Usage Policy. 13MB
	Image (JPEG) (Supplementary Figure 4. Coverage of BAC clones selected for sequencing from the fingerprint map) - Supplemental Material See Usage Policy. 166kB
	Image (JPEG) (Supplementary Figure 5. Correlation of SINE locations in rat and mouse) - Supplemental Material See Usage Policy. 159kB
	PDF (Supplementary Figure 6. Dot-plots showing positions of aligning segments in rat-rat, rat-mouse, and rat-human comparisons, for a 10 Mb region of rat Chromosome 10 and the orthologous regions in mouse and human) - Supplemental Material See Usage Policy. 422kB
	PDF (Supplementary Figure 7. Sequence conservation at AG acceptor splice sites in aligned introns) - Supplemental Material See Usage Policy. 46kB
	PDF (Supplementary Figure 8. Sequence conservation at GT donor splice sites in aligned introns) - Supplemental Material See Usage Policy. 46kB
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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.

Item Type:

Article

Related URLs:

URL	URL Type	Description
http://dx.doi.org/10.1038/nature02426	DOI	Article
http://www.nature.com/nature/journal/v428/n6982/full/nature02426.html	Publisher	Article
http://rdcu.be/pU15	Publisher	Free ReadCube access

ORCID:

Author	ORCID
Pachter, Lior	0000-0002-9164-6231

Additional Information:

© 2004 Macmillan Publishers Limited. Received 31 December 2003; Accepted 20 February 2004. Work at Baylor College of Medicine was supported by a grant from the NHGRI and NHLBI to R.A.G. Work at Genome Therapeutics was supported by grants from the NHGRI to D.S. A.S. acknowledges support from the NIGMS. M.B. acknowledges support from the NIH. N.H. was supported by the NGFN/BMBF (German Ministry for Research and Education). B.J.T. and J.M.Y. are supported by an NIH grant from the NIDCD. K.M.R. and G.M.C. are Howard Hughes Medical Institute Predoctoral Fellows. L.M.D'S., K.M. and K.J.K. are supported by training fellowships from the W. M. Keck Foundation to the Gulf Coast Consortia through the Keck Center for Computational and Structural Biology. Work at Case Western Reserve was supported in part by NIH grants to E.E.E. Work at IMIM was supported by a grant from Plan Nacional de I + D (Spain). M.M.A. acknowledges support from programme Ramón y Cajal and a grant from the Spanish Ministry of Science and Technology. Work at Universidad de Oviedo was supported by grants from the European Union, Obra Social Cajastur and Gobierno del Principado de Asturias. Work at Penn State University was supported by NHGRI grants. Work at the University of California Berkeley was supported by a grant from the NIH. Work at the Washington University School of Medicine Genome Sequencing Center and the British Columbia Cancer Agency Genome Sciences Centre was supported by an NIH grant. Work at UCSC and CHORI was supported by the NHGRI. The author declares no competing financial interests.

Funders:

Funding Agency	Grant Number
National Human Genome Research Institute	UNSPECIFIED
National Heart, Lung, and Blood Institute	UNSPECIFIED
National Institute of General Medical Sciences	UNSPECIFIED
Bundesministerium für Bildung und Forschung (BMBF)	UNSPECIFIED
NIH	UNSPECIFIED
Howard Hughes Medical Institute (HHMI)	UNSPECIFIED
W. M. Keck Foundation	UNSPECIFIED
Plan Nacional de I + D (Spain)	UNSPECIFIED
Ramón y Cajal Programme	UNSPECIFIED
Ministerio de Ciencia y Tecnología (MYCT)	UNSPECIFIED
European Union	UNSPECIFIED
Obra Social Cajastur	UNSPECIFIED
Gobierno del Principado de Asturias	UNSPECIFIED

Issue or Number:

6982

DOI:

10.1038/nature02426

Record Number:

CaltechAUTHORS:20170308-145138306

Persistent URL:

https://resolver.caltech.edu/CaltechAUTHORS:20170308-145138306

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No commercial reproduction, distribution, display or performance rights in this work are provided.

ID Code:

74926

Collection:

CaltechAUTHORS

Deposited By:

George Porter

Deposited On:

09 Mar 2017 15:32

Last Modified:

15 Nov 2021 16:29

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