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PMID: 15059993 Published · ppublish English Comparative Study Journal Article Research Support, Non-U.S. Gov't Research Support, U.S. Gov't, Non-P.H.S. Research Support, U.S. Gov't, P.H.S.

Comparative recombination rates in the rat, mouse, and human genomes.

Genome research ·Vol. 14 ·No. 4 ·2004-04-00 ·Pages 528-38

Jensen-Seaman MI, Furey TS, Payseur BA, Lu Y, Roskin KM, Chen CF, Thomas MA, Haussler D, Jacob HJ

Abstract

Levels of recombination vary among species, among chromosomes within species, and among regions within chromosomes in mammals. This heterogeneity may affect levels of diversity, efficiency of selection, and genome composition, as well as have practical consequences for the genetic mapping of traits. We compared the genetic maps to the genome sequence assemblies of rat, mouse, and human to estimate local recombination rates across these genomes. Humans have greater overall levels of recombination, as well as greater variance. In rat and mouse, the size of the chromosome and proximity to telomere have less effect on local recombination rate than in human. At the chromosome level, rat and mouse X chromosomes have the lowest recombination rates, whereas human chromosome X does not show the same pattern. In all species, local recombination rate is significantly correlated with several sequence variables, including GC%, CpG density, repetitive elements, and the neutral mutation rate, with some pronounced differences between species. Recombination rate in one species is not strongly correlated with the rate in another, when comparing homologous syntenic blocks of the genome. This comparative approach provides additional insight into the causes and consequences of genomic heterogeneity in recombination.

MeSH Terms
Animals Base Composition/genetics Chromosomes/genetics Crosses, Genetic Evolution, Molecular Genetic Variation/genetics Genome Genome, Human Humans Mice Mice, Inbred Strains Mice, Obese Rats Rats, Inbred BN Rats, Inbred SHR Recombination, Genetic/genetics Species Specificity
Authors & Affiliations
9 authors, click to expand affiliations / ORCID
Jensen-Seaman Michael I
Human and Molecular Genetics Center, Medical College of Wisconsin, Milwaukee, Wisconsin 53226, USA. [email protected]
Furey Terrence S
Payseur Bret A
Lu Yontao
Roskin Krishna M
Chen Chin-Fu
Thomas Michael A
Haussler David
Jacob Howard J
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Article Info
Journal
Genome research
Abbr.
Genome Res
ISSN
1088-9051
DOI
10.1101/gr.1970304
Email
[email protected]
Published
2004-04-00
Pages
528-38
Language
English
Region
United States
NLM ID
9518021
PMCID
PMC383296
Subset
IM
Grants
NHLBI NIH HHS · F32 HL070527 · United States
NHLBI NIH HHS · 1F32HL70527-01 · United States
External Links
PubMed source DOI: 10.1101/gr.1970304 PMC Full Text View journal details
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