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PMID: 17697342 Published · ppublish English Journal Article Research Support, Non-U.S. Gov't Research Support, U.S. Gov't, Non-P.H.S.

A physical map of the bovine genome.

Genome biology ·Vol. 8 ·No. 8 ·2007-00-00 ·Pages R165

Snelling WM, Chiu R, Schein JE, Hobbs M, Abbey CA, Adelson DL, Aerts J, Bennett GL, Bosdet IE, Boussaha M, Brauning R, Caetano AR, Costa MM, Crawford AM, Dalrymple BP, Eggen A, Everts-van der Wind A, Floriot S, Gautier M, Gill CA, Green RD, Holt R, Jann O, Jones SJ, Kappes SM, Keele JW, de Jong PJ, Larkin DM, Lewin HA, McEwan JC, McKay S, Marra MA, Mathewson CA, Matukumalli LK, Moore SS, Murdoch B, Nicholas FW, Osoegawa K, Roy A, Salih H, Schibler L, Schnabel RD, Silveri L, Skow LC, Smith TP, Sonstegard TS, Taylor JF, Tellam R, Van Tassell CP, Williams JL, Womack JE, Wye NH, Yang G, Zhao S, International Bovine BAC Mapping Consortium

Abstract

Cattle are important agriculturally and relevant as a model organism. Previously described genetic and radiation hybrid (RH) maps of the bovine genome have been used to identify genomic regions and genes affecting specific traits. Application of these maps to identify influential genetic polymorphisms will be enhanced by integration with each other and with bacterial artificial chromosome (BAC) libraries. The BAC libraries and clone maps are essential for the hybrid clone-by-clone/whole-genome shotgun sequencing approach taken by the bovine genome sequencing project. A bovine BAC map was constructed with HindIII restriction digest fragments of 290,797 BAC clones from animals of three different breeds. Comparative mapping of 422,522 BAC end sequences assisted with BAC map ordering and assembly. Genotypes and pedigree from two genetic maps and marker scores from three whole-genome RH panels were consolidated on a 17,254-marker composite map. Sequence similarity allowed integrating the BAC and composite maps with the bovine draft assembly (Btau3.1), establishing a comprehensive resource describing the bovine genome. Agreement between the marker and BAC maps and the draft assembly is high, although discrepancies exist. The composite and BAC maps are more similar than either is to the draft assembly. Further refinement of the maps and greater integration into the genome assembly process may contribute to a high quality assembly. The maps provide resources to associate phenotypic variation with underlying genomic variation, and are crucial resources for understanding the biology underpinning this important ruminant species so closely associated with humans.

MeSH Terms
Animals Base Sequence Cattle Chromosomes, Artificial, Bacterial/chemistry,genetics Chromosomes, Mammalian/genetics Deoxyribonuclease HindIII/chemistry Gene Order Genetic Markers/genetics Genome Genome, Human Genotype Humans Molecular Sequence Data Pedigree Radiation Hybrid Mapping Sequence Alignment
Chemicals
Genetic Markers Deoxyribonuclease HindIII
Authors & Affiliations
55 authors, click to expand affiliations / ORCID
Snelling Warren M
USDA, ARS, US Meat Animal Research Center, Clay Center, NE 68933, USA. [email protected]
Chiu Readman
Schein Jacqueline E
Hobbs Matthew
Abbey Colette A
Adelson David L
Aerts Jan
Bennett Gary L
Bosdet Ian E
Boussaha Mekki
Brauning Rudiger
Caetano Alexandre R
Costa Marcos M
Crawford Allan M
Dalrymple Brian P
Eggen André
Everts-van der Wind Annelie
Floriot Sandrine
Gautier Mathieu
Gill Clare A
Green Ronnie D
Holt Robert
Jann Oliver
Jones Steven Jm
Kappes Steven M
Keele John W
de Jong Pieter J
Larkin Denis M
Lewin Harris A
McEwan John C
McKay Stephanie
Marra Marco A
Mathewson Carrie A
Matukumalli Lakshmi K
Moore Stephen S
Murdoch Brenda
Nicholas Frank W
Osoegawa Kazutoyo
Roy Alice
Salih Hanni
Schibler Laurent
Schnabel Robert D
Silveri Licia
Skow Loren C
Smith Timothy Pl
Sonstegard Tad S
Taylor Jeremy F
Tellam Ross
Van Tassell Curtis P
Williams John L
Womack James E
Wye Natasja H
Yang George
Zhao Shaying
International Bovine BAC Mapping Consortium
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Article Info
Journal
Genome biology
Abbr.
Genome Biol
ISSN
1474-760X
DOI
10.1186/gb-2007-8-8-r165
Email
[email protected]
Published
2007-00-00
Pages
R165
Language
English
Region
England
NLM ID
100960660
PMCID
PMC2374996
Subset
IM
Grants
Biotechnology and Biological Sciences Research Council · BBS/B/05478 · United Kingdom
Biotechnology and Biological Sciences Research Council · BBS/B/13454 · United Kingdom
Biotechnology and Biological Sciences Research Council · BBS/E/R/00000685 · United Kingdom
External Links
PubMed source DOI: 10.1186/gb-2007-8-8-r165 PMC Full Text View journal details
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