A physical map of the bovine genome.
Warren M. Snelling
(1)
,
Readman Chiu
(2)
,
Jacqueline E Schein
(2)
,
Matthew Hobbs
(3)
,
Colette A Abbey
(4)
,
David L. Adelson
(4)
,
Jan Aerts
(5)
,
Gary L. Bennett
(1)
,
Ian E. Bosdet
(2)
,
Mekki Boussaha
(6)
,
Rudiger Brauning
(7)
,
Alexandre R. Caetano
(8)
,
Marcos M. Costa
(8)
,
Allan M. Crawford
(7)
,
Brian P. Dalrymple
(9)
,
Andre A. Eggen
(6)
,
Annelie Everts-van Der Wind
(10)
,
Sandrine Floriot
(6)
,
Mathieu M. Gautier
(6)
,
Claire A. Gill
(4)
,
Ronnie D. Green
(11)
,
Robert Holt
(2)
,
Oliver Jann
(5)
,
Steven Jm. Jones
(2)
,
Pieter J. de Jong
(12)
,
Steven M. Kappes
(11)
,
John W. Keele
(1)
,
Denis M. Larkin
(10)
,
Harris A. Lewin
(10, 13)
,
John C. Mcewan
(7)
,
Stephanie Mckay
(14)
,
Marco A. Marra
(2)
,
Carrie A Mathewson
(2)
,
Lakshmi K. Matukumalli
(15)
,
Stephen S. Moore
(14)
,
Brenda Murdoch
(14)
,
Frank W. Nicholas
(3)
,
Kazutoyo Osoegawa
(12)
,
Alice Roy
(15)
,
Hanni Salih
(4)
,
Laurent L. Schibler
(6)
,
Robert D. Schnabel
(16)
,
Licia Silveri
(17)
,
L.C. Skow
(4)
,
Timothy Pl. Smith
(1)
,
Tad S. Sonstegard
(15)
,
Jeremy F. Taylor
(16)
,
Ross Tellam
(9)
,
Curtis P Van Tassell
(15)
,
John L. Williams
(15, 18)
,
James E. Womack
(4)
,
Natasja H. Wye
(2)
,
George Yang
(2)
,
Shaying Zhao
(19, 20)
1
USDA -
United States Department of Agriculture
2 British Columbia Cancer Agency
3 University of Sydney
4 Texas A&M University System
5 The Roslin Institute
6 LGBC - Unité de recherche Génétique Biochimique et Cytogénétique
7 Agresearch Ltd
8 Parque Estaçao Biologica
9 Livestock Industries
10 Department of Animal Sciences
11 USDA-ARS : Agricultural Research Service
12 Children's Hospital Oakland Research Institute
13 Institute for Genomic Biology
14 Department of Agricultural, Food and Nutritional Science
15 Consortium national de recherche en génomique
16 Mizzou - University of Missouri [Columbia]
17 Istituto di Zootecnica
18 Parco Tecnologico Padano
19 TIGR - The Institute for Genomic Research
20 University of Georgia [USA]
2 British Columbia Cancer Agency
3 University of Sydney
4 Texas A&M University System
5 The Roslin Institute
6 LGBC - Unité de recherche Génétique Biochimique et Cytogénétique
7 Agresearch Ltd
8 Parque Estaçao Biologica
9 Livestock Industries
10 Department of Animal Sciences
11 USDA-ARS : Agricultural Research Service
12 Children's Hospital Oakland Research Institute
13 Institute for Genomic Biology
14 Department of Agricultural, Food and Nutritional Science
15 Consortium national de recherche en génomique
16 Mizzou - University of Missouri [Columbia]
17 Istituto di Zootecnica
18 Parco Tecnologico Padano
19 TIGR - The Institute for Genomic Research
20 University of Georgia [USA]
Mekki Boussaha
- Fonction : Auteur
- PersonId : 744957
- IdHAL : mekki-boussaha
- ORCID : 0000-0002-5432-4604
Sandrine Floriot
- Fonction : Auteur
- PersonId : 744473
- IdHAL : sandrine-floriot
- ORCID : 0000-0001-9936-5621
Mathieu M. Gautier
- Fonction : Auteur
- PersonId : 735868
- IdHAL : mathieu-gautier-1976
- ORCID : 0000-0001-7257-5880
- IdRef : 242327257
Robert Holt
- Fonction : Auteur
- PersonId : 795003
- ORCID : 0000-0002-6685-547X
Alice Roy
- Fonction : Auteur
- PersonId : 182034
- IdHAL : alice-catherine-roy
- IdRef : 253129346
Résumé
Background 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.
Results 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.
Conclusion 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.
Domaines
Sciences du Vivant [q-bio]
Origine : Fichiers éditeurs autorisés sur une archive ouverte
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