Whole-genome sequencing of 234 bulls facilitates mapping of monogenic and complex traits in cattle

被引：625

作者：

Daetwyler, Hans D. ^{[1
,2
,3
]}

Capitan, Aurelien ^{[4
,5
]}

Pausch, Hubert ^{[6
]}

Stothard, Paul ^{[7
]}

Van Binsbergen, Rianne ^{[8
]}

Brondum, Rasmus F. ^{[9
]}

Liao, Xiaoping ^{[7
]}

Djari, Anis ^{[10
]}

Rodriguez, Sabrina C. ^{[4
]}

Grohs, Cecile ^{[4
]}

Esquerre, Diane ^{[11
]}

Bouchez, Olivier ^{[11
]}

Rossignol, Marie-Noelle ^{[12
]}

Klopp, Christophe ^{[10
]}

Rocha, Dominique ^{[4
]}

Fritz, Sebastien ^{[5
]}

Eggen, Andre ^{[4
]}

Bowman, Phil J. ^{[1
,3
]}

Coote, David ^{[1
,3
]}

Chamberlain, Amanda J. ^{[1
,3
]}

Anderson, Charlotte ^{[1
]}

VanTassell, Curt P. ^{[13
]}

Hulsegge, Ina ^{[8
]}

Goddard, Mike E. ^{[1
,3
,14
]}

Guldbrandtsen, Bernt ^{[9
]}

Lund, Mogens S. ^{[9
]}

Veerkamp, Roel F. ^{[8
]}

Boichard, Didier A. ^{[4
]}

Fries, Ruedi ^{[6
]}

Hayes, Ben J. ^{[1
,2
,3
]}

机构：

[1] Dept Environm & Primary Ind, Biosci Res Div, Bundoora, Vic, Australia

[2] La Trobe Univ, Sch Appl Syst Biol, Bundoora, Vic, Australia

[3] Dairy Futures Cooperat Res Ctr, Bundoora, Vic, Australia

[4] INRA, UMR Genet Anim & Biol Integrat 1313, Jouy En Josas, France

[5] Union Natl Cooperat Elevage & Inseminat Anim, Paris, France

[6] Tech Univ Muenchen, Chair Anim Breeding, Freising Weihenstephan, Germany

[7] Univ Alberta, Dept Agr, Food & Nutr Sci, Edmonton, AB, Canada

[8] Univ Wageningen & Res Ctr, Anim Breeding & Genom Ctr, Wageningen, Netherlands

[9] Aarhus Univ, Dept Mol Biol & Genet, Ctr Quantitat Genet & Genom, Tjele, Denmark

[10] INRA, Sigenae Bioinformat Grp, UR875, Castres, France

[11] INRA, Lab Genet Cellulaire, UMR 444, Castres, France

[12] LABOGENA, Jouy En Josas, France

[13] USDA ARS, Anim & Nat Resources Inst, Bovine Funct Genom Lab BARC East, Beltsville, MD USA

[14] Univ Melbourne, Fac Land & Food Resources, Parkville, Vic 3052, Australia

来源：

NATURE GENETICS | 2014年 / 46卷 / 08期

基金：

美国食品与农业研究所;

关键词：

BOOPHILUS-MICROPLUS RESISTANCE; GENOTYPE IMPUTATION; MILK-YIELD; CONDENSIN; GENE; MUTATIONS; HYPOCHONDROGENESIS; IDENTIFICATION; SUBSTITUTION; POLYMORPHISM;

D O I：

10.1038/ng.3034

中图分类号：

Q3 [遗传学];

学科分类号：

071007 ; 090102 ;

摘要：

The 1000 bull genomes project supports the goal of accelerating the rates of genetic gain in domestic cattle while at the same time considering animal health and welfare by providing the annotated sequence variants and genotypes of key ancestor bulls. In the first phase of the 1000 bull genomes project, we sequenced the whole genomes of 234 cattle to an average of 8.3-fold coverage. This sequencing includes data for 129 individuals from the global Holstein-Friesian population, 43 individuals from the Fleckvieh breed and 15 individuals from the Jersey breed. We identified a total of 28.3 million variants, with an average of 1.44 heterozygous sites per kilobase for each individual. We demonstrate the use of this database in identifying a recessive mutation underlying embryonic death and a dominant mutation underlying lethal chrondrodysplasia. We also performed genome-wide association studies for milk production and curly coat, using imputed sequence variants, and identified variants associated with these traits in cattle.

引用

页码：858 / 865

页数：8

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