Identification of the putative ancestral allele of bovine single-nucleotide polymorphisms

被引：28

作者：

Rocha, D. ^{[1
,2
]}

Billerey, C. ^{[1
,2
,3
,4
]}

Samson, F. ^{[5
]}

Boichard, D. ^{[1
,2
]}

Boussaha, M. ^{[1
,2
]}

机构：

[1] INRA, UMR1313, Unite Genet Anim & Biol Integrat, Jouy En Josas, France

[2] AgroParisTech, UMR1313, Unite Genet Anim & Biol Integrat, Jouy En Josas, France

[3] Univ Paris 11, Inst Genet & Microbiol, UMR8621, Orsay, France

[4] CNRS, Inst Genet & Microbiol, UMR8621, F-91405 Orsay, France

[5] INRA, UR1077, Jouy En Josas, France

来源：

JOURNAL OF ANIMAL BREEDING AND GENETICS | 2014年 / 131卷 / 06期

关键词：

Ancestral allele; cattle; comparative genomics; sequence alignment; single-nucleotide polymorphisms; SELECTIVE SWEEPS; CATTLE;

D O I：

10.1111/jbg.12095

中图分类号：

S8 [畜牧、动物医学、狩猎、蚕、蜂];

学科分类号：

0905 ;

摘要：

Identifying the action of natural selection from patterns of standing genetic variation has long been of interest to the population genetic community. Thanks to the availability of large single-nucleotide polymorphism (SNP) data sets for many species and of high-throughput SNP genotyping methods, whole-genomic surveys to detect selective sweeps are now possible. Knowing the ancestral allele increases the power to detect selection. We present here a comparative genomic approach to determine the putative ancestral allele of bovine SNPs deposited in public databases. We analysed 19 551 488 SNPs and identified the putative ancestral allele for 14 339 107 SNPs. Our predicted ancestral alleles were in agreement with ancestral alleles detected by genotyping outgroup species for 97% SNPs from the BovineSNP50 BeadChip. This comparison indicates that our comparative genomic-based approach to identify putative ancestral alleles is reliable.

引用

页码：483 / 486

页数：4

共 8 条

[1]

[Anonymous], THESIS PENNSYLVANIA

[2] Detection of signatures of selective sweeps in the Blonde d'Aquitaine cattle breed [J].