Genome-wide association study in Chinese Holstein cows reveal two candidate genes for somatic cell score as an indicator for mastitis susceptibility

Xiao Wang; Peipei Ma; Jianfeng Liu; Qin Zhang; Yuan Zhang; Xiangdong Ding; Li Jiang; Yachun Wang; Yi Zhang; Dongxiao Sun; Shengli Zhang; Guosheng Su; Ying Yu

doi:10.1186/s12863-015-0263-3

Genome-wide association study in Chinese Holstein cows reveal two candidate genes for somatic cell score as an indicator for mastitis susceptibility

BMC Genet. 2015 Sep 15:16:111. doi: 10.1186/s12863-015-0263-3.

Authors

Xiao Wang^{1

2}, Peipei Ma^{3

4}, Jianfeng Liu⁵, Qin Zhang⁶, Yuan Zhang⁷, Xiangdong Ding⁸, Li Jiang⁹, Yachun Wang¹⁰, Yi Zhang¹¹, Dongxiao Sun¹², Shengli Zhang¹³, Guosheng Su¹⁴, Ying Yu¹⁵

Affiliations

¹ Key Laboratory of Animal Genetics, Breeding and Reproduction, Ministry of Agriculture of China, National Engineering Laboratory for Animal Breeding, College of Animal Science and Technology, China Agricultural University, 100193, Beijing, People's Republic of China. wangxiao880923@gmail.com.
² Department of Molecular Biology and Genetics, Center for Quantitative Genetics and Genomics, Aarhus University, DK-8830, Tjele, Denmark. wangxiao880923@gmail.com.
³ Key Laboratory of Animal Genetics, Breeding and Reproduction, Ministry of Agriculture of China, National Engineering Laboratory for Animal Breeding, College of Animal Science and Technology, China Agricultural University, 100193, Beijing, People's Republic of China. peipei.ma@mbg.au.dk.
⁴ Department of Molecular Biology and Genetics, Center for Quantitative Genetics and Genomics, Aarhus University, DK-8830, Tjele, Denmark. peipei.ma@mbg.au.dk.
⁵ Key Laboratory of Animal Genetics, Breeding and Reproduction, Ministry of Agriculture of China, National Engineering Laboratory for Animal Breeding, College of Animal Science and Technology, China Agricultural University, 100193, Beijing, People's Republic of China. liujf@cau.edu.cn.
⁶ Key Laboratory of Animal Genetics, Breeding and Reproduction, Ministry of Agriculture of China, National Engineering Laboratory for Animal Breeding, College of Animal Science and Technology, China Agricultural University, 100193, Beijing, People's Republic of China. qzhang@cau.edu.cn.
⁷ Key Laboratory of Animal Genetics, Breeding and Reproduction, Ministry of Agriculture of China, National Engineering Laboratory for Animal Breeding, College of Animal Science and Technology, China Agricultural University, 100193, Beijing, People's Republic of China. changy@cau.edu.cn.
⁸ Key Laboratory of Animal Genetics, Breeding and Reproduction, Ministry of Agriculture of China, National Engineering Laboratory for Animal Breeding, College of Animal Science and Technology, China Agricultural University, 100193, Beijing, People's Republic of China. xding@cau.edu.cn.
⁹ Key Laboratory of Animal Genetics, Breeding and Reproduction, Ministry of Agriculture of China, National Engineering Laboratory for Animal Breeding, College of Animal Science and Technology, China Agricultural University, 100193, Beijing, People's Republic of China. jiangli198374@163.com.
¹⁰ Key Laboratory of Animal Genetics, Breeding and Reproduction, Ministry of Agriculture of China, National Engineering Laboratory for Animal Breeding, College of Animal Science and Technology, China Agricultural University, 100193, Beijing, People's Republic of China. wangyachun@cau.edu.cn.
¹¹ Key Laboratory of Animal Genetics, Breeding and Reproduction, Ministry of Agriculture of China, National Engineering Laboratory for Animal Breeding, College of Animal Science and Technology, China Agricultural University, 100193, Beijing, People's Republic of China. zhangyicau@gmail.com.
¹² Key Laboratory of Animal Genetics, Breeding and Reproduction, Ministry of Agriculture of China, National Engineering Laboratory for Animal Breeding, College of Animal Science and Technology, China Agricultural University, 100193, Beijing, People's Republic of China. sundx@cau.edu.cn.
¹³ Key Laboratory of Animal Genetics, Breeding and Reproduction, Ministry of Agriculture of China, National Engineering Laboratory for Animal Breeding, College of Animal Science and Technology, China Agricultural University, 100193, Beijing, People's Republic of China. zhangsl1206@yahoo.com.cn.
¹⁴ Department of Molecular Biology and Genetics, Center for Quantitative Genetics and Genomics, Aarhus University, DK-8830, Tjele, Denmark. guosheng.su@mbg.au.dk.
¹⁵ Key Laboratory of Animal Genetics, Breeding and Reproduction, Ministry of Agriculture of China, National Engineering Laboratory for Animal Breeding, College of Animal Science and Technology, China Agricultural University, 100193, Beijing, People's Republic of China. yuying@cau.edu.cn.

Abstract

Backgrounds: Bovine mastitis is a typical inflammatory disease causing seriously economic loss. Genome-wide association study (GWAS) can be a powerful method to promote marker assistant selection of this kind of complex disease. The present study aimed to analyze and identify single nucleotide polymorphisms (SNPs) and candidate genes that associated with mastitis susceptibility traits in Chinese Holstein.

Results: Forty eight SNPs were identified significantly associated with mastitis resistance traits in Chinese Holstein cows, which are mainly located on the BTA 14. A total of 41 significant SNPs were linked to 31 annotated bovine genes. Gene Ontology and pathway enrichment revealed 5 genes involved in 32 pathways, in which, TRAPPC9 and ARHGAP39 genes participate cell differentiation and developmental pathway together. The six common genome-wide significant SNPs are found located within TRAPPC9 and flanking ARHGAP39 genes.

Conclusions: Our data identified the six SNPs significantly associated with SCS EBVs, which suggest that their linked two genes (TRAPPC9 and ARHGAP39) are novel candidate genes of mastitis susceptibility in Holsteins.

Publication types

Research Support, Non-U.S. Gov't

MeSH terms

Animals
Cattle
Cluster Analysis
Disease Resistance / genetics
Female
Gene Ontology
Genetic Association Studies*
Genetic Predisposition to Disease*
Genome-Wide Association Study*
Linkage Disequilibrium
Mastitis, Bovine / genetics*
Molecular Sequence Annotation
Polymorphism, Single Nucleotide
Quantitative Trait Loci
Quantitative Trait, Heritable