Detection of genome-wide structural variations in the Shanghai Holstein cattle population using next-generation sequencing.

ABSTRACT:

Objective

The Shanghai Holstein cattle breed is susceptible to severe mastitis and other diseases due to the hot weather and long-term humidity in Shanghai, which is the main distribution centre for providing Holstein semen to various farms throughout China. Our objective was to determine the genetic mechanisms influencing economically important traits, especially diseases that have huge impact on the yield and quality of milk as well as reproduction.

Methods

In our study, we detected the structural variations of 1,092 Shanghai Holstein cows by using next-generation sequencing. We used the DELLY software to identify deletions and insertions, cn.MOPS to identify copy-number variants (CNVs). Furthermore, we annotated these structural variations using different bioinformatics t

SUBMITTER: Liu D 

PROVIDER: S-EPMC6409473 | biostudies-literature | 2019 Mar

REPOSITORIES: biostudies-literature