Copy number variation analysis reveals variants associated with milk production traits in dairy goats.

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Abstract

Copy number variation (CNV) is a major type of genomic structural variation. We investigated their impacts on goat dairy traits using the CaprineSNP50 array. From 120 samples of five dairy goat breeds, we totally identified 42 CNVs ranging from 56,044 bp to 4,337,625 bp. We found significant associations between two CNVs (CNV5 and CNV25) and two milk production traits (mean of milk fat yield and mean of milk protein yield) after false discovery rate (FDR) correction (P < 0.05). CNV5 overlaps the ADAMTS20 gene, which is involved in the differentiation of mammary cell and plays a crucial role in lactogenic activity of bovine mammary epithelial cells. CNV25 overlaps with PAPPA2, which has been found to be associated with bovine reproduction and milk production traits. Our results revealed that CNVs overlapped with ADAMTS20 and PAPPA2 could be involved in goat dairy traits and function as candidate markers for further genetic selection.

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Author and article information

Journal

Journal ID (iso-abbrev): Genomics

Title: Genomics

Publisher: Elsevier BV

ISSN (Electronic): 1089-8646

ISSN (Print): 0888-7543

Publication date (Electronic): November 2020

Volume: 112

Issue: 6

Affiliations

[1 ] Animal Genomics and Improvement Laboratory, BARC, USDA-ARS, Beltsville, MD, USA; College of Agriculture, Ningxia University, Yinchuan, China.

[2 ] Animal Genomics and Improvement Laboratory, BARC, USDA-ARS, Beltsville, MD, USA; College of Animal Science and Technology, Yangzhou University, Yangzhou, China.

[3 ] Animal Nutritional Genome and Germplasm Innovation Research Center, College of Animal Science and Technology, Hunan Agricultural University, Changsha, China.

[4 ] Animal Genomics and Improvement Laboratory, BARC, USDA-ARS, Beltsville, MD, USA; College of Animal Science and Technology, China Agricultural University, Beijing, China.

[5 ] Animal Genomics and Improvement Laboratory, BARC, USDA-ARS, Beltsville, MD, USA.

[6 ] Council on Dairy Cattle Breeding, Bowie, MD, USA.

[7 ] Animal Genomics and Improvement Laboratory, BARC, USDA-ARS, Beltsville, MD, USA. Electronic address: George.Liu@usda.gov.

Article

Publisher Item ID: S0888-7543(19)30589-0

DOI: 10.1016/j.ygeno.2020.09.007

PubMed ID: 32898641

SO-VID: 03364942-0ecc-4034-b09c-ca77589e0e55

History

Keywords: Dairy goat,Copy number variation (CNV),Milk production traits

Data availability:

Keywords: Dairy goat, Copy number variation (CNV), Milk production traits

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