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ARS Home » Northeast Area » Beltsville, Maryland (BARC) » Beltsville Agricultural Research Center » Animal Genomics and Improvement Laboratory » Research » Publications at this Location » Publication #367096

Research Project: Enhancing Genetic Merit of Ruminants Through Improved Genome Assembly, Annotation, and Selection

Location: Animal Genomics and Improvement Laboratory

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

item KANG, XIAOLONG - Ningxia University
item LIU, MEI - Northwest Agriculture And Forestry University
item LIU, SHULI - China Agricultural University
item PAN, MICHAEL - Volunteer
item LI, MINGXUN - Yangzhou University
item WIGGANS, GEORGE - Council On Dairy Cattle Breeding
item Van Tassell, Curtis - Curt
item Rosen, Benjamin - Ben
item Liu, Ge - George

Submitted to: Genomics
Publication Type: Peer Reviewed Journal
Publication Acceptance Date: 9/3/2020
Publication Date: 9/6/2020
Citation: Kang, X., Liu, M., Liu, S., Pan, M.G., Li, M., Wiggans, G.R., Van Tassell, C.P., Rosen, B.D., Liu, G. 2020. Copy number variation analysis reveals variants associated with milk production traits in dairy goats. Genomics. 112(6):4934-4937.

Interpretive Summary: Copy number variation (CNV) represents a major source of genomic variation. By performing a genome-wide association studies based on CNVs called from SNP chips, we explored their relationships with goat milk traits. These results fill our knowledge gaps and provide the foundation for incorporating CNV into the future goat breeding program. Farmers, scientist, and policy planners who need improve animal health and production based on genome-enable animal selection will benefit from this study.

Technical Abstract: Copy number variation (CNV) is a major type of genomic structural variation. We investigated their impacts on milk production traits using the CaprineSNP50 data generated by the AdaptMap project. 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 - MMF and mean of milk protein yield - MMP) after false discovery rate (FDR) correction (P < 0.05). CNV5 overlaps the ADAMTS20 gene, which is a member of ECM (extracellular matrix), involving 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 provided new insights about CNV impacts on goat dairy traits.