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- Title
Reduced representation approach for identification of genome-wide SNPs and their annotation for economically important traits in Indian Tharparkar cattle.
- Authors
Devadasan, M. Joel; Kumar, D. Ravi; Vineeth, M. R.; Choudhary, Anjali; Surya, T.; Niranjan, S. K.; Verma, Archana; Sivalingam, Jayakumar
- Abstract
The present study was carried out in Tharparkar cattle for identification of genome-wide SNPs and microsatellites, and then annotate the identified high-quality SNPs to milk production, fertility, carcass, adaptability and immune response of economically important traits. A total of 146,011 SNPs were identified with respect to Bos taurus reference genome which are indicus specific, out of which 10,519 SNPs were found to be novel. Similarly, a total of 87,047 SNPs were identified with respect to Bos indicus reference genome. After final annotation of SNPs identified with respect to Bos indicus reference genome, 2871 SNPs were found to be associated in 383 candidate genes having to do with milk production, fertility, carcass, immune response and adaptability traits. Following that, 2571 microsatellites were identified. The information mined from the data might be of importance for the future breed improvement programs, conservation efforts and for enhancing the SNPs density of the existing bovine SNP chips.
- Subjects
ZEBUS; CATTLE; CATTLE genetics; MILK yield; MICROSATELLITE repeats; ANNOTATIONS
- Publication
3 Biotech, 2020, Vol 10, Issue 7, p1
- ISSN
2190-572X
- Publication type
Article
- DOI
10.1007/s13205-020-02297-z