A versatile High Density customized SNP array for augmenting genomic analysis in sheep
We designed a genome-wide high density SNP array using genetically diverse sheep of the Indian subcontinent. The array includes 627,509 biallelic markers and was validated on 522 individuals from diverse breeds of the Indian peninsula. The average call rate for samples passing quality control was 99.6%, with 96.15% (603,523) markers classified as best and recommended. The high density SNP array offers dense genomic coverage with an average inter-marker distance of 4.6 kb, effectively delineates breed-specific clusters and reveals population stratification, underscoring its utility for genetic analysis, selection and conservation in sheep. This array addresses the limited representation of Asian and African ovine diversity of the commercially available SNP arrays for sheep. Its applicability across global breeds further supports its value in international ovine genomics.
Authors
- Reena Arora (ORCID: https://orcid.org/0000-0001-8740-7150)
- Dinesh Kumar Yadav (ORCID: https://orcid.org/0000-0001-6615-1002)
- Mohsin Ayoub Mir (ORCID: https://orcid.org/0000-0001-8556-4689)
- Sonika Ahlawat (ORCID: https://orcid.org/0000-0002-4302-2969)
- Syed Shanaz (ORCID: https://orcid.org/0000-0001-7223-9852)
- Raja K. Nachiappan
- Pooja Chhabra (ORCID: https://orcid.org/0000-0001-6573-0854)
- Upasna Sharma (ORCID: https://orcid.org/0000-0002-8864-4323)
- R. P. Sharma
- Ramesh Kumar Vijh
- Ashish Kumar
- Mandeep Kaur
Institutions
- Sher-e-Kashmir University of Agricultural Sciences and Technology of Kashmir (IN)
- National Bureau of Animal Genetic Resources (IN)
Publication Details
- Journal
- Genome
- Published
- 2026-03-20
- DOI
- https://doi.org/10.1139/gen-2025-0078
- Primary Topic
- Genetic and phenotypic traits in livestock
- Type
- article
- Field-Weighted Citation Impact
- 0.00