ArticleScientific reports2023
ddRAD sequencing based genotyping of six indigenous dairy cattle breeds of India to infer existing genetic diversity and population structure.
Article in Scientific reports, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 12 papers.
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12 citing papers in PubMed, 18 citations in OpenAlex.
- Deciphering genetic diversity and selection footprints in Rathi cattle through ddRAD-based genome-wide analysis.Mammalian genome : official journal of the International Mammalian Genome Society · 2026Article
- Coding and Noncoding Uterine Small Extracellular Vesicle Content Differs in the Early Stages of Pregnancies Produced by Artificial Insemination and In Vitro Fertilization in Cattle.Molecular reproduction and development · 2026Article
- Integrative Taxonomy Clarifies the Taxonomic Status of the Morphologically Intermediate Form BetweenInsects · 2025Article
- Genome-wide SNP evidence for the genetic uniqueness of indigenous cattle population.Mammalian genome : official journal of the International Mammalian Genome Society · 2025Article
- Comparison between SNP array and imputed data to estimate population structure and ROH hotspots in horse breeds.BMC genomics · 2025Article
- Article
- Advancing the Indian cattle pangenome: characterizing non-reference sequences in Bos indicus.Journal of animal science and biotechnology · 2025Article
- Four Target Resequencing for the Bovine Major Histocompatibility Complex Region. Proof of Concept.HLA · 2025Article
- Genetic diversity, population structure analysis and codon substitutions of Indicine Badri cattle using ddRAD sequencing.3 Biotech · 2024Article
- Analysis of ddRAD-seq data provides new insights into the genomic structure and patterns of diversity in Italian donkey populations.Journal of animal science · 2024Article
- The Identification of Functional Genes Affecting Fat-Related Meat Traits in Meat-Type Pigeons Using Double-Digest Restriction-Associated DNA Sequencing and Molecular Docking Analysis.Animals : an open access journal from MDPI · 2023Article
- A genome-wide association study of coat color in Chinese Rex rabbits.Frontiers in veterinary science · 2023Article
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Authors and funding
8 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The present investigation aimed to identify genome wide SNPs and to carry out diversity and population structure study using ddRAD-seq based genotyping of 58 individuals of six indigenous milch cattle breeds (Bos indicus) such as Sahiwal, Gir, Rathi, Tharparkar, Red Sindhi and Kankrej of India. A high percentage of reads (94.53%) were mapped to the Bos taurus (ARS-UCD1.2) reference genome assembly. Following filtration criteria, a total of 84,027 high quality SNPs were identified across the genome of 6 cattle breeds with the highest number of SNPs observed in Gir (34,743), followed by Red Sindhi (13,092), Kankrej (12,812), Sahiwal (8956), Tharparkar (7356) and Rathi (7068). Most of these SNPs were distributed in the intronic regions (53.87%) followed by intergenic regions (34.94%) while only 1.23% were located in the exonic regions. Together with analysis of nucleotide diversity (π = 0.373), Tajima's D (D value ranging from - 0.295 to 0.214), observed heterozygosity (H
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