Genome-Wide SNPs Mining and Annotation in Bubalus bubalis
Anmol *
Animal Genetic and Breeding, National Dairy Research Institute, Karnal, Haryana, India.
Khushboo Yadav
Department of Livestock Production and Management, College of Veterinary Science and Animal Husbandry, ANDUAT, Kumarganj, Ayodhya, UP, India.
Shiv Kumar Yadav
Department of Veterinary Physiology and Biochemistry, College of Veterinary Science and Animal Husbandry, ANDUAT, Kumarganj, Ayodhya, UP, India.
Vibhu Maurya
Department of Veterinary Microbiology, College of Veterinary Science and Animal Husbandry, ANDUAT, Kumarganj, Ayodhya, UP, India.
Vishal Jaishawal
Department of Veterinary Surgery and Radiology, College of Veterinary Science and Animal Husbandry, ANDUAT, Kumarganj, Ayodhya, UP, India.
Jaswant Singh
Department of Animal Genetic and Breeding, College of Veterinary Science and Animal Husbandry, ANDUAT, Kumarganj, Ayodhya, UP, India.
Saket K Niranjan
ICAR-National Bureau of Animal Genetic Resources, Karnal, Haryana, India.
*Author to whom correspondence should be addressed.
Abstract
This study aimed to identify single nucleotide polymorphisms (SNPs) in the Murrah buffalo, often referred to as the "black gold of India," using the reduced representation sequencing technique.DNA was extracted and sequenced using the ddRAD technique from blood samples taken from 96 unrelated Murrah buffalo. After processing the sequenced genomic data with various bioinformatics tools, a total of 855,563 SNPs were identified in the Murrah buffalo genome, using the Bubalus bubalis genome as a reference. Annotation revealed that the majority of these variations were located in intronic regions (67.49%), followed by intergenic regions (20.15%). The SNPs identified in this study have the potential to serve as molecular markers for economically significant traits and could be valuable for future breed improvement and conservation efforts.
Keywords: Bioinformatics tools, genetic variation, murrah buffalo, reduced representation sequencing, Single nucleotide polymorphisms (SNPs)