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Research (Published online: 09-10-2015)

5. Genotyping of major histocompatibility complex Class II DRB gene in Rohilkhandi goats by polymerase chain reaction-restriction fragment length polymorphism and DNA sequencing - Kush Shrivastava, Pushpendra Kumar, Nihar Ranjan Sahoo, Amod Kumar, Mohd. Faheem Khan, Amit Kumar, Arvind Prasad, B. H. M. Patel, A. Nasir, Bharat Bhushan and Deepak Sharma

Veterinary World, 8(10): 1183-1188

 

 

   doi: 10.14202/vetworld.2015.1183-1188

 

Kush Shrivastava: Division of Animal Genetics, Indian Veterinary Research Institute, Izatnagar, Bareilly, Uttar Pradesh, India; kush_vet@yahoo.co.in

Pushpendra Kumar: Division of Animal Genetics, Indian Veterinary Research Institute, Izatnagar, Bareilly, Uttar Pradesh, India; pushpendra64@gmail.com

Nihar Ranjan Sahoo: Division of Animal Genetics, Indian Veterinary Research Institute, Izatnagar, Bareilly, Uttar Pradesh, India; vet.nihar@gmail.com

Amod Kumar: Division of Animal Genetics, Indian Veterinary Research Institute, Izatnagar, Bareilly, Uttar Pradesh, India; amodvet@gmail.com

Mohd. Faheem Khan: Division of Animal Genetics, Indian Veterinary Research Institute, Izatnagar, Bareilly, Uttar Pradesh, India; faheemphd@gmail.com

Amit Kumar: Division of Animal Genetics, Indian Veterinary Research Institute, Izatnagar, Bareilly, Uttar Pradesh, India; vetamitchandan07@gmail.com

Arvind Prasad: Division of Parasitology, Indian Veterinary Research Institute, Izatnagar, Bareilly, Uttar Pradesh, India; drarvindivri@rediffmail.com

B. H. M. Patel: LPM Section, Indian Veterinary Research Institute, Izatnagar, Bareilly, Uttar Pradesh, India; mpatellpm@gmail.com

A. Nasir: Division of Parasitology, Indian Veterinary Research Institute, Izatnagar, Bareilly, Uttar Pradesh, India; drnasirivri@rediffmail.com

Bharat Bhushan: Division of Animal Genetics, Indian Veterinary Research Institute, Izatnagar, Bareilly, Uttar Pradesh, India; bhushan.drbharat@gmail.com

Deepak Sharma: Division of Animal Genetics, Indian Veterinary Research Institute, Izatnagar, Bareilly, Uttar Pradesh, India; ds7758@yahoo.co.in

 

Received: 17-06-2015, Revised: 26-08-2015, Accepted: 05-09-2015, Published online: 09-10-2015

 

Corresponding author: Pushpendra Kumar, e-mail: pushpendra64@gmail.com


Citation: Shrivastava K, Kumar P, Sahoo NR, Kumar A, Khan MF, Kumar A, Prasad A, Patel BHM, Nasir A, Bhushan B, Sharma D (2015) Genotyping of major histocompatibility complex Class II DRB gene in Rohilkhandi goats by polymerase chain reaction-restriction fragment length polymorphism and DNA sequencing, Veterinary World 8(10): 1183-1188.



Aim: To study the major histocompatibility complex (MHC) Class II DRB1 gene polymorphism in Rohilkhandi goat using polymerase chain reaction-restriction fragment length polymorphism (PCR-RFLP) and nucleotide sequencing techniques.

Materials and Methods: DNA was isolated from 127 Rohilkhandi goats maintained at sheep and goat farm, Indian Veterinary Research Institute, Izatnagar, Bareilly. A 284 bp fragment of exon 2 of DRB1 gene was amplified and digested using BsaI and TaqI restriction enzymes. Population genetic parameters were calculated using Popgene v 1.32 and SAS 9.0. The genotypes were then sequenced using Sanger dideoxy chain termination method and were compared with related breeds/species using MEGA 6.0 and Megalign (DNASTAR) software.

Results: TaqI locus showed three and BsaI locus showed two genotypes. Both the loci were found to be in Hardy–Weinberg equilibrium (HWE), however, population genetic parameters suggest that heterozygosity is still maintained in the population at both loci. Percent diversity and divergence matrix, as well as phylogenetic analysis revealed that the MHC Class II DRB1 gene of Rohilkhandi goats was found to be in close cluster with Garole and Scottish blackface sheep breeds as compared to other goat breeds included in the sequence comparison.

Conclusion: The PCR-RFLP patterns showed population to be in HWE and absence of one genotype at one locus (BsaI), both the loci showed excess of one or the other homozygote genotype, however, effective number of alleles showed that allelic diversity is present in the population. Sequence comparison of DRB1 gene of Rohilkhandi goat with other sheep and goat breed assigned Rohilkhandi goat in divergence with Jamanupari and Angora goats.

Keywords: DRB1, major histocompatibility complex Class II, polymerase chain reaction-restriction fragment length polymorphism, Rohilkhandi goat, sequencing.



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