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Single nucleotide markers of D-loop for identification of Indian wild pig (Sus scrofa cristatus)

AIM: Partial fragment of D-loop region extending from 35 to 770 were compared with corresponding sequences of 16 wild pigs and 9 domestic pig breeds from different parts of the world for detection of single nucleotide polymorphism (SNP) markers in the region. The paper also reappraises SNP markers f...

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Autores principales: Srivastava, Gaurav Kumar, Rajput, Nidhi, Jadav, Kajal Kumar, Shrivastav, Avadh Bihari, Joshi, Himanshu R.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Veterinary World 2015
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4774806/
https://www.ncbi.nlm.nih.gov/pubmed/27047129
http://dx.doi.org/10.14202/vetworld.2015.532-536
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author Srivastava, Gaurav Kumar
Rajput, Nidhi
Jadav, Kajal Kumar
Shrivastav, Avadh Bihari
Joshi, Himanshu R.
author_facet Srivastava, Gaurav Kumar
Rajput, Nidhi
Jadav, Kajal Kumar
Shrivastav, Avadh Bihari
Joshi, Himanshu R.
author_sort Srivastava, Gaurav Kumar
collection PubMed
description AIM: Partial fragment of D-loop region extending from 35 to 770 were compared with corresponding sequences of 16 wild pigs and 9 domestic pig breeds from different parts of the world for detection of single nucleotide polymorphism (SNP) markers in the region. The paper also reappraises SNP markers from two fragments of cytochrome b gene and a fragment 12S rRNA gene distinguishing the Indian wild pig from other pig species of the world. MATERIALS AND METHODS: Deoxyribonucleic acid (DNA) was isolated from 14 and 12 tissue samples of Indian wild and domestic pigs, respectively, collected from Central India for characterization of the D-loop DNA sequences using universal primers. The sequences obtained were aligned along with the retrieved sequences to analyze species-specific SNP marker. RESULTS: A total of 58 mitochondrial D-loop gene sequences of pig races were aligned to identify 1349 polymorphic sites in the fragment from nucleotide positions 35-770 bp and four SNP markers were identified to differentiate Indian wild pig from all the sequences investigated in this study. With the inclusion of cytochrome b gene and 12S rRNA gene fragments, the present study contributes to the total 15 SNP markers, which have been identified in the mitochondrial fragment of 1936 bp for identification of Indian wild pig. CONCLUSION: SNP markers have advantages over other marker types and do not require subsequent standardization to compare data across studies or laboratories.
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spelling pubmed-47748062016-04-04 Single nucleotide markers of D-loop for identification of Indian wild pig (Sus scrofa cristatus) Srivastava, Gaurav Kumar Rajput, Nidhi Jadav, Kajal Kumar Shrivastav, Avadh Bihari Joshi, Himanshu R. Vet World Research Article AIM: Partial fragment of D-loop region extending from 35 to 770 were compared with corresponding sequences of 16 wild pigs and 9 domestic pig breeds from different parts of the world for detection of single nucleotide polymorphism (SNP) markers in the region. The paper also reappraises SNP markers from two fragments of cytochrome b gene and a fragment 12S rRNA gene distinguishing the Indian wild pig from other pig species of the world. MATERIALS AND METHODS: Deoxyribonucleic acid (DNA) was isolated from 14 and 12 tissue samples of Indian wild and domestic pigs, respectively, collected from Central India for characterization of the D-loop DNA sequences using universal primers. The sequences obtained were aligned along with the retrieved sequences to analyze species-specific SNP marker. RESULTS: A total of 58 mitochondrial D-loop gene sequences of pig races were aligned to identify 1349 polymorphic sites in the fragment from nucleotide positions 35-770 bp and four SNP markers were identified to differentiate Indian wild pig from all the sequences investigated in this study. With the inclusion of cytochrome b gene and 12S rRNA gene fragments, the present study contributes to the total 15 SNP markers, which have been identified in the mitochondrial fragment of 1936 bp for identification of Indian wild pig. CONCLUSION: SNP markers have advantages over other marker types and do not require subsequent standardization to compare data across studies or laboratories. Veterinary World 2015-04 2015-04-24 /pmc/articles/PMC4774806/ /pubmed/27047129 http://dx.doi.org/10.14202/vetworld.2015.532-536 Text en Copyright: © The authors. http://creativecommons.org/licenses/by/2.0 This article is an open access article licensed under the terms of the Creative Commons Attributin License (http://creative commons.org/licenses/by/2.0) which permits unrestricted use, distribution and reproduction in any medium, provided the work is properly cited.
spellingShingle Research Article
Srivastava, Gaurav Kumar
Rajput, Nidhi
Jadav, Kajal Kumar
Shrivastav, Avadh Bihari
Joshi, Himanshu R.
Single nucleotide markers of D-loop for identification of Indian wild pig (Sus scrofa cristatus)
title Single nucleotide markers of D-loop for identification of Indian wild pig (Sus scrofa cristatus)
title_full Single nucleotide markers of D-loop for identification of Indian wild pig (Sus scrofa cristatus)
title_fullStr Single nucleotide markers of D-loop for identification of Indian wild pig (Sus scrofa cristatus)
title_full_unstemmed Single nucleotide markers of D-loop for identification of Indian wild pig (Sus scrofa cristatus)
title_short Single nucleotide markers of D-loop for identification of Indian wild pig (Sus scrofa cristatus)
title_sort single nucleotide markers of d-loop for identification of indian wild pig (sus scrofa cristatus)
topic Research Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4774806/
https://www.ncbi.nlm.nih.gov/pubmed/27047129
http://dx.doi.org/10.14202/vetworld.2015.532-536
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