Molecular characterization of the complete mitochondrial genome sequence of Indian wild pig (Sus scrofa cristatus)

Abstract

The Indian wild pig is a sub-species (Sus scrofa cristatus) which is different from the other pig breeds and is protected under Schedule-III of the Indian Wildlife (Protection) Act, 1972. In this study, complete mitogenome of two Indian wild pigs was sequenced and characterized by shotgun sequencing and de novo assembly, which revealed sequence size of 16,738 and 16,251 bp, respectively, (Accession no. MG725630 and MG725631). The mitogenome sequence in this study displayed 98% homology with previously reported mitogenome of pigs from different parts of the world. Mitogenome analysis by MITOS Web server revealed similarity of gene organization with the other vertebrates (13 protein-coding, 22 tRNAs, 2 rRNAs genes, and a control region). The mitogenomic sequences of Indian wild pig maintained a separate clade in the phylogenetic tree constructed by using 62 whole mitogenome sequences across the world. The phylogeny derived from mitogenomic sequences revealed distinct separate European–American and Asiatic pig clades. It was concluded that whole mitogenome sequencing using NGS without designing mitogenome-specific primer for amplification, is possible thereby reducing the cost and labor. This study is the first report of complete sequence of mitogenome of Indian wild pig.

Keywords:

• Sus scrofa cristatus
• mitogenome
• next-generation sequencing
• phylogeny

Acknowledgments

We are thankful to all the laboratory staffs of Animal Biotechnology Centre, NDVSU. We are also thankful to Rastriya Krishi Vikash Yojana Project, funded by Government of MP, India, for establishing the NGS laboratory and Niche Area Excellence (Wildlife Forensic and Health Management), Indian Council of Agricultural Research, New Delhi, India for funding the study.

Disclosure statement

No potential conflict of interest was reported by the authors.

Additional information

Funding

This work funded by Government of MP, India, for establishing the NGS laboratory and Niche Area Excellence (Wildlife Forensic and Health Management), Indian Council of Agricultural Research, New Delhi, India for funding the study.