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Phylogenomic Analysis and Gene Organization of Mitogenome from Mong Cai Pig in Vietnam


Affiliations
1 Institute of Genome Research, Vietnam Academy of Science and Technology, Hanoi 1000000, Viet Nam
2 Institute of Forensic Science, 99, Nguyen Tuan, Thanh Xuan, Hanoi 100000, Viet Nam
 

Mong Cai pig (Sus scrofa) is the Vietnamese indigenous pig breed. The complete mitogenome of this breed has been sequenced and characterized. It is deposited in GenBank with accession number KX147100. There were 37 genes (13 protein-coding, 2 rRNA, 22 tRNA genes and a control (D loop) region) located in 16,711 bp of complete mitogenome. The phylogenetic relationships of both mitogenome and D loop region revealed the shortest genetic distance with Lantang pig breeds and close relationship to some other pig breeds in China regions. Taken together, the valuable data provide essential information for genetic and phylogenetic studies in Vietnamese indigenous animal.

Keywords

Genetic Distance, Mitochondrial-Genome, Mong Cai Pig, Phylogenetic Relationships.
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  • Nguyen, V. T., Tran, D. M. and Vo, T. H., The pigs in Vietnam. Agriculture Publishing House, Hanoi, Vietnam (in Vietnamese), 2005.

  • Watanabe, T., Hayashi, Y., Ogasawara, N. and Tomoita, T., Polymorphism of mitochondrial DNA in pigs based on restriction endonuclease cleavage patterns. Biochem. Genet., 1985, 23, 105–13.

  • Avise, J. C., Mitochondrial DNA and the evolutionary genetics of higher animals. Philos. Trans. R. Soc. B: Biol. Sci., 1986, 312, 325–342.

  • Huo, J. H. et al., Population phylogenomic analysis and origin of mitochondrial DNA in Chinese domestic pig. Mitochondrial DNA A DNA Mapp Seq. Anal., 2016, 27, 892–895.

  • Lan, H. and Shi, L., The origin and genetic differentiation of native breeds of pigs in southwest China: an approach from mitochondrial DNA polymorphism. Biochem. Genet., 1993, 31, 51–60.

  • Huang, Y. F., Shi, X. W. and Zhang, Y. P., Mitochondrial genetic variation in Chinese pigs and wild boars. Biochem. Genet., 1999, 37, 335–343.

  • Gongora, J. et al., Phylogenetic relationships of Australian and New Zealand feral pigs assessed by mitochondrial control region sequence and nuclear GPIP genotype. Mol. Phylogenet. Evol., 2004, 33, 339–348.

  • Ursing, B. M. and Arnason, U., The complete mitochondrial DNA sequence of the pig (Sus scrofa). J. Mol. Evol., 1998, 47, 302–306.

  • Fang, M. and Andersson, L., Mitochondrial diversity in European and Chinese pigs is consistent with population expansions that occurred prior to domestication. Proc. R. Soc. B: Biol. Sci., 2006, 273, 1803–1810.

  • Hongo, H. et al., Variation in mitochondrial DNA of Vietnamese pigs: relationships with Asian domestic pigs and Ryukyu wild boars. Zool. Sci., 2002, 19, 1329–1335.

  • Nguyen, H. D., Bui, T. A., Nguyen, P. T., Kim, O. T. P. and Vo, T. T. B., The complete mitochondrial genome sequence of the indigenous I pig (Sus scrofa) in Vietnam. Asian-Australas J. Anim. Sci., 2017, 30, 930–937.

  • Vo, T. B. T., Nguyen, D. H., Bui, T. A., Nghiem, N. M. and Jeung, E. B., Phylogenomic analysis of mitochondrial DNA in the Huong pig: an indigenous pig of Vietnam. Global J. Anim. Breed. Genet., 2017, 5, 389–396.

  • Nguyen, H. D., Pham, T. L., Bui, T. A., Nghiem, N. M. and Vo, T. B. T., The complete sequence of mitochondrial genome of Muong Khuong Pig (Sus Scrofa). Int. J. Res. Stud. Biosci., 2017, 5, 1–3.

  • Bui, T. A., Nguyen, D. H. and Vo, T. B. T., Complete mitochondrial genome sequence and phylogenetic status of Halang pig (Sus scrofa). Asian J. Biol., 2018, 6, 1–8.

  • Qu, K. X., Wu, G. S., Gou, X., Yan, D. W., Lian, L. S., Baig, M. and Zhang, Y. P., Genetic differentiations between randomly and selectively bred pig populations in Yunnan, China. Zool. Res., 2011, 32, 255–261.

  • Kim, K. I., Lee, J. H., Li, K., Zhang, Y. P., Lee, S. S., Gongora, J. and Moran, C., Phylogenetic relationships of Asian and European pig breeds determined by mitochondrial DNA D-loop sequence polymorphism. Anim. Genet., 2002, 33, 19–25.

  • Nguyen, V. T. and Dinh, H. L., Some genetic characteristics in productivity of the I and Mong Cai pigs (Sus vittatus). The initial results in the conservation of livestock genetic resources in Vietnam. Agriculture Publishing House, Hanoi, Vietnam (in Vietnamese), 1994.

  • Le, T. T. and Bui, K. H., Survey some indicators of growth, sexual maturity, fertility of the Ban and Mong Cai pigs that raised in the upland farmers of Yen Chau district, Son La province. J. Anim. Sci. Biotechnol., 2005, 7, 4–7 (in Vietnamese).

  • Tran, T. T. N. et al., The complete mitochondrial genome of Mong Cai pig (Sus scrofa) in Vietnam. Mitochondrial DNA B, 2016, 1, 226–227.

  • Sanger, F., Nicklen, S. and Coulson, A. R., DNA sequencing with chain-terminating inhibitors. Proc. Natl. Acad. Sci. USA, 1977, 74, 5463–5467.

  • Ran, M. L., Liu, Z., Yang, A. Q., Li, Z. and Chen, B., The complete sequence of the mitochondrial genome of Lantang pig (Sus scrofa). Mitochondrial DNA, 2016, 27, 1376–1377.

  • Wang, L. Y., Chai, Y. L. and Ma, H. M., The complete sequence of the mitochondrial genome of Duroc pig (Sus scrofa). Mitochondrial DNA, 2016, 27, 3–4.

  • Xu, D., Yang, H. and Ma, H., The complete mitochondrial genome of the Yorkshire pig (Sus scrofa). Mitochondrial DNA, 2016, 27, 641–642.

  • Chai, Y. L., Xu, D. and Ma, H. M., The complete sequence of mitochondrial genome of Wuzhishan pig (Sus scrofa). Mitochondrial DNA, 2016, 27, 94–95.

  • Levin, B. C., Cheng, H. and Reeder, D. J., A human mitochondrial DNA standard reference material for quality control in forensic identification, medical diagnosis, and mutation detection. Genomics, 1999, 55, 135–146.

  • Fan, B. et al., Genetic variation analysis within and among Chinese indigenous swine populations using microsatellite markers. Anim. Genet., 2002, 33, 422–427.

  • Kijas, J. M. and Andersson, L., A phylogenetic study of the origin of the domestic pig estimated from the near-complete mtDNA genome. J. Mol. Evol., 2001, 52, 302–308.

  • Yu, G., Xiang, H., Wang, J. and Zhao, X., The phylogenetic status of typical Chinese native pigs: analyzed by Asian and European pig mitochondrial genome sequences. J. Anim. Sci. Biotechnol., 2013, 4, 9.

  • Li, K. Y., Li, K. T., Cheng, C. C., Chen, C. H., Hung, C. Y. and Ju, Y. T., A genetic analysis of taoyuan pig and its phylogenetic relationship to eurasian pig breeds. Asian-Australas. J. Anim. Sci., 2015, 28, 457–466.

  • Rothschild, M. F. and Ruvinsky, A., The Genetics of the Pig, CPI Antony Rowe, Chippenham, London, UK, 2011, 2nd edn.

  • Tran, V. P., Husbandry Techniques of the Breeding Snows, Labour Publishing House, Hanoi, Vietnam (in Vietnamese), 2005.

  • Luetkemeier, E. S., Sodhi, M., Schook, L. B. and Malhi, R. S., Multiple Asian pig origins revealed through genomic analyses. Mol. Phylogenet. Evol., 2010, 54, 680–686.

  • Megens, H. J., Crooijmans, R. P., San Cristobal, M., Hui, X., Li, N. and Groenen, M. A., Biodiversity of pig breeds from China and Europe estimated from pooled DNA samples: differences in microsatellite variation between two areas of domestication. Genet. Sel. Evol., 2008, 40, 103–128.


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  • Phylogenomic Analysis and Gene Organization of Mitogenome from Mong Cai Pig in Vietnam

Abstract Views: 238  |  PDF Views: 84

Authors

Thuy Thi Bich Vo
Institute of Genome Research, Vietnam Academy of Science and Technology, Hanoi 1000000, Viet Nam
Hieu Duc Nguyen
Institute of Genome Research, Vietnam Academy of Science and Technology, Hanoi 1000000, Viet Nam
Tuan Anh Bui
Institute of Forensic Science, 99, Nguyen Tuan, Thanh Xuan, Hanoi 100000, Viet Nam
Binh Thi Nguyen Le
Institute of Genome Research, Vietnam Academy of Science and Technology, Hanoi 1000000, Viet Nam
Minh Ngoc Nghiem
Institute of Genome Research, Vietnam Academy of Science and Technology, Hanoi 1000000, Viet Nam
Hai Van Nong
Institute of Genome Research, Vietnam Academy of Science and Technology, Hanoi 1000000, Viet Nam

Abstract


Mong Cai pig (Sus scrofa) is the Vietnamese indigenous pig breed. The complete mitogenome of this breed has been sequenced and characterized. It is deposited in GenBank with accession number KX147100. There were 37 genes (13 protein-coding, 2 rRNA, 22 tRNA genes and a control (D loop) region) located in 16,711 bp of complete mitogenome. The phylogenetic relationships of both mitogenome and D loop region revealed the shortest genetic distance with Lantang pig breeds and close relationship to some other pig breeds in China regions. Taken together, the valuable data provide essential information for genetic and phylogenetic studies in Vietnamese indigenous animal.

Keywords


Genetic Distance, Mitochondrial-Genome, Mong Cai Pig, Phylogenetic Relationships.

References





DOI: https://doi.org/10.18520/cs%2Fv116%2Fi9%2F1566-1571