An analysis of polymorphism and phylogenetic tree using mitochondrial cytochrome B of wild boar in central Vietnam highlands

Authors

  • Nguyen Thi Phuong Mai Tay Nguyen Institute of Biology, VAST
  • Le Ngoc Chau Institute of Tropical Biology, VAST
  • Nguyen Khac Duy Institute of Tropical Biology, VAST
  • Le Thanh Long Institute of Tropical Biology, VAST
  • Hoang Nghia Son Institute of Tropical Biology, VAST

DOI:

https://doi.org/10.15625/0866-7160/v34n3se.1797

Keywords:

haplotype, mitochondrial cytochrome b, phylogenetic tree, single nucleotide polymorphism, wild boar

Abstract

Mitochondrial DNA have been used to study phylogenetic relationships in pigs (Sus scrofa). In this study, mitochondrial cytochrome b sequences was used to assess variable and polymorphism positions and genetic relationships in Vietnamese native wild boar, Vietnamese hybrid wild boar (Thailand wild boar and Vietnamese wild boar) and various other wild boars (Korean wild boar, Spain wild boar and Uruguay wild boar). DNA samples were collected from wild boar ears and mitochondrial cytochrome b sequences were amplified with specific primers, then sequenced with 3730 DNA Analyzer. 552 bp of cytochrome b sequence were used for alignment. Results showed that 9 polymorphism positions were found in haplotypes and 3 new polymorphism positions specifically appeared in 11 Vietnamese native wild boars. An NJ (Neighbour-joining) tree was constructed to assess genetic relationships of different wild boars. Bootstrap values (threshhold of 50% after 100 replicates) were used to assess the confidence in branching order. The phylogenetic analysis of mitochondrial cytochrome b displayed three distinct mtDNA clades, one of Uruguay wild boar, one of Korean wild boar, Spain wild boar, Vietnamese hybrid wild boar and one of Vietnamese native wild boar. Genetic distances for mitochondrial cytochrome b sequences showed that Uruguay mtDNA haplotypes (0.0032) and a group of Korean, Spain and Vietnam hybrid haplotypes (0.0054) and Vietnam native haplotypes (0.0078) formed three clusters that are well separated from each other. The bootstrap percentages of three clades are higher than 70%, hence assignments of haplotypes into three clades are very reliable and indicating that the Vietnamese native wild boar group is genetically independent from other wild boar groups.

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Published

06-08-2012

How to Cite

Mai, N. T. P., Chau, L. N., Duy, N. K., Long, L. T., & Son, H. N. (2012). An analysis of polymorphism and phylogenetic tree using mitochondrial cytochrome B of wild boar in central Vietnam highlands. Academia Journal of Biology, 34(3se), 285–291. https://doi.org/10.15625/0866-7160/v34n3se.1797

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