MHC class II DQB diversity in the Japanese black bear, Ursus thibetanus japonicus

BMC Evolutionary Biology
Yoshiki YasukochiYoko Satta

Abstract

The major histocompatibility complex (MHC) genes are one of the most important genetic systems in the vertebrate immune response. The diversity of MHC genes may directly influence the survival of individuals against infectious disease. However, there has been no investigation of MHC diversity in the Asiatic black bear (Ursus thibetanus). Here, we analyzed 270-bp nucleotide sequences of the entire exon 2 region of the MHC DQB gene by using 188 samples from the Japanese black bear (Ursus thibetanus japonicus) from 12 local populations. Among 185 of 188 samples, we identified 44 MHC variants that encoded 31 different amino acid sequences (allotypes) and one putative pseudogene. The phylogenetic analysis suggests that MHC variants detected from the Japanese black bear are derived from the DQB locus. One of the 31 DQB allotypes, Urth-DQB*01, was found to be common to all local populations. Moreover, this allotype was shared between the black bear on the Asian continent and the Japanese black bear, suggesting that Urth-DQB*01 might have been maintained in the ancestral black bear population for at least 300,000 years. Our findings, from calculating the ratio of non-synonymous to synonymous substitutions, indicate that balancing selec...Continue Reading

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Citations

Jun 15, 2014·Journal of Physiological Anthropology·Yoshiki Yasukochi, Yoko Satta
Dec 18, 2014·Immunogenetics·Catalina Gonzalez-QuevedoDavid S Richardson
Aug 1, 2018·Animal Genetics·Shailendra K MishraRanjit S Kataria
Dec 20, 2019·The Journal of Animal Ecology·Daniel J BeckerRaina K Plowright

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Methods Mentioned

BETA
genotyping
PCR
PCRs

Software Mentioned

MEGA
FigTree
OmegaMap
PAML
DnaSP
Splits
RDP4
BLAST
GENECONV
CODEML

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