Genetic Diversity of The MHC-UBA Gene in Rainbow Trout

Abstract

Abstract: Major histocompatibility complex（MHC）is central to the vertebrate immune system. The genes of the MHC are amongst the most variable in vertebrates and represent some of the best candidates to study processes of adaptive evolution. In this study, the variation of MHC classⅠUBA gene exon 2 in the 184 Rainbow trout was investigated by PCR-SSCP, followed by cloning and DNA sequencing. For this research 12 alleles were identified, of which 11 were novel. A maximum of four alleles was amplified per individual in this locus, suggesting that there are at least two copies site of UBA gene in Rainbow trout. Variation percentage of nucleotide and amino acids were 6.13% and 17.44%, respectively. The polymorphism information content is 0.794 3. Sequence homology analysis showed that gene homology range from 98.08% to 99.23% among the 12 alleles. The non-synonymous substitutions were significantly higher than the synonymous substitutions in the peptide-binding regions（PBR）and non-PBR（P<0.001）, this result might suggest that the polymorphism of UBA gene seems to be maintained by a positive selection. Frequencies of synonym codons were not distributed equally. The neighbor-joining phylogram of UBA gene showed Rainbow trout and Atlantic salmon was assumed to be closely related. The study indicated that a high level of genetic diversity existed in Rainbow trout, and it might be a potential genetic marker in Rainbow trout breeding.

Key words: Rainbow trout UBA gene, Cloning and sequencing, Genetic diversity

Hu Dandan, Liu Zhe, Shao Shujuan, Yang Juan, Wang Jianfu. Genetic Diversity of The MHC-UBA Gene in Rainbow Trout[J]. Biotechnology Bulletin, 2013, 0(7): 99-106.

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