Characterization of Genetic Polymorphism of Novel MHC B-LB II Alleles in Chinese Indigenous Chickens

Rifu Xu; Kui Li; Guohong Chen; Hui Xu; Bayangzong Qiang; Changchun Li; Bang Liu

doi:10.1016/S1673-8527(07)60012-5

Volume 34 Issue 2

Feb. 2007

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Article Navigation > Journal of Genetics and Genomics > 2007 > 34(2): 109-118

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Characterization of Genetic Polymorphism of Novel MHC B-LB II Alleles in Chinese Indigenous Chickens

doi: 10.1016/S1673-8527(07)60012-5

a
College of Animal Science and Technology, Huazhong Agricultural University, Wuhan 430070, China
b
College of Animal Science and Technology, Jilin Agricultural University, Changchun 130118, China
c
Department of Animal Science and Technology, Yangzhou University, Yangzhou 225009, China
d
Department of Animal Husbandry and Veterinary Medicine, College of Agriculture and Animal Husbandry, Tibet University, Linzhi 860000, China

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Corresponding author: E-mail address: liubang@public.wh.hb.cn (Bang Liu)
Received Date: 2006-03-24
Accepted Date: 2006-04-30

Available Online: 2007-04-18

Publish Date: 2007-02-20

Abstract

Abstract

Genetic polymorphism of the major histocompatibility complex (MHC)B-LB II gene was studied by amplification of exon 2 using PCR, followed by cloning and DNA sequencing in eight indigenous Chinese chicken populations. To reveal the genetic variation of the B-LB II gene, 37 types of patterns detected by PCR-SSCP were investigated first, which would be used to screen novel B-LB II sequences within the breeds. The types of PCR-SSCP patterns and final sequencing allowed for the identification of 31 novel MHC B-LB II alleles from 30 unrelated individuals of Chinese chickens that were sampled. These are the first designators for the alleles of chicken MHC B-LB II gene based on the rule of assignment for novel mammalian alleles. Sequence alignment of the 31 B-LB II alleles revealed a total of 68 variable sites in the fragment of exon 2, of which 51 parsimony informative and 17 singleton variable sites were observed. Among the polymorphic sites, the nucleotide substitutions in the first and second positions of the codons accounted for 36.76% and 35.29%, respectively. The sequence similarities between the alleles were estimated to be 90.6%–99.5%. The relative frequencies of synonymous and nonsynonymous nucleotide substitutions within the region were 2.92%±0.94% and 14.64%±2.67%, respectively. These results indicated that the genetic variation within exon 2 appeared to have largely arisen by gene recombination and balancing selection. Alignment of the deduced amino acid sequences of the β1 domain coded by exon 2 revealed 6 synonymous mutations and 27 nonsynonymous substitutions at the 33 disparate sites. In particular, the nonsynonymous substitutions at the putative peptide-binding sites are considered to be associated with immunological specificity of MHC B-LB II molecule in Chinese native chickens. These results can provide a molecular biological basis for the study of disease resistance in chicken breeding.
- genetic polymorphism,
- allele,
- PCR-SSCP assay,
- indigenous Chinese chicken

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References(52)

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