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Characterization and polymorphic analysis of 4.5 kb genomic full-length HLA-C in the Chinese Han population


Zhihui Deng, PhD
Immunogenetics Laboratory
Shenzhen Blood Center
Guangdong 518035
Tel: +86 755 83242567
Fax: +86 755 83221000

Dr Colm O'hUigin
Genetics Core
Cancer and Inflammation Program
National Cancer Institute
MD 21702
Tel: +1 301 846 1717
Fax: +1 301 846 1909


This study used long-range polymerase chain reaction to sequence 4.5 or 4.3 kb of genomic DNA covering human leukocyte antigen C (HLA-C) and its flanks in 45 Chinese Han subjects to better characterize variation in the gene in a single population. Sequences of 35 HLA-C alleles were obtained from the population, including major alleles of 13 lineages of HLA-C. Four novel alleles, C*03:04:01:02, C*04:01:01:03, C*08:22, and C*17:01:01:02, were identified, and complete full-length sequences of 18 HLA-C alleles were obtained for the first time. All sequences herein reported also represent extensions through the promoter region and the 3′-untranslated region. Fourteen 5′-nucleotide sequences and 14 3′-nucleotide sequences were detected outside the coding region. In total, 316 single-nucleotide polymorphisms unequally distributed in HLA-C subregions were observed. In addition to exons 2 and 3, nucleotide variability was found to be particularly high in exon 5, which encodes the transmembrane region. The differentiation of the C*07 and C*17 lineages in this region accounts for the high variability. The congruence of phylogeny across most regions of the gene suggests that gene conversion or recombination has not markedly influenced divergence between lineages in the evolution of HLA-C.