Characterization of the novelHLA-DQA1*03:01:06allele by sequencing-based typing
HLA
Authors: Cargou, Marine; Andreani, Marco; Battarra, Mariarosa; Guidicelli, Gwendaline; Visentin, Jonathan
Abstract
HLA-DQA1*03:01:06differs fromHLA-DQA1*03:01:01:01by one nucleotide substitution in codon 9 in exon 2.
Fine-mapping analysis of the MHC region for vitiligo based on a new Han-MHC reference panel
GENE
Authors: Yang, Chao; Wu, Juan; Zhang, Xuelei; Wen, Leilei; Sun, Jingying; Cheng, Yuyan; Tang, Xianfa; Liang, Bo; Chen, Gang; Zhou, Fusheng; Cui, Yong; Zhang, Anping; Zhang, Xuejun; Zheng, Xiaodong; Yang, Sen; Sun, Liangdan
Abstract
Vitiligo is an immune-related disease with patchy depigmentation of skin and hair caused by selective destruction of melanocytes. In recent decades, many studies have shown the association between vitiligo and HLA genes; however, the results of Han Chinese are scarce. In this study, we performed a fine-mapping analysis of the MHC region in 2818 Han Chinese subjects through a widely used HLA imputation method with a newly built large-scale Han-MHC reference panel. Three new four-digit HLA alleles (HLA-DQB1 * 02:02, HLA-DQA1 * 02:01 and HLA-DPB1 * 17:01) were identified to be associated with the risk of vitiligo, and four previously reported alleles were confirmed. Further conditional analysis revealed that two important variants, HLA-DQ beta 1 amino acid position 135 (OR = 1.79, P = 1.87 x 10(-11)) and HLA-B amino acid positions 45-46 (OR = 1.44, P = 5.61 x 10(-11)), conferred most of the MHC associations. Three-dimension ribbon models showed that the former is located within the 132 domain of the HLA-DQ beta 1 molecule, and the latter lies in the alpha 1 domain of the HLA-B molecule, while both are involved in specific antigen presenting process. Finally, we summarized all significant signals in the MHC region to clarify their complex relationships, and 8.60% of phenotypic variance could be explained based on all reported variants in Han Chinese so far. Our findings highlight the complex genetic architecture of the MHC region for vitiligo in Han Chinese population and expand our understanding of the roles of HLA coding variants in the etiology of vitiligo.