Full-length next-generation sequencing of HLA class I and II genes in a cohort from Thailand
作者： Aviva Geretz , Philip K. Ehrenberg , Alain Bouckenooghe , Marcelo A. Fernández Viña , Nelson L. Michael
DOI: 10.1016/J.HUMIMM.2018.09.005
关键词:
摘要: The human leukocyte antigen (HLA) genes are highly variable and known to play an important role in disease outcomes, including infectious diseases. Prior knowledge of HLA polymorphisms a population usually forms the basis for effective case-control study design. As prelude future association analyses, we report class I II diversity 334 unrelated donors from Dengue vaccine efficacy trial conducted Thailand. Long-range PCR amplification six loci was performed on DNA extracted saliva samples. HLA-A, -B, -C, -DPB1, -DQB1 -DRB1 were genotyped using next-generation sequencing method presented at 17th International Immunogenetics Workshop. In total, identified 201 alleles, 35 57 HLA-B, 28 HLA-C, 24 HLA-DPB1, 21 HLA-DQB1 36 HLA-DRB1 alleles. Very common alleles with frequencies greater than 10 percent A∗11:01:01, A∗33:03:01, A∗24:02:01, B∗46:01:01, C∗07:02:01, C∗01:02:01, C∗08:01:01, DPB1∗05:01:01, DPB1∗13:01:01, DPB1∗04:01:01, DPB1∗02:01:02, DQB1∗03:01:01, DQB1∗05:02:01, DQB1∗03:03:02, DRB1∗12:02:01, DRB1∗09:01:02, DRB1∗15:02:01. A novel allele, B∗15:450, had non-synonymous substitution occurred more one donor. Population-based full-length NGS typing is conclusive provides sound foundation exploring given population.
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