Single-nucleotide polymorphism-defined class I and class III major histocompatibility complex genetic subregions contribute to natural long-term nonprogression in HIV infection

J Infect Dis. 2012 Mar 1;205(5):718-24. doi: 10.1093/infdis/jir833. Epub 2012 Jan 11.

Abstract

We performed a genome-wide association study comparing a cohort of 144 human immunodeficiency virus (HIV type 1-infected, untreated white long-term nonprogressors (LTNPs) with a cohort of 605 HIV-1-infected white seroconverters. Forty-seven single-nucleotide polymorphisms (SNPs), located from class I to class III major histocompatibility complex (MHC) subregions, show statistical association (false discovery rate, <0.05) with the LTNP condition, among which 5 reached genome-wide significance after Bonferonni correction. The MHC LTNP-associated SNPs are ordered in ≥4 linkage disequilibrium blocks; interestingly, an MHC class III linkage disequilibrium block (defined by the rs9368699 SNP) seems specific to the LTNP phenotype.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • DNA-Binding Proteins / genetics
  • Disease Progression*
  • Gene Frequency
  • Genes, MHC Class I / genetics*
  • Genome-Wide Association Study
  • HIV Infections / genetics*
  • HIV-1*
  • Histocompatibility Antigens Class I / genetics
  • Humans
  • Major Histocompatibility Complex / genetics
  • Polymorphism, Single Nucleotide*
  • RNA, Long Noncoding
  • RNA, Untranslated
  • Time Factors
  • Transcription Factors / genetics

Substances

  • DNA-Binding Proteins
  • HCP5 long noncoding RNA, human
  • Histocompatibility Antigens Class I
  • MHC class I-related chain A
  • MICB antigen
  • RNA, Long Noncoding
  • RNA, Untranslated
  • Transcription Factors
  • ZSCAN31 protein, human