A genome-to-genome analysis of associations between human genetic variation, HIV-1 sequence diversity, and viral control.
Détails
Etat: Public
Version: de l'auteur⸱e
ID Serval
serval:BIB_AD72A6E486EC
Type
Article: article d'un périodique ou d'un magazine.
Collection
Publications
Institution
Titre
A genome-to-genome analysis of associations between human genetic variation, HIV-1 sequence diversity, and viral control.
Périodique
eLIFE
ISSN
2050-084X (Electronic)
Statut éditorial
Publié
Date de publication
2013
Peer-reviewed
Oui
Volume
2
Pages
e01123
Langue
anglais
Résumé
HIV-1 sequence diversity is affected by selection pressures arising from host genomic factors. Using paired human and viral data from 1071 individuals, we ran >3000 genome-wide scans, testing for associations between host DNA polymorphisms, HIV-1 sequence variation and plasma viral load (VL), while considering human and viral population structure. We observed significant human SNP associations to a total of 48 HIV-1 amino acid variants (p<2.4 × 10(-12)). All associated SNPs mapped to the HLA class I region. Clinical relevance of host and pathogen variation was assessed using VL results. We identified two critical advantages to the use of viral variation for identifying host factors: (1) association signals are much stronger for HIV-1 sequence variants than VL, reflecting the 'intermediate phenotype' nature of viral variation; (2) association testing can be run without any clinical data. The proposed genome-to-genome approach highlights sites of genomic conflict and is a strategy generally applicable to studies of host-pathogen interaction. DOI:http://dx.doi.org/10.7554/eLife.01123.001.
Pubmed
Web of science
Open Access
Oui
Création de la notice
11/12/2013 12:24
Dernière modification de la notice
20/08/2019 16:17