HIV integration site selection: analysis by massively parallel pyrosequencing reveals association with epigenetic modifications.

ABSTRACT: Integration of retroviral DNA into host cell DNA is a defining feature of retroviral replication. HIV integration is known to be favored in active transcription units, which promotes efficient transcription of the viral genes, but the molecular mechanisms responsible for targeting are not fully clarified. Here we used pyrosequencing to map 40,569 unique sites of HIV integration. Computational prediction of nucleosome positions in target DNA indicated that integration sites are periodically distributed on the nucleosome surface, consistent with favored integration into outward-facing DNA major grooves in chromatin. Analysis of integration site positions in the densely annotated ENCODE regions revealed a wealth of new associations between integration frequency and genomic features. Integrati

SUBMITTER: Wang GP 

PROVIDER: S-EPMC1933515 | biostudies-literature | 2007 Aug

REPOSITORIES: biostudies-literature