title: Symmetrical base preferences surrounding HIV-1, avian sarcoma/leukosis virus, and murine leukemia virus integration sites.
abstract: To investigate retroviral integration targeting on a nucleotide scale, we examined the base frequencies directly surrounding cloned in vivo HIV-1, murine leukemia virus, and avian sarcoma/leukosis virus integrations. Base preferences of up to 2-fold the expected frequencies were found for three viruses, representing P values down to <10(-100) and defining what appear to be preferred integration sequences. Offset symmetry reflecting the topology of the integration reaction was found for HIV-1 and avian sarcoma/leukosis virus but not murine leukemia virus, suggesting fundamental differences in the way different retroviral integration complexes interact with host-cell DNA.
authors.affiliation: Department of Molecular Microbiology, Sackler School of Graduate Biomedical Sciences, Tufts University School of Medicine, Boston, MA 02111, USA.
authors.forename: Alexander G
authors.initials: AG
authors.lastname: Holman
authors.forename: John M
authors.initials: JM
authors.lastname: Coffin
mesh_terms: D001355:Alpharetrovirus / Q000235:genetics*; D001482:Base Composition; D001483:Base Sequence; D003001:Cloning, Molecular; D015497:HIV-1 / Q000235:genetics*; D006367:HeLa Cells; D006801:Humans; D016662:Virus Integration / Q000235:genetics