Symmetrical base preferences surrounding HIV-1, avian sarcoma/leukosis virus, and murine leukemia virus integration sites.
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.
Holman
Alexander G
AG
Department of Molecular Microbiology, Sackler School of Graduate Biomedical Sciences, Tufts University School of Medicine, Boston, MA 02111, USA.
Coffin
John M
JM
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