Genomic Footprinting of HTLV Type I and HIV Type 1 in Human T Cell Lines

Genomic footprinting of integrated HTLV-I and HIV-1 confirmed many aspects of retroviral transcriptional regulation deduced from previous studies. However, many notable differences were seen. HTLV-I genomic protein-binding patterns corresponded more closely to elements defined by transient transfection expression studies than to those mapped by in vitro protein-binding studies. HIV-1 genomic footprinting showed activation-related binding to adjacent NF-KB/SP1 sites and a large (90 bp) region transversing the R/U5 boundary, but minimal protein binding to NFAT, NRE, LBP-1, and CTF/NF1 sites relative to previous in vitro footprinting studies.