Near full-length genome characterization of a newly identified HIV type 1 subtype F variant circulating in St. Petersburg, Russia.
We report the near full-length genome characterization of an HIV-1 subtype F virus (D88_845) collected in St. Petersburg, Russia, from a 25-year-old Russian woman perinatally infected in 1982. In a Bayesian phylogenetic analysis, the genome sequence branched basally to the subsubtype F1 clade. In partial sequences, D88_845 clustered with 13 other subtype F sequences from Russia, corresponding to gag (n = 2), pol (n = 3), and env (n = 8) segments. At least 11 of these sequences are from samples collected in St. Petersburg from heterosexually infected Russian individuals. In each of these segments, the Russian viruses formed a monophyletic cluster that branched as a sister clade of the F1 subsubtype. One sequence from Belgium branched with D88_845 with a posterior probability of 0.99. This is the first report on the identification and near full-length genome characterization of the subtype F variant circulating in St. Petersburg, which is closely related to, but distinct from, the F1 subsubtype.
Fernández-García
Aurora
A
Centro Nacional de Microbiología, Instituto de Salud Carlos III, Majadahonda, Madrid, Spain.
Cuevas
María Teresa
MT
Vinogradova
Anna
A
Rakhmanova
Aza
A
Pérez-Alvarez
Lucía
L
de Castro
Rafael Ojea
RO
Osmanov
Saladin
S
Thomson
Michael M
MM
D000328:Adult; D001499:Bayes Theorem; D005260:Female; D016679:Genome, Viral; D015658:HIV Infections / Q000453:epidemiology* / Q000821:virology; D015497:HIV-1 / Q000145:classification* / Q000235:genetics*; D006801:Humans; D008969:Molecular Sequence Data; D010802:Phylogeny; D012426:Russia / Q000453:epidemiology; D017422:Sequence Analysis, DNA