title: The analysis of near full-length genome sequences of HIV type 1 subtype A viruses from Russia supports the monophyly of major intrasubtype clusters.
abstract: The HIV-1 epidemic in Russia has been insufficiently studied, with only 11 complete genome sequences from this country currently available, only three of which are of the locally predominant genetic form, the former Soviet Union (FSU) subtype A variant (A(FSU)). Here we analyze 10 newly derived A(FSU) near full-length genome sequences from Russia. Samples were selected based on phylogenetic clustering in protease-reverse transcriptase in two of the major A(FSU) clusters, V77I(PR) (n=6), widely circulating in Russia and other FSU countries, and A(SP1) (n=4), predominant in St. Petersburg. The phylogenetic analysis shows that the V77I(PR) genomes group in a monophyletic cluster together with 10 previously obtained A(FSU) genome sequences from Uzbekistan, Kazakhstan, Russia, and Cyprus, all bearing the V77I substitution in protease. Similarly, the four A(SP1) genomes group in a monophyletic cluster. These results therefore show that the monophyly of V77I(PR) and A(SP1) A(FSU) clusters is supported in near complete genomes.
authors.affiliation: Centro Nacional de Microbiología, Instituto de Salud Carlos III, Majadahonda, Madrid, Spain.
authors.forename: Aurora
authors.initials: A
authors.lastname: Fernández-García
authors.forename: Ana
authors.initials: A
authors.lastname: Revilla
authors.forename: Elena
authors.initials: E
authors.lastname: Vázquez-de Parga
authors.forename: Anna
authors.initials: A
authors.lastname: Vinogradova
authors.forename: Aza
authors.initials: A
authors.lastname: Rakhmanova
authors.forename: Eduard
authors.initials: E
authors.lastname: Karamov
authors.forename: Cristina
authors.initials: C
authors.lastname: Carrera
authors.forename: Elena
authors.initials: E
authors.lastname: Delgado
authors.forename: Lucía
authors.initials: L
authors.lastname: Pérez-Álvarez
authors.forename: Rafael
authors.initials: R
authors.lastname: Nájera
authors.forename: Saladin
authors.initials: S
authors.lastname: Osmanov
authors.forename: Michael M
authors.initials: MM
authors.lastname: Thomson
mesh_terms: D001483:Base Sequence; D003535:Cyprus / Q000453:epidemiology; D005260:Female; D014644:Genetic Variation; D016679:Genome, Viral / Q000235:genetics; D015658:HIV Infections / Q000453:epidemiology / Q000821:virology*; D015497:HIV-1 / Q000235:genetics* / Q000302:isolation & purification; D006801:Humans; D007623:Kazakhstan / Q000453:epidemiology; D008297:Male; D008969:Molecular Sequence Data; D010802:Phylogeny; D015995:Prevalence; D012426:Russia / Q000453:epidemiology; D014610:Uzbekistan / Q000453:epidemiology; D054302:pol Gene Products, Human Immunodeficiency Virus / Q000235:genetics*
chemical_list: D054302:pol Gene Products, Human Immunodeficiency Virus