title: Presence of CRF09_cpx and complex CRF02_AG/CRF09_cpx recombinant HIV type 1 strains in Côte d'Ivoire, West Africa.
abstract: Based on partial env and pol (protease and RT) subtyping, we recently documented that the majority (>80%) of the HIV-1 strains that circulate in Côte d'Ivoire were CRF02_AG and about 11% were recombinants or could not be clearly assigned to a known subtype or CRF. In order to determine in more detail the precise structure of these viruses we sequenced the full-length genomes for six such strains. Bootscan and phylogenetic tree analysis showed that four strains were complex and unique CRF02_AG/CRF09_cpx recombinants, one was a CRF02_AG/CRF06_cpx recombinant, and one was a pure CRF09_cpx. Reanalysis of the remaining recombinants asserted the predominance of CRF09_cpx within intersubtype recombinants and circulation of CRF09_cpx in Côte d'Ivoire. More detailed analysis of the CRF09_cpx strains revealed also that part of the pol gene belonged to subtype K. This is the first time that such recombinants are described.
authors.affiliation: PAC-CI, Abidjan, Côte d'Ivoire.
authors.forename: Thomas
authors.initials: T
authors.lastname: Toni
authors.forename: Christiane
authors.initials: C
authors.lastname: Adjé-Touré
authors.forename: Nicole
authors.initials: N
authors.lastname: Vidal
authors.forename: Albert
authors.initials: A
authors.lastname: Minga
authors.forename: Charlotte
authors.initials: C
authors.lastname: Huet
authors.forename: Marie-Yolande
authors.initials: MY
authors.lastname: Borger
authors.forename: Patricia
authors.initials: P
authors.lastname: Recordon-Pinson
authors.forename: Bernard
authors.initials: B
authors.lastname: Masquelier
authors.forename: Monica
authors.initials: M
authors.lastname: Nolan
authors.forename: John
authors.initials: J
authors.lastname: Nkengasong
authors.forename: Hervé J
authors.initials: HJ
authors.lastname: Fleury
authors.forename: Eric
authors.initials: E
authors.lastname: Delaporte
authors.forename: Martine
authors.initials: M
authors.lastname: Peeters
mesh_terms: D007560:Cote d'Ivoire; D015686:Gene Products, env / Q000235:genetics; D015684:Gene Products, pol / Q000235:genetics; D015497:HIV-1 / Q000145:classification / Q000235:genetics*; D008969:Molecular Sequence Data; D013045:Species Specificity
chemical_list: D015686:Gene Products, env; D015684:Gene Products, pol