title: Emergence of complex and diverse CRF02-AG/CRF06-cpx recombinant HIV type 1 strains in Niger, West Africa.
abstract: On the basis of partial env and gag subtyping, we documented that the majority of HIV-1 strains circulating in Niger were CRF02-AG (54.3%) or CRF06-cpx (18.1%) and that 9% of the samples were possible recombinants between CRF02 and CRF06. To determine in more detail the precise structure of these viruses we sequenced the full-length genomes for three such strains (97NE-003, 00NE-036, and 00NE-095). From the bootscan and phylogenetic tree analysis it is evident that the new viruses are the result of recombination events between CRF02-AG and CRF06-cpx strains. Importantly, each virus had a different complex recombinant structure with multiple breakpoints, leading to viruses with complex mosaic patterns.
authors.affiliation: National Hospital of Niamey, Niger.
authors.forename: Saidou
authors.initials: S
authors.lastname: Mamadou
authors.forename: Nicole
authors.initials: N
authors.lastname: Vidal
authors.forename: Celine
authors.initials: C
authors.lastname: Montavon
authors.forename: Aminata
authors.initials: A
authors.lastname: Ben
authors.forename: Ali
authors.initials: A
authors.lastname: Djibo
authors.forename: Sanata
authors.initials: S
authors.lastname: Rabiou
authors.forename: Garba
authors.initials: G
authors.lastname: Soga
authors.forename: Eric
authors.initials: E
authors.lastname: Delaporte
authors.forename: Souleymane
authors.initials: S
authors.lastname: Mboup
authors.forename: Martine
authors.initials: M
authors.lastname: Peeters
mesh_terms: D016679:Genome, Viral; D015658:HIV Infections / Q000453:epidemiology* / Q000821:virology*; D015497:HIV-1 / Q000145:classification* / Q000235:genetics; D006801:Humans; D008969:Molecular Sequence Data; D009548:Niger / Q000453:epidemiology; D010802:Phylogeny; D011995:Recombination, Genetic; D017422:Sequence Analysis, DNA