Identification of all HIV type 1 group M subtypes in Senegal, a country with low and stable seroprevalence.
A total of 343 HIV-1-positive samples obtained between June 1996 and March 1999 was genetically characterized in the envelope region by HMA and/or sequencing. The env subtype distribution was as follows: 290 (84.6%) A, 22 (6.5%) B, 16 (4.7%) C, 8 (2.5%) D, 1 (0.03%) E, 1 (0.03%) F1, 4 (1.2%) G, and 1 (0.03%) H. For 77 samples the p24 region from the gag gene was also sequenced, and for 9 (11.6%) the subtypes between env and gag were different. Phylogenetic tree analysis showed the predominance of AG-IBNG-like viruses among gag and env subtype A sequences. HMA is relatively simple and requires less sophisticated technical facilities compared with sequencing, and in Senegal 323 (94.2%) of the 343 samples could be identified by this technique. However, in the actual configuration of the assay, discrimination between the recombinant AG-IBNG-like recombinant viruses, which are predominant in Senegal, and the nonrecombinant subtype A viruses is not possible.
Toure-Kane
C
C
Virology, Laboratory, Hopital Le Dantec, Dakar, Senegal.
Montavon
C
C
Faye
M A
MA
Gueye
P M
PM
Sow
P S
PS
Ndoye
I
I
Gaye-Diallo
A
A
Delaporte
E
E
Peeters
M
M
Mboup
S
S
D000293:Adolescent; D000328:Adult; D000368:Aged; D001483:Base Sequence; D005260:Female; D005814:Genes, Viral / Q000235:genetics; D015752:Genes, env / Q000235:genetics; D015750:Genes, gag / Q000235:genetics; D015658:HIV Infections / Q000453:epidemiology*; D015497:HIV-1 / Q000235:genetics*; D006801:Humans; D008137:Longitudinal Studies; D008297:Male; D008875:Middle Aged; D017720:Molecular Epidemiology; D008969:Molecular Sequence Data; D010802:Phylogeny; D012675:Senegal / Q000453:epidemiology; D016036:Seroepidemiologic Studies