Evidence of Two Distinct Subsubtypes within the HIV-1 Subtype A Radiation

Autor: Gao, F., Vidal, N., Li, Y., Trask, S. A., Chen, Y., Kostrikis, Leontios G., Ho, David D., Kim, J., Oh, M. -D, Choe, K., Salminen, M., Robertson, D. L., Shaw, G. M., Hahn, B. H., Peeters, M.
Přispěvatelé: Kostrikis, Leontios G. [0000-0002-5340-7109]
Rok vydání: 2001
Předmět:
virus strain
molecular cloning
sequence analysis
genotype
polymerase chain reaction
Lineage (evolution)
Human immunodeficiency virus 1
HIV Infections
phylogeny
data base
mononuclear cell
Genotype
Epidemiology
Molecular
correlation function
virus classification
Clade
Phylogeny
Genetics
Molecular Epidemiology
clinical article
Phylogenetic tree
adult
cell DNA
article
Nucleic acid sequence
Genes
gag
Genes
pol
female
Infectious Diseases
priority journal
Democratic Republic of the Congo
virus typing
nomenclature
phenotype
Sequence analysis
Molecular Sequence Data
Immunology
Genome
Viral
Biology
Genes
env
Human immunodeficiency virus infection
Phylogenetics
Virology
geographic distribution
Humans
controlled study
human
Korea
Molecular epidemiology
human cell
nucleotide sequence
amino acid sequence
Genes
nef
radiation
virus genome
Cyprus
HIV-1
Zdroj: AIDS Research and Human Retroviruses
AIDS Res.Hum.Retroviruses
ISSN: 1931-8405
0889-2229
Popis: Members of HIV-1 group M are responsible for the vast majority of AIDS cases worldwide and have been classified on the basis of their phylogenetic relationships into nine roughly equidistant clades, termed subtypes. Although there are no known phenotypic correlates for these genotypes, the disproportionate spread of certain of these lineages has been taken to indicate that subtype-specific biological differences may exist. The subtype nomenclature thus remains an important molecular epidemiological tool with which to track the course of the group M pandemic. In this study, we have characterized HIV-1 strains described previously as unusual subtype A variants on the basis of partial sequence analysis. Six such strains from Cyprus (CY), South Korea (KR), and the Democratic Republic of Congo (CD) were PCR amplified from infected cell culture or patient PBMC DNA, cloned, and sequences in their entirety (94CY017, 97KR004, 97CDKTB48, and 97CDKP58) or as half genomes (97CDKS10 and 97CDKFE4). Distance and phylogenetic analyses showed that four of these viruses (94CY017, 97CDKTB48, 97CDKFE4, and 97CDKS10) were closely related to each other, but quite divergent from all other HIV-1 strains, except for subtype A viruses, which represented their closest relatives. In phylogenetic trees from gag, pol, env, and nef regions, the four newly characterized HIV-1 strains formed a distinct sister clade to subtype A, which was as closely related to subtype A as subsubtypes F1 and F2 are to each other. According to current nomenclature rules, this defines a subsubtype, which we have tentatively termed A2. The two other viruses, 97KR004 and 97CDKP58, as well as a full-length HIV-1 sequence from the sequence database (ZAM184), were found to represent complex A2/D, A2/G, and A2/C recombinants, respectively. These results indicate that HIV-1 subtype A is composed of two subsubtypes (A1 and A2), both of which appear to have a widespread geographic distribution. The A2 viruses described here represent the first reference reagents for this new group M lineage. 17 675 688 Cited By :66
Databáze: OpenAIRE
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