PMID- 11294661
OWN - NLM
STAT- MEDLINE
DCOM- 20010531
LR  - 20081121
IS  - 0022-1899 (Print)
IS  - 0022-1899 (Linking)
VI  - 183
IP  - 9
DP  - 2001 May 1
TI  - Use of drug resistance sequence data for the systematic detection of non-B human 
      immunodeficiency virus type 1 (HIV-1) subtypes: how to create a sentinel site for 
      monitoring the genetic diversity of HIV-1 at a country scale.
PG  - 1311-7
AB  - To assess the molecular epidemiology of human immunodeficiency virus type 1 
      (HIV-1), a screening method was developed for identification of non-B subtypes 
      from sequence data obtained for resistance testing. The method is based on the 
      evaluation of the percentage of divergence of a given sequence from the reference 
      B subtype HXB2. Analysis of 1720 reverse-transcriptase (RT) and 1824 protease 
      sequences stored in a database allowed for the determination of a threshold level 
      of divergence from HXB2 above which a non-B subtype could be unambiguously 
      characterized regardless of the pattern of resistance mutations (>8.6% for RT; 
      >10.8% for protease). This conclusion was validated by phylogenetic analysis of 
      RT, protease, and env genes. Overall, 72 (4.2%) and 73 (4.0%) non-B sequences 
      were identified in the RT and protease coding regions, respectively. This method 
      allows for the rapid detection of non-B subtypes among retrospective, recent, and 
      future RT and/or protease sequence databases.
FAU - Yahi, N
AU  - Yahi N
AD  - Laboratoire de Virologie, Faculte des Sciences, CHRU La Timone, Rue saint Pierre 
      13005, Marseille, France.
FAU - Fantini, J
AU  - Fantini J
FAU - Tourres, C
AU  - Tourres C
FAU - Tivoli, N
AU  - Tivoli N
FAU - Koch, N
AU  - Koch N
FAU - Tamalet, C
AU  - Tamalet C
LA  - eng
PT  - Journal Article
DEP - 20010327
PL  - United States
TA  - J Infect Dis
JT  - The Journal of infectious diseases
JID - 0413675
RN  - EC 2.7.7.49 (HIV Reverse Transcriptase)
RN  - EC 3.4.23.- (HIV Protease)
SB  - IM
MH  - Adolescent
MH  - Adult
MH  - Aged
MH  - Cluster Analysis
MH  - Cohort Studies
MH  - Drug Resistance/genetics
MH  - Female
MH  - France/epidemiology
MH  - Genes, env/genetics
MH  - *Genetic Variation
MH  - HIV Infections/epidemiology/*virology
MH  - HIV Protease/analysis/*genetics
MH  - HIV Reverse Transcriptase/analysis/*genetics
MH  - *HIV-1/classification/enzymology/genetics
MH  - Humans
MH  - Immunophenotyping
MH  - Male
MH  - Middle Aged
MH  - Mutation
MH  - Phylogeny
MH  - Polymerase Chain Reaction
MH  - Reproducibility of Results
MH  - Sequence Analysis
EDAT- 2001/04/11 10:00
MHDA- 2001/06/02 10:01
CRDT- 2001/04/11 10:00
PHST- 2000/10/31 00:00 [received]
PHST- 2001/01/24 00:00 [revised]
PHST- 2001/04/11 10:00 [pubmed]
PHST- 2001/06/02 10:01 [medline]
PHST- 2001/04/11 10:00 [entrez]
AID - JID001311 [pii]
AID - 10.1086/319859 [doi]
PST - ppublish
SO  - J Infect Dis. 2001 May 1;183(9):1311-7. doi: 10.1086/319859. Epub 2001 Mar 27.