Analysis of pol integrase sequences in diverse HIV type 1 strains using a prototype genotyping assay

AIDS Res Hum Retroviruses. 2009 Mar;25(3):343-5. doi: 10.1089/aid.2008.0236.

Abstract

A prototype assay was used to genotype integrase (IN) from 120 HIV-1- infected IN inhibitor-naive adults from Argentina, Brazil, Cameroon, South Africa, Thailand, and Uganda. Subtype designations based on analysis of pol IN sequences were A (14), B (15), C (12), D (11), F (12), G (7), H (1), CRF01_AE (9), CRF02_AG (34), CRF22_01A1 (4), and CRF37_cpx (1). Ten (8.3%) of 120 samples had mutations associated with reduced susceptibility to the IN inhibitors, raltegravir and elvitegravir. Two samples had E92Q (both subtype B) and eight had E157Q (2A, 1C, 1D, 1F, 3 CRF02_AG). Some samples had other mutations selected by these drugs including T97A, and some had amino acid polymorphisms at positions associated with raltegravir and elvitegravir resistance. Mutations associated with other investigational HIV IN inhibitors were also identified. This suggests that HIV strains may vary in their natural susceptibility to HIV IN inhibitors.

Publication types

  • Research Support, N.I.H., Extramural

MeSH terms

  • Argentina
  • Brazil
  • Cameroon
  • Cluster Analysis
  • Drug Resistance, Viral
  • Genotype
  • HIV Infections / virology*
  • HIV Integrase / genetics*
  • HIV Integrase Inhibitors / pharmacology
  • HIV-1 / classification*
  • HIV-1 / genetics*
  • Humans
  • Molecular Sequence Data
  • Mutation, Missense
  • Phylogeny
  • Sequence Analysis, DNA
  • Sequence Homology
  • South Africa
  • Thailand
  • Uganda

Substances

  • HIV Integrase Inhibitors
  • HIV Integrase

Associated data

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