Identification of a novel second-generation circulating recombinant form (CRF48_01B) in Malaysia: a descendant of the previously identified CRF33_01B

J Acquir Immune Defic Syndr. 2010 Jun;54(2):129-36. doi: 10.1097/QAI.0b013e3181d82ce5.

Abstract

A molecular epidemiological investigation conducted among injecting drug users in eastern Peninsular Malaysia in 2007 identified a cluster of sequences (n = 3) located outside any known HIV-1 genotype. Analyses of near full-length nucleotide sequences of these strains from individuals with no recognizable linkage revealed that they have an identical subtype structure comprised of CRF01_AE and subtype B', distinct from any known circulating recombinant forms (CRFs). This novel CRF, designated CRF48_01B, is closely related to CRF33_01B, previously identified in Kuala Lumpur. Phylogenetic analysis of multiple CRF48_01B genome regions showed that CRF48_01B forms a monophyletic cluster within CRF33_01B, suggesting that this new recombinant is very likely a descendant of CRF33_01B. CRF48_01B thus represents one of the first examples of a "second-generation" CRF, generated by additional crossover with pre-existing CRFs. Corroborating these results, Bayesian molecular clock analyses indicated that CRF48_01B emerged in approximately 2001, approximately approximately 8 years after the emergence of CRF33_01B.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Adult
  • Genotype
  • HIV Infections / epidemiology
  • HIV Infections / virology*
  • HIV-1 / genetics*
  • Humans
  • Malaysia / epidemiology
  • Male
  • Middle Aged
  • Molecular Sequence Data
  • Phylogeny
  • Reassortant Viruses / genetics
  • Time Factors

Associated data

  • GENBANK/GQ175881
  • GENBANK/GQ175882
  • GENBANK/GQ175883
  • GENBANK/GQ175884
  • GENBANK/GQ175885
  • GENBANK/GQ175886
  • GENBANK/GQ175887
  • GENBANK/GQ175888
  • GENBANK/GQ175889
  • GENBANK/GQ175890
  • GENBANK/GQ175891
  • GENBANK/GQ175892
  • GENBANK/GQ175893
  • GENBANK/GQ175894
  • GENBANK/GQ175895
  • GENBANK/GQ175896
  • GENBANK/GQ175897
  • GENBANK/GQ175898
  • GENBANK/GQ175899
  • GENBANK/GQ175900
  • GENBANK/GQ175901
  • GENBANK/GQ175902
  • GENBANK/GQ175903