Analysis on quasispecies of HIV-1 env gene by single clone per PCR

Na Yang Han, Jeong Gu Nam, Soon Kim Sung, Yun Choi Sang, Joo Shil Lee

Research output: Contribution to journalArticlepeer-review


The human immunodeficiency viruses (HIV) exhibit tremendous genetic variability in their hosts. It is mainly due to two factors: the error-prone nature of the viral reverse transcriptase enzyme and the effects of environmental constraints such as antiviral therapy, cellular tropism, or HIV-specific immune responses. These quasispecies show fluctuation both in the overall divergence and diversity between individual sequences with different duration after primary infection. For better understand the viral quasispecies, we have performed the longitudinal genetic analysis of HIV-1 env gene V1-C5 region (1.2 kb) by two molecular cloning methods. Diversity indicated that 'single clone per PCR' value was higher than that of 'multiple clones per PCR' in subjects: 0.58-3.15 in subject 1 (P<0.05) and 0.28-2.25 in subject 2 (P<0.05). But divergence was similar in both molecular cloning methods. Phylogenetic analysis of longitudinal sequences at different sampling stages revealed the existence of different topologies individually. These data suggested that 'single clone per PCR' is more efficient than 'multiple clones per PCR' in genetic diversity analysis.

Original languageEnglish
Pages (from-to)133-140
Number of pages8
JournalJournal of Bacteriology and Virology
Issue number2
Publication statusPublished - 2005


  • HIV
  • Molecular cloning
  • Quasispecies
  • env gene

ASJC Scopus subject areas

  • Microbiology
  • Immunology
  • Virology


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