Rapid deep sequencing of patient-derived HIV with ion semiconductor technology

J Virol Methods. 2013 Apr;189(1):232-4. doi: 10.1016/j.jviromet.2013.01.019. Epub 2013 Feb 4.


The development of next-generation sequencing technologies has facilitated the study of HIV drug resistance evolution. However, the high capacity and per-run cost of many sequencers is not ideal for viral sequencing unless many samples are analyzed simultaneously. Ion semiconductor sequencing has recently emerged as a flexible, lower-cost alternative with short runtime. This paper describes the use of Ion Torrent devices for deep sequencing of drug resistant HIV samples. High levels of sequencing coverage were obtained in HIV Gag and protease, allowing the detection of mutations at low frequencies.

Publication types

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

MeSH terms

  • Anti-HIV Agents / therapeutic use*
  • Base Sequence
  • Drug Resistance, Viral / genetics
  • Genes, gag
  • HIV / drug effects*
  • HIV / genetics*
  • HIV Infections / drug therapy
  • HIV Infections / genetics
  • HIV Infections / virology*
  • HIV Protease / genetics*
  • HIV Protease Inhibitors / therapeutic use
  • High-Throughput Nucleotide Sequencing
  • Humans
  • Mutation
  • RNA, Viral / genetics
  • Sequence Analysis, RNA
  • gag Gene Products, Human Immunodeficiency Virus / genetics*


  • Anti-HIV Agents
  • HIV Protease Inhibitors
  • RNA, Viral
  • gag Gene Products, Human Immunodeficiency Virus
  • HIV Protease