Using next generation sequencing to identify yellow fever virus in Uganda

Virology. 2012 Jan 5;422(1):1-5. doi: 10.1016/j.virol.2011.08.024. Epub 2011 Oct 2.


In October and November 2010, hospitals in northern Uganda reported patients with suspected hemorrhagic fevers. Initial tests for Ebola viruses, Marburg virus, Rift Valley fever virus, and Crimean Congo hemorrhagic fever virus were negative. Unbiased PCR amplification of total RNA extracted directly from patient sera and next generation sequencing resulted in detection of yellow fever virus and generation of 98% of the virus genome sequence. This finding demonstrated the utility of next generation sequencing and a metagenomic approach to identify an etiological agent and direct the response to a disease outbreak.

MeSH terms

  • Base Sequence
  • DNA, Complementary
  • Gene Frequency
  • Genome, Viral*
  • Humans
  • Molecular Diagnostic Techniques
  • Phylogeny
  • RNA, Viral / blood*
  • RNA, Viral / genetics
  • Sequence Analysis, RNA
  • Uganda
  • Yellow Fever / diagnosis*
  • Yellow Fever / virology
  • Yellow fever virus / genetics*
  • Yellow fever virus / isolation & purification*


  • DNA, Complementary
  • RNA, Viral