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Identification of novel viruses using VirusHunter--an automated data analysis pipeline.

Quick and accurate identification of microbial pathogens is essential for both diagnosis and response to emerging infectious diseases. The advent of next-generation sequencing technology offers an unprecedented platform for rapid sequencing-based identification of novel viruses. We have developed a customized bioinformatics data analysis pipeline, VirusHunter, for the analysis of Roche/454 and other long read Next generation sequencing platform data. To illustrate the utility of VirusHunter, we performed Roche/454 GS FLX titanium sequencing on two unclassified virus isolates from the World Reference Center for Emerging Viruses and Arboviruses (WRCEVA). VirusHunter identified sequences derived from a novel bunyavirus and a novel reovirus in the two samples respectively. Further sequence analysis demonstrated that the viruses were novel members of the Phlebovirus and Orbivirus genera. Both Phlebovirus and Orbivirus genera include many economic important viruses or serious human pathogens.

Pubmed ID: 24167629

Authors

  • Zhao G
  • Krishnamurthy S
  • Cai Z
  • Popov VL
  • Travassos da Rosa AP
  • Guzman H
  • Cao S
  • Virgin HW
  • Tesh RB
  • Wang D

Journal

PloS one

Publication Data

October 29, 2013

Associated Grants

  • Agency: PHS HHS, Id: HHSN27220100004OI/HHSN27200004
  • Agency: NIAID NIH HHS, Id: U54 AI057160

Mesh Terms

  • Animals
  • Base Sequence
  • Bunyaviridae Infections
  • Computational Biology
  • High-Throughput Nucleotide Sequencing
  • Humans
  • Molecular Sequence Data
  • Orbivirus
  • Phlebovirus
  • Reoviridae Infections
  • Sequence Analysis, DNA
  • Sequence Analysis, RNA