Identification of novel viruses using VirusHunter--an automated data analysis pipeline.
basic_science · Level V
Where this comes from
- Record sourced from PubMed, PMID 24167629.
- Also identified by DOI 10.1371/journal.pone.0078470 and PMC identifier 3805514.
- Licence recorded as CC BY.
- The licence permits redistribution, so the abstract is shown in full and the full text is available from the publisher.
Abstract
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.
Medical subject headings
- Computational Biology
- High-Throughput Nucleotide Sequencing
- Orbivirus
- Phlebovirus
- Sequence Analysis, DNA
- Sequence Analysis, RNA