TY - JOUR
T1 - Identification of Novel Viruses Using VirusHunter -- an Automated Data Analysis Pipeline
AU - Zhao, Guoyan
AU - Krishnamurthy, Siddharth
AU - Cai, Zhengqiu
AU - Popov, Vsevolod L.
AU - Travassos da Rosa, Amelia P.
AU - Guzman, Hilda
AU - Cao, Song
AU - Virgin, Herbert W.
AU - Tesh, Robert B.
AU - Wang, David
PY - 2013/10/22
Y1 - 2013/10/22
N2 - 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.
AB - 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.
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U2 - 10.1371/journal.pone.0078470
DO - 10.1371/journal.pone.0078470
M3 - Article
C2 - 24167629
AN - SCOPUS:84886003785
SN - 1932-6203
VL - 8
JO - PloS one
JF - PloS one
IS - 10
M1 - e78470
ER -