Open AccessNext‐generation sequencing and metagenomic analysis: a universal diagnostic tool in plant virology
Author(s) -
ADAMS IAN P.,
GLOVER RACHEL H.,
MONGER WENDY A.,
MUMFORD RICK,
JACKEVICIENE ELENA,
NAVALINSKIENE MELETELE,
SAMUITIENE MARIJA,
BOONHAM NEIL
Publication year - 2009
Publication title -
molecular plant pathology
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 1.945
H-Index - 103
eISSN - 1364-3703
pISSN - 1464-6722
DOI - 10.1111/j.1364-3703.2009.00545.x
Subject(s) - biology , metagenomics , cucumovirus , genome , virology , dna sequencing , cucumber mosaic virus , whole genome sequencing , pathogen , plant virus , virus , computational biology , genetics , gene
SUMMARY A novel, unbiased approach to plant viral disease diagnosis has been developed which requires no a priori knowledge of the host or pathogen. Next‐generation sequencing coupled with metagenomic analysis was used to produce large quantities of cDNA sequence in a model system of tomato infected with Pepino mosaic virus . The method was then applied to a sample of Gomphrena globosa infected with an unknown pathogen originally isolated from the flowering plant Liatris spicata . This plant was found to contain a new cucumovirus, for which we suggest the name ‘Gayfeather mild mottle virus’. In both cases, the full viral genome was sequenced. This method expedites the entire process of novel virus discovery, identification, viral genome sequencing and, subsequently, the development of more routine assays for new viral pathogens.