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Detection of the cytochrome b mutation G143A in Irish Rhynchosporium commune populations using targeted 454 sequencing
Author(s) -
Phelan Sinead,
Barthe MarieSophie,
Tobie Camille,
Kildea Steven
Publication year - 2017
Publication title -
pest management science
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 1.296
H-Index - 125
eISSN - 1526-4998
pISSN - 1526-498X
DOI - 10.1002/ps.4434
Subject(s) - biology , sanger sequencing , genetics , variants of pcr , cytochrome b , mutation , dna sequencing , pyrosequencing , gene , fungicide , population , polymerase chain reaction , botany , mitochondrial dna , demography , sociology
Abstract BACKGROUND Rhynchosporium commune is a major fungal pathogen of barley crops, and the application of fungicides, such as quinone outside inhibitors ( QoIs ), plays an important role in crop disease control. The genetic mechanisms linked to QoI resistance have been identified in the cytochrome b gene, with QoI resistance conferred by the G143A substitution. The objective of this study was to develop a high‐throughput molecular assay to detect and identify mutations associated with QoI resistance within the Irish R. commune population. RESULTS Leaf lesions of R. commune sampled from 74 sites during 2009–2014 and isolates from 2006 and 2007 were screened for non‐synonymous mutations of the cytochrome b gene using 454 targeted sequencing. The presence of the G143A substitution was confirmed in R. commune samples at one site in 2013 and at four sites in 2014; however, the frequency of the substitution in these samples was low (2–18%). The 454 sequencing results were confirmed by PCR‐RFLP and Sanger sequencing. CONCLUSION The molecular assay that has been applied to this monitoring programme has shown that the application of 454 next‐generation sequencing offers the potential for high throughput and accurate characterisation of non‐synonymous mutations associated with fungicide resistance in a crop pathogen. © 2016 Society of Chemical Industry