Network-based data integration for selecting candidate virulence associated proteins in the cereal infecting fungus Fusarium graminearum

A - Papers appearing in refereed journals

Lysenko, A., Urban, M., Bennett, L., Tsoka, S., Janowska-Sejda, E., Rawlings, C. J., Hammond-Kosack, K. E. and Saqi, M. 2013. Network-based data integration for selecting candidate virulence associated proteins in the cereal infecting fungus Fusarium graminearum. PLOS ONE. 8, p. e67926.

AuthorsLysenko, A., Urban, M., Bennett, L., Tsoka, S., Janowska-Sejda, E., Rawlings, C. J., Hammond-Kosack, K. E. and Saqi, M.
Abstract

The identification of virulence genes in plant pathogenic fungi is important for understanding the infection process, host range and for developing control strategies. The analysis of already verified virulence genes in phytopathogenic fungi in the context of integrated functional networks can give clues about the underlying mechanisms and pathways directly or indirectly linked to fungal pathogenicity and can suggest new candidates for further experimental investigation, using a ‘guilt by association’ approach. Here we study 133 genes in the globally important Ascomycete fungus Fusarium graminearum that have been experimentally tested for their involvement in virulence. An integrated network that combines information from gene co-expression, predicted protein-protein interactions and sequence similarity was employed and, using 100 genes known to be required for virulence, we found a total of 215 new proteins potentially associated with virulence of which 29 are annotated as hypothetical proteins. The majority of these potential virulence genes are located in chromosomal regions known to have a low recombination frequency. We have also explored the taxonomic diversity of these candidates and found 25 sequences, which are likely to be fungal specific. We discuss the biological relevance of a few of the potentially novel virulence associated genes in detail. The analysis of already verified virulence genes in phytopathogenic fungi in the context of integrated functional networks can give clues about the underlying mechanisms and pathways directly or indirectly linked to fungal pathogenicity and can suggest new candidates for further experimental investigation, using a ‘guilt by association’ approach.

Year of Publication2013
JournalPLOS ONE
Journal citation8, p. e67926
Digital Object Identifier (DOI)doi:10.1371/journal.pone.0067926
Open accessPublished as ‘gold’ (paid) open access
FunderBiotechnology and Biological Sciences Research Council
Funder project or codeWheat
PhytoPath: an integrated resource for comparative phytopathogen genomics [2011-2014]
Pathogen-Host Interactions Database: PHI Database [2012-2017]
[20:20 Wheat] Protecting yield potential of wheat
Publisher's version
Output statusPublished
Publication dates
Online04 Jul 2013
Publication process dates
Accepted23 May 2013
PublisherPublic Library of Science, San Fancisco (PLOS)
Public Library of Science (PLOS)
Copyright licenseCC BY
ISSN1932-6203

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