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Characterisation of pathogen-specific regions and novel effector candidates in Fusarium oxysporum f. sp. cepae

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Armitage, Andrew D., Taylor, Andrew, Sobczyk, Maria K., Baxter, Laura, Greenfield, Bethany P. J., Bates, Helen J., Wilson, Fiona, Jackson, Alison C., Ott, Sascha, Harrison, Richard J. and Clarkson, John P. (2018) Characterisation of pathogen-specific regions and novel effector candidates in Fusarium oxysporum f. sp. cepae. Scientific Reports, 8 (1). 13530 . doi:10.1038/s41598-018-30335-7

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Official URL: http://dx.doi.org/10.1038/s41598-018-30335-7

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Abstract

A reference-quality assembly of Fusarium oxysporum f. sp. cepae (Foc), the causative agent of onion basal rot has been generated along with genomes of additional pathogenic and non-pathogenic isolates of onion. Phylogenetic analysis confirmed a single origin of the Foc pathogenic lineage. Genome alignments with other F. oxysporum ff. spp. and non pathogens revealed high levels of syntenic conservation of core chromosomes but little synteny between lineage specific (LS) chromosomes. Four LS contigs in Foc totaling 3.9 Mb were designated as pathogen-specific (PS). A two-fold increase in segmental duplication events was observed between LS regions of the genome compared to within core regions or from LS regions to the core. RNA-seq expression studies identified candidate effectors expressed in planta, consisting of both known effector homologs and novel candidates. FTF1 and a subset of other transcription factors implicated in regulation of effector expression were found to be expressed in planta.

Item Type: Journal Article
Subjects: Q Science > QK Botany
S Agriculture > SB Plant culture
Divisions: Faculty of Science > Life Sciences (2010- )
Library of Congress Subject Headings (LCSH): Fusarium oxysporum -- Genetics, Plant-pathogen relationships, White rot (Onions)
Journal or Publication Title: Scientific Reports
Publisher: Nature Publishing Group
ISSN: 2045-2322
Official Date: 2018
Dates:
DateEvent
2018UNSPECIFIED
Volume: 8
Number: 1
Article Number: 13530
DOI: 10.1038/s41598-018-30335-7
Status: Peer Reviewed
Publication Status: Published
Access rights to Published version: Open Access
RIOXX Funder/Project Grant:
Project/Grant IDRIOXX Funder NameFunder ID
BB/K020870/1 [BBSRC] Biotechnology and Biological Sciences Research Councilhttp://dx.doi.org/10.13039/501100000268
BB/K020730/1[BBSRC] Biotechnology and Biological Sciences Research Councilhttp://dx.doi.org/10.13039/501100000268
CP 116Agriculture and Horticulture Development Boardhttp://dx.doi.org/10.13039/100008123

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