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

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

Armitage, Andrew D. ORCID: 0000-0002-0610-763X, Taylor, Andrew, Sobczyk, Maria K., Baxter, Laura ORCID: 0000-0003-3287-7547, Greenfield, Bethany P. J., Bates, Helen J., Wilson, Fiona, Jackson, Alison C., Ott, Sascha, Harrison, Richard J. ORCID: 0000-0002-3307-3519 and Clarkson, John P. (2018) Characterisation of pathogen-specific regions and novel effector candidates in Fusarium oxysporum f. sp. cepae. Scientific Reports, 8:13530. ISSN 2045-2322 (Online) (doi:https://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: Article
Uncontrolled Keywords: secreted in xylem (SIX), onion, Fusarium oxysporum f. sp. cepae, effector genes, pathogenicity, Fusarium basal rot
Subjects: S Agriculture > SB Plant culture
Faculty / Department / Research Group: Faculty of Engineering & Science
Faculty of Engineering & Science > Natural Resources Institute
Faculty of Engineering & Science > Natural Resources Institute > Agriculture, Health & Environment Department
Last Modified: 27 Feb 2020 16:13
Selected for GREAT 2016: None
Selected for GREAT 2017: None
Selected for GREAT 2018: None
Selected for GREAT 2019: None
URI: http://gala.gre.ac.uk/id/eprint/27114

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