The Genome Sequence of the Fungal Pathogen Fusarium virguliforme That Causes Sudden Death Syndrome in Soybean

Srivastava, Subodh; Huang, Xiaoqiu; Brar, Hargeet K.; Fakhoury, Ahmad M.; Bluhm, Burton H.; Bhattacharyya, Madan K.

doi:10.1371/journal.pone.0081832

Cited by 50 publications

(43 citation statements)

References 44 publications

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“…Whereas other Fusarium species are a major source of a high value edible protein consumed by humans (F. venenatum) or are used to produce specific biomolecules, for example plant growth promoting gibberellins (F. fujikuroi). As a consequence over the past decade, multiple Fusarium sequencing projects have taken place [3,4] or are currently in progress [5]. Although the haploid Fusarium genomes are small in size, typically [35][36][37][38][39][40][41][42][43][44][45][46][47][48][49][50] Mbp, for no Fusarium species is the complete genome sequence available.…”

Section: Introductionmentioning

confidence: 99%

The completed genome sequence of the pathogenic ascomycete fungus Fusarium graminearum

et al. 2015

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Background: Accurate genome assembly and gene model annotation are critical for comparative species and gene functional analyses. Here we present the completed genome sequence and annotation of the reference strain PH-1 of Fusarium graminearum, the causal agent of head scab disease of small grain cereals which threatens global food security. Completion was achieved by combining (a) the BROAD Sanger sequenced draft, with (b) the gene predictions from Munich Information Services for Protein Sequences (MIPS) v3.2, with (c) de novo whole-genome shotgun re-sequencing, (d) re-annotation of the gene models using RNA-seq evidence and Fgenesh, Snap, GeneMark and Augustus prediction algorithms, followed by (e) manual curation.

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Section: Introductionmentioning

confidence: 99%

The completed genome sequence of the pathogenic ascomycete fungus Fusarium graminearum

et al. 2015

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“…aProtein identification numbers are same as the gene IDs of the F. virguliforme genome database (http://fvgbrowse.agron.iastate.edu) [56].bNumber of times the peptides were identified from five biological replicates of xylem saps collected from F. virguliforme -infected soybean plants. The total number of times a peptide(s) was identified is presented in parentheses.…”

Section: Resultsmentioning

confidence: 99%

“…aProtein identification numbers are same as the gene IDs of the F. virguliforme genome database (http://fvgbrowse.agron.iastate.edu) [56].bNumber of times a peptide(s) was identified in one biological replicate of the culture filtrate.cExponentially modified protein abundance index.d F. virguliforme proteins that were identified from the xylem sap of F. virguliforme -infected soybean plants (Table 1). …”

Section: Resultsmentioning

confidence: 99%

Analyses of the Xylem Sap Proteomes Identified Candidate Fusarium virguliforme Proteinacious Toxins

Abeysekara

Bhattacharyya

2014

PLoS ONE

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BackgroundSudden death syndrome (SDS) caused by the ascomycete fungus, Fusarium virguliforme, exhibits root necrosis and leaf scorch or foliar SDS. The pathogen has never been identified from the above ground diseased foliar tissues. Foliar SDS is believed to be caused by host selective toxins, including FvTox1, secreted by the fungus. This study investigated if the xylem sap of F. virguliforme-infected soybean plants contains secreted F. virguliforme-proteins, some of which could cause foliar SDS development.ResultsXylem sap samples were collected from five biological replications of F. virguliforme-infected and uninfected soybean plants under controlled conditions. We identified five F. virguliforme proteins from the xylem sap of the F. virguliforme-infected soybean plants by conducting LC-ESI-MS/MS analysis. These five proteins were also present in the excreted proteome of the pathogen in culture filtrates. One of these proteins showed high sequence identity to cerato-platanin, a phytotoxin produced by Ceratocystis fimbriata f. sp. platani to cause canker stain disease in the plane tree. Of over 500 soybean proteins identified in this study, 112 were present in at least 80% of the sap samples collected from F. virguliforme-infected and -uninfected control plants. We have identified four soybean defense proteins from the xylem sap of F. virguliforme-infected soybean plants. The data have been deposited to the ProteomeXchange with identifier PXD000873.ConclusionThis study confirms that a few F. virguliforme proteins travel through the xylem, some of which could be involved in foliar SDS development. We have identified five candidate proteinaceous toxins, one of which showed high similarity to a previously characterized phytotoxin. We have also shown the presence of four soybean defense proteins in the xylem sap of F. virguliforme-infected soybean plants. This study laid the foundation for studying the molecular basis of foliar SDS development in soybean and possible defense mechanisms that may be involved in conferring immunity against F. virguliforme and other soybean pathogens.

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“…The draft F . virguliforme genome sequence (available at http://fvgbrowse.agron.iastate.edu/gb2/gbrowse/fvirguli/ [26]) has been shown to contain 14,845 predicted genes [26]. Reads with quality scores more than Phred 33 were used to map transcripts to the cDNA sequences of predicted F .…”

Section: Methodsmentioning

confidence: 99%

Investigation of the Fusarium virguliforme Transcriptomes Induced during Infection of Soybean Roots Suggests that Enzymes with Hydrolytic Activities Could Play a Major Role in Root Necrosis

et al. 2017

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Sudden death syndrome (SDS) is caused by the fungal pathogen, Fusarium virguliforme, and is a major threat to soybean production in North America. There are two major components of this disease: (i) root necrosis and (ii) foliar SDS. Root symptoms consist of root necrosis with vascular discoloration. Foliar SDS is characterized by interveinal chlorosis and leaf necrosis, and in severe cases by flower and pod abscission. A major toxin involved in initiating foliar SDS has been identified. Nothing is known about how root necrosis develops. In order to unravel the mechanisms used by the pathogen to cause root necrosis, the transcriptome of the pathogen in infected soybean root tissues of a susceptible cultivar, ‘Essex’, was investigated. The transcriptomes of the germinating conidia and mycelia were also examined. Of the 14,845 predicted F. virguliforme genes, we observed that 12,017 (81%) were expressed in germinating conidia and 12,208 (82%) in mycelia and 10,626 (72%) in infected soybean roots. Of the 10,626 genes induced in infected roots, 224 were transcribed only following infection. Expression of several infection-induced genes encoding enzymes with oxidation-reduction properties suggests that degradation of antimicrobial compounds such as the phytoalexin, glyceollin, could be important in early stages of the root tissue infection. Enzymes with hydrolytic and catalytic activities could play an important role in establishing the necrotrophic phase. The expression of a large number of genes encoding enzymes with catalytic and hydrolytic activities during the late infection stages suggests that cell wall degradation could be involved in root necrosis and the establishment of the necrotrophic phase in this pathogen.

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The Genome Sequence of the Fungal Pathogen Fusarium virguliforme That Causes Sudden Death Syndrome in Soybean

Cited by 50 publications

References 44 publications

The completed genome sequence of the pathogenic ascomycete fungus Fusarium graminearum

The completed genome sequence of the pathogenic ascomycete fungus Fusarium graminearum

Analyses of the Xylem Sap Proteomes Identified Candidate Fusarium virguliforme Proteinacious Toxins

Investigation of the Fusarium virguliforme Transcriptomes Induced during Infection of Soybean Roots Suggests that Enzymes with Hydrolytic Activities Could Play a Major Role in Root Necrosis

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