QTL mapping for aggressiveness variation in F. graminearum revealed one causal mutation in FgVe1 velvet protein (ICPSR doi:10.15454/IRKFHM)

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Part 1: Document Description
Part 2: Study Description
Part 3: Data Files Description
Part 4: Variable Description
Part 5: Other Study-Related Materials
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Document Description

Citation

Title:

QTL mapping for aggressiveness variation in F. graminearum revealed one causal mutation in FgVe1 velvet protein

Identification Number:

doi:10.15454/IRKFHM

Distributor:

Portail Data INRAE

Date of Distribution:

2020-06-12

Version:

3

Bibliographic Citation:

Laurent, Benoit, 2020, "QTL mapping for aggressiveness variation in F. graminearum revealed one causal mutation in FgVe1 velvet protein", https://doi.org/10.15454/IRKFHM, Portail Data INRAE, V3, UNF:6:qUH16O3A8fgmJb269Xa6Tw== [fileUNF]

Study Description

Citation

Title:

QTL mapping for aggressiveness variation in F. graminearum revealed one causal mutation in FgVe1 velvet protein

Identification Number:

doi:10.15454/IRKFHM

Authoring Entity:

Laurent, Benoit (INRA - Institut National de la Recherche Agronomique)

Producer:

Laurent Benoit

Distributor:

Portail Data INRAE

Access Authority:

Laurent, Benoit

Depositor:

Laurent, Benoit

Date of Deposit:

2020-02-21

Study Scope

Keywords:

Food Safety and Toxicology, Microorganisms, Omics, Plant Health and Pathology, fungal pathogen, adaptive potential, secondary metabolism, Velvet complex, FgVeA

Abstract:

Fusarium graminearum is one of the most frequent causal agent of the Fusarium Head Blight in the world, a cereal disease spread throughout the world, reducing grain production and quality. F. graminearum isolates are genetically and phenotypically highly diverse. Notably, remarkable variations of aggressiveness between isolates have been observed, which could reflect an adaptive potential of this pathogen. In this study, we aim to characterize the genetic basis of aggressiveness variation observed in an F1 population, for which genome sequences of both parental strains are available. Aggressiveness was assessed by a panel of in planta and in vitro proxies during two phenotyping trials including, among others, disease severity and mycotoxin accumulation in wheat spike. One major and single QTL was mapped for all the traits measured, on chromosome I, that explained up to 90% of the variance for disease severity. The confidence interval at the QTL spanned 1.2 Mb and contained 428 genes on the reference genome. Of these, four candidates were selected based on the postulate that a non-synonymous mutation affecting protein function was responsible for phenotypic differences. Finally, a mutation was identified and functionally validated in the gene FgVe1, encoding for a velvet protein known to be implicated in pathogenicity and secondary metabolism production in several fungi.

Kind of Data:

Dataset

Methodology and Processing

Sources Statement

Data Access

Notes:

<img src="https://www.etalab.gouv.fr/wp-content/uploads/2011/10/licence-ouverte-open-licence.gif" alt="Licence Ouverte" height="100"><a href="https://www.etalab.gouv.fr/licence-ouverte-open-licence">Licence Ouverte / Open Licence Version 2.0</a> compatible CC BY

Other Study Description Materials

File Description--f99900

File: Supplemental file 1.tab

  • Number of cases: 6

  • No. of variables per record: 1

  • Type of File: text/tab-separated-values

Notes:

UNF:6:HWdz3zvmqdQ078gHenQYpg==

File Description--f99901

File: Supplemental File 2.tab

  • Number of cases: 20

  • No. of variables per record: 2

  • Type of File: text/tab-separated-values

Notes:

UNF:6:oiJ+Sc0mWQfV5Kd2pAPDuA==

File Description--f99898

File: Supplemental file 3.tab

  • Number of cases: 15

  • No. of variables per record: 3

  • Type of File: text/tab-separated-values

Notes:

UNF:6:pK1tFbJzmuZSX8mtN7DfRw==

Variable Description

List of Variables:

Variables

QTLmappingforaggressivenessvariationinF.graminearumrevealedonecausalmutationinFgVeAvelvetprotein

f99900 Location:

Variable Format: character

Notes: UNF:6:HWdz3zvmqdQ078gHenQYpg==

QTLmappingforaggressivenessvariationinF.graminearumrevealedonecausalmutationinFgVe1velvetprotein

f99901 Location:

Variable Format: character

Notes: UNF:6:LtsV8RtqQaw0ve0/T65DsA==

B

f99901 Location:

Variable Format: character

Notes: UNF:6:fHiN3w/xvWUjPKgBjR17aA==

QTLmappingforaggressivenessvariationinF.graminearumrevealsonecausalmutationinFgVeAvelvetprotein

f99898 Location:

Variable Format: character

Notes: UNF:6:cpUuRz/k+ys9zn3l/eRPRQ==

B

f99898 Location:

Variable Format: character

Notes: UNF:6:XrtEZUTDEB0giW5yk/UfVw==

C

f99898 Location:

Variable Format: character

Notes: UNF:6:FDGwswsi18WNH5JegFskaw==

Other Study-Related Materials

Label:

Figure 1.jpg

Text:

Phenotypic characteristics of INRA-156, INRA-156ΔMat (parental strain), and INRA-171 (parental strain). a. Disease severity (infected spikelet / total spikelet number) measured at 22 days post inoculation (dpi). b. Trichothecene of type B quantification in µg of mycotoxin per gram of dried spike. c. Pictures of Royssac variety wheat spikes inoculated with INRA-171, INRA-156 or INRA-156ΔMat strains. d. Pictures of the strains grown of PDA medium.

Notes:

image/jpeg

Other Study-Related Materials

Label:

Figure 2.jpg

Text:

Basic statistics of the traits in the progeny and distribution of the different phenotypes assayed in the offspring during the first trial. Spearman rank order correlation coefficient between the two trial is in bold for each traits, * means p-value < 0.01. Black triangle and grey triangle show the INRA-171 and INRA-156ΔMat values for the trait respectively.

Notes:

image/jpeg

Other Study-Related Materials

Label:

Figure 3.jpg

Text:

PCA graph of variables (a.) and of individuals (b.) of the first phenotyping trial data.

Notes:

image/jpeg

Other Study-Related Materials

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Figure 4.jpg

Text:

Analytical process of the in silico analysis of the genomic region of interest.

Notes:

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Other Study-Related Materials

Label:

Figure 5.jpg

Text:

Identification of the causal mutation. A. Representation of the FgVe1 (FGRRES_11955) protein sequence (in amino-acids number) and location and length of the predicted “Velvet domain” (Accession PS51821, Interpro ID: IPR037525) in green. B. Alignment of the protein sequence at the mutation position for the reference genome sequence (* PH-1 strain), for the INRA-156ΔMat and the INRA-171 strain. C. Three-dimensional prediction of the FgVe1 protein and location of the point mutation (dark arrow) on the alpha-loop domain.

Notes:

image/jpeg

Other Study-Related Materials

Label:

Figure 6.jpg

Text:

Phenotyping data of INRA-156 strain, INRA-171 strain and INRA-171cFgVe1 strain, of which the FgVe1 allele has been replaced by the allelic version of INRA-156 strain. a. TCTB production measured from in vitro cultures. b. Conidia production from in vitro cultures. c. Fungal biomass production from in vitro culture. d. Pictures of strains grown on PDA medium

Notes:

image/jpeg

Other Study-Related Materials

Label:

Laurent_et_al_preprint.docx

Text:

Notes:

application/vnd.openxmlformats-officedocument.wordprocessingml.document

Other Study-Related Materials

Label:

QTLmapping_Rqtl.r

Text:

Script R used during QTL analysis

Notes:

type/x-r-syntax

Other Study-Related Materials

Label:

Table 1.docx

Text:

Analyses of variance and heritability estimates (h²) for the aggressiveness-related traits measured in planta and in vitro from combined experiment data (two experiments per trait).

Notes:

application/vnd.openxmlformats-officedocument.wordprocessingml.document

Other Study-Related Materials

Label:

Table 2.docx

Text:

QTL associated with phenotype variation under experiment condition and mapping of the morphological Mendelian trait.

Notes:

application/vnd.openxmlformats-officedocument.wordprocessingml.document