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Fungus metagenome

ABSTRACT: Fungal succession in decomposing ash leaves colonized by the ash dieback pathogen Hymenoscyphus fraxineus or its harmless relative Hymenoscyphus albidus

PROVIDER: PRJDB15312 | ENA |

REPOSITORIES: ENA

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Dataset's files

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			Action	DRS
	DRR446055_1.fastq.gz	Fastqsanger.gz
	DRR446055_2.fastq.gz	Fastqsanger.gz
	DRR446056_1.fastq.gz	Fastqsanger.gz
	DRR446056_2.fastq.gz	Fastqsanger.gz
	DRR446057_1.fastq.gz	Fastqsanger.gz

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Metabolomic profiling of Fraxinus excelsior genotypes tolerant or susceptible to ash dieback disease reveals changes in iridoid glycosides

Project description:European common ash, Fraxinus excelsior L., is currently threatened by Ash dieback (ADB) caused by the fungus, Hymenoscyphus fraxineus. To detect and identify metabolites that may be products of pathways important in contributing to resistance against H. fraxineus we performed untargeted metabolomic profiling on leaves from selected F. excelsior individuals showing strong tolerance or susceptibility to H. fraxineus. We identified sets of "features" [small molecules] that enabled strong discrimination between tolerant or susceptible genotypes of F. excelsior. Strikingly, tolerant F. excelsior lines exhibited low levels of iridoid glycosides, known anti-feeding deterrents. As Europe is threatened by Emerald Ash Borer (Agrilus planipennis), an invasive wood boring beetle native to East Asia that has devastated North American ash, our study raises the question whether selection for resistance to H. fraxineus leads to ecological trade-offs that result in susceptibility to emerging pests such as emerald ash borer.

2016-11-09 | MTBLS372 | MetaboLights

Transcriptional time-course analysis during ash dieback infection revealed different responses in tolerant and susceptible Fraxinus excelsior genotypes

Project description:Hymenoscyphus fraxineus, the causal agent of Ash Dieback (ADB), has been introduced to eastern Europe in the 1990s from where it spread causing decline in European ash populations. However, the genetic basis of the molecular response in tolerant and susceptible ash trees to this disease is still largely unknown. We performed RNA-sequencing to study the transcriptomic response to the disease in four ash genotypes (ADB-tolerant FAR3 and FS36, and ADB-susceptible UW1 and UW2), during a time-course of 7, 14, 21, and 28 days post-inoculation, including mock-infected trees as control samples for each sampling time point. The analysis yielded 395 and 500 Differentially Expressed Genes (DEGs) along the response for ADB-tolerant FAR3 and FS36, respectively, while ADB-susceptible UW1 and UW2 revealed 194 and 571 DEGs, respectively, with most DEGs found exclusively in just one of the genotypes. DEGs shared between tolerant genotypes FAR3 and FS36, included genes involved in the production of phytoalexins and other secondary metabolites with roles in plant defense. Moreover, we identified an earlier expression of genes involved in both pattern- and effector-triggered immunity (PTI and ETI) in ADB-tolerant genotypes, while in ADB-susceptible genotypes both responses were delayed (late response). Overall, these results revealed different transcriptomic expression patterns not only between ADB-tolerant and ADB-susceptible genotypes, but also within these two groups. This hints to individual response in the natural tolerance to ADB, possibly revealing diversified strategies across ash genotypes.

2025-01-29 | GSE278637 | GEO

Project description:Genome sequencing of several strains of the ash dieback pathogen Hymenoscyphus fraxineus

| PRJEB6546 | ENA

Methylation comparison between ash tolerant and susceptible trees to ash dieback [methylation]

Project description:DNA was extracted from two ash tree samples, one tolerant and one susceptible to ash dieback. The DNA was sequenced using Nanopore technologies and the methylation was called against the new genome (BioProject PRJNA865134, SAMN30100368, genome JANJPF000000000 ) to identify differentially methylated regions between both samples. Manuscript title: Fraxinus excelsior updated long-read genome reveals the importance of MADS-box genes in tolerance mechanisms against ash dieback, G3:Genes|Genomes|Genetics

2025-03-03 | GSE214552 | GEO

MetaboLights MTBLS372 - GNPS Metabolomic profiling of Fraxinus excelsior genotypes tolerant or susceptible to ash dieback disease reveals changes in iridoid glycosides

Project description:This data set is downloaded from MetaboLights (http://www.ebi.ac.uk/metabolights/) accession number MTBLS372 Abstract:European common ash, Fraxinus excelsior L., is currently threatened by Ash dieback (ADB) caused by the fungus, Hymenoscyphus fraxineus. To detect and identify metabolites that may be products of pathways important in contributing to resistance against H. fraxineus we performed untargeted metabolomic profiling on leaves from selected F. excelsior individuals showing strong tolerance or susceptibility to H. fraxineus. We identified sets of “features” [small molecules] that enabled strong discrimination between tolerant or susceptible genotypes of F. excelsior. Strikingly, tolerant F. excelsior lines exhibited low levels of iridoid glycosides, known anti-feeding deterrents. As Europe is threatened by Emerald Ash Borer (Agrilus planipennis), an invasive wood boring beetle native to East Asia that has devastated North American ash, our study raises the question whether selection for resistance to H. fraxineus leads to ecological trade-offs that result in susceptibility to emerging pests such as emerald ash borer.

2017-04-17 | MSV000080960 | GNPS

Hymenoscyphus fraxineus

Project description:Hymenoscyphus fraxineus overview

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Ash_dieback_ddRAD

Project description:Genome-wide population diversity in Hymenoscyphus fraxineus points to an eastern Russian origin of European Ash dieback

| PRJEB21336 | ENA

Hymenoscyphus fraxineus genome assembly

Project description:Hymenoscyphus fraxineus genome assembly

| PRJEB21027 | ENA

Fraxinus excelsior transcriptome and methylome

Project description:This SuperSeries is composed of the SubSeries listed below. Manuscript title: Fraxinus excelsior updated long-read genome reveals the importance of MADS-box genes in tolerance mechanisms against ash dieback, G3:Genes|Genomes|Genetics

2025-03-03 | GSE214554 | GEO

Hymenoscyphus albidus

Project description:Genome sequence of Hymenoscyphus albidus

| PRJEB4546 | ENA