GEO DataSets

(Submitter supplied) During infection, plant pathogenic fungi secrete a set of molecules collectively known as effectors, involved in overcoming the host immune defense system and in disease establishment. Effector genes are concertedly expressed as waves all along plant pathogenic fungi lifecycle. However, little is known about how coordinated expression of effector genes is regulated. Since many effector genes are located in repeat-rich regions, the role of chromatin remodeling in the regulation of effector expression was recently investigated. more...

Organism:

Plenodomus lingam

Type:

Expression profiling by high throughput sequencing

Platform:

GPL33551

16 Samples

Download data: TXT

(Submitter supplied) In phytopathogenic fungi, the expression of hundreds of small secreted protein (SSP)-encoding genes is induced upon primary infection of plants while no or a low level of expression is observed during vegetative growth. In some species such as Leptosphaeria maculans, this coordinated in-planta upregulation of SSP-encoding genes expression relies on an epigenetic control but the signals triggering gene expression in-planta are unknown. more...

Organism:

Plenodomus lingam

Type:

Expression profiling by high throughput sequencing

Platform:

GPL21935

4 Samples

Download data: TXT

(Submitter supplied) Cytosine methylation is a conserved base modification, but explanations for its interspecific variation remain elusive. Only through taxonomic sampling of disparate groups can unifying explanations for interspecific variation be thoroughly tested. Here we leverage phylogenetic resolution of cytosine DNA methyltransferases (DNA MTases) and genome evolution to better understand widespread interspecific variation across 40 diverse fungal species. more...

Organism:

Phycomyces blakesleeanus; Fusarium fujikuroi; Neurospora crassa; Pleurotus ostreatus; Aureobasidium pullulans; Laccaria bicolor; Uncinocarpus reesii; Parasitella parasitica; Botrytis cinerea; Tilletiopsis washingtonensis; Agaricus bisporus; Mixia osmundae; Sporobolomyces roseus; Cordyceps militaris; Wolfiporia cocos; Spinellus fusiger; Hesseltinella vesiculosa; Microbotryum lychnidis-dioicae; [Candida] auris; Heterobasidion irregulare; Plenodomus lingam; Candida albicans; Coemansia reversa; Postia placenta; Coemansia spiralis; Kirkomyces cordensis; Metarhizium robertsii; Pseudogymnoascus destructans; Saccharomyces cerevisiae; Aspergillus flavus; Coprinopsis cinerea; Clavispora lusitaniae; Lobosporangium transversale; Radiomyces spectabilis; Flammula alnicola; Cryptococcus neoformans var. grubii; Pyricularia oryzae KJ201; Syncephalis fuscata; Podospora anserina; Phanerodontia chrysosporium

Type:

Methylation profiling by high throughput sequencing; Third-party reanalysis

29 related Platforms

31 Samples

Download data: TSV, TXT, XLS

(Submitter supplied) Leptosphaeria maculans, causal agent of stem canker disease, colonises oilseed rape (Brassica napus) in two stages: a short and early colonisation stage corresponding to cotyledon or leaf colonisation, and a late colonisation stage during which the fungus colonises systemically and symptomlessly the plant during several months before stem canker appears. To date, determinants of the late colonisation stage are poorly understood; L. more...

Organism:

Brassica napus; Plenodomus lingam

Type:

Expression profiling by high throughput sequencing

5 related Platforms

18 Samples

Download data: TXT

(Submitter supplied) The hemibiotrophic fungal pathogen Leptosphaeria maculans is the causal agent of blackleg disease in Brassica napus (canola, oilseed rape) and causes significant losses in crop yields worldwide. While genetic resistance has been used to mitigate the disease, little information about the genes and gene regulatory networks underlying blackleg resistance is currently available. High-throughput RNA sequencing and rigorous bioinformatics approaches revealed dynamic changes in the host transcriptome and identified plant defense pathways specific to the host-pathogen incompatible LepR1-AvrLepR1 interaction.

Organism:

Brassica napus; Plenodomus lingam

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL19731 GPL21443

36 Samples

Download data: XLSX

(Submitter supplied) The transcriptome of Leptosphaeria maculans was analysed in mycelium of the wild type isolate v23.1.3 or in transformants silenced for DIM5 or HP1, two genes encoding enzymes involved in chromatin remodelling. The array probes were designed from gene models from the L. maculans whole genome annotation. The aim of this study was to characterise the effect of chromatin remodelling on gene expression during in vitro growth.

Organism:

Plenodomus lingam

Type:

Expression profiling by array

Platform:

GPL17688

9 Samples

Download data: PAIR

(Submitter supplied) The transcriptome of Leptosphaeria maculans was analyzed in mycelium and during oilseed rape (Brassica napus) leaf infection. The array probes were designed from gene models from the L. maculans whole genome annotation. One aim of this study was to verify the expression of the automatically annotated gene models in various conditions. Another goal was to monitor gene expression profiles during oilseed rape leaf infection and to highlight tissue-specific transcripts, e.g. more...

Organism:

Brassica napus; Plenodomus lingam

Type:

Expression profiling by array

Platform:

GPL13139

9 Samples

Download data: PAIR

(Submitter supplied) The Leptosphaeria maculans custom-exon array (4*72K) manufactured by Roche NimbleGen Systems Limited (Madison, WI) contains 5 independent, non-identical, 60-mer probes per gene model. Included in the oligoarray are 12,457 predicted gene models, 467 genes encoding small secreted proteins not included in the predicted gene models, 1402 clustered EST that did not match with the gene models, 2008 random 60-mer control probes and labelling controls. more...

Organism:

Plenodomus lingam

1 Series

9 Samples

Download data: NDF, NGD

(Submitter supplied) The Leptosphaeria maculans custom-exon array (385K) manufactured by Roche NimbleGen Systems Limited (Madison, WI) contains fourteen independent, non-identical, 60-mer probes per gene model, each being duplicated on the array. Included in the oligoarray are 12,396 predicted gene models, 63 genes encoding small secreted proteins not included in the predicted gene models, 1316 clustered EST that did not match with the gene models, 8651 random 60-mer control probes and labelling controls. more...

Organism:

Plenodomus lingam

1 Series

9 Samples

Download data: NDF, NGD