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RNA-seq analysis of Coprinopsis cinerea mycelium challenged with gram negative and gram positive bacteria

ABSTRACT: RNA-seq analysis of Coprinopsis cinerea mycelium challenged with gram negative and gram positive bacteria

PROVIDER: PRJEB27226 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	ERR2622800.fastq.gz	Fastqsanger.gz
	ERR2622801.fastq.gz	Fastqsanger.gz
	ERR2622802.fastq.gz	Fastqsanger.gz
	ERR2622794.fastq.gz	Fastqsanger.gz
	ERR2622795.fastq.gz	Fastqsanger.gz

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RNA-seq analysis of Coprinopsis cinerea mycelium challenged with gram negative and gram positive bacteria

Project description:During growth in their ecological niche fungi encounter many (micro)organisms that compete for nutrients and /or have antagonistic activity. However, little is known about responses of fungi upon exposure to other microbes. In this project we want to gain insight in induced responses of C. cinerea towards bacteria through comparison of the transcriptome of vegetative C. cinerea mycelium either grown alone or exposed to the bacterial species Escherichia coli or Bacillus subtilis

2018-09-30 | E-MTAB-6876 | biostudies-arrayexpress

Coprinopsis cinerea transcriptome in response to hyphal damage, nematode predation or bacterial co-cultivation

Project description:We have recently shown that the coprophilous model mushroom Coprinopsis cinerea transcribes a broad array of genes encoding defense proteins in the vegetative mycelium and fruiting bodies that target bacterial competitors and animal predators challenging the respective tissues of this fungus. In addition, we have demonstrated in previous work that two nematotoxic defense proteins from Coprinopsis, CGL1 and CGL2, were induced in vegetative mycelium challenged with the predatory nematode Aphelenchus avenae; however, the specificity and broadness of this response remained unclear. In order to resolve these issues, we sequenced the poly(A)-positive transcriptome of vegetative mycelium of C. cinerea confronted with nematode predation, hyphal mechanical damage or bacterial co-culture.

2015-09-01 | E-MTAB-2763 | biostudies-arrayexpress

5'-Serial Analysis of Gene Expression of the transcriptomes of Coprinopsis cinerea during fruiting body initiation

Project description:Large scale assessment of the transcriptomes of the vegetative mycelium and primordium will facilitate the generation of a more comprehensive picture of the fruiting process in basidiomycetes. We coupled 5'-Serial Analysis of Gene Expression (5'-SAGE) to high-throughput pyrosequencing from 454 Life Sciences to analyze the transcriptomes and identify up-regulated genes (URGs) among vegetative mycelium (Myc) and stage 1 primordium (S1-Pri) of Coprinopsis cinerea during fruiting body development. We evaluated the expression of >3,000 genes in the two respective growth stages and demonstrated that almost one-third of these genes were preferentially expressed in either stage, which implicated a significant transcriptomic switch during fruiting body initiation. We annotated >34,000 and >45,000 transcription start sites (TSSs) in the transcriptomes of Myc and S1-Pri respectively. We identified a wealth of potential URGs related to early fruiting events, although their functions and roles are not exactly known. This study serves to advance our understanding of the molecular mechanisms of fruiting body development in the model mushroom C. cinerea. 5'-SAGE analysis of the transcriptomes of vegetative mycelium and primordium of C. cinerea by 454 GS20 high-throughput pyrosequencer

2013-01-10 | E-GEOD-40722 | biostudies-arrayexpress

5'-Serial Analysis of Gene Expression of the transcriptomes of Coprinopsis cinerea during fruiting body initiation

2013-01-10 | GSE40722 | GEO

omparison of gene expression during meiosis between wild-type and deficient strains of Coprinopsis cinerea

Project description:This SuperSeries is composed of the following subset Series: GSE37942: Comparison of gene expression during meiosis between wild-type and rad50-deficient strains of Coprinopsis cinerea GSE37943: Comparison of gene expression during meiosis between wild-type and msh5-deficient strains of Coprinopsis cinerea Refer to individual Series

2012-05-14 | E-GEOD-37968 | biostudies-arrayexpress

Inducible defense response of C. cinerea against its fungiverous nematode A. avenae in microfluidics device

Project description:The fungal toxin-encoding genes are highly upregulated in the vegetative mycelium upon challenge with the predator. Our recent studies in microfluidics have shown that latter induction is spatially restricted to parts of the vegetative mycelium that is in direct contact with the predator. In order to dissect the defensome of a multicellular fungus against a predator, here, we performed RNA - sequencing of mushroom Coprinopsis cinerea upon challenged with fungivorous nematode Aphelenchus avenae in Microfluidics device at three different time points. We analyzed hyphae that were collected from a microfluidics device where they have been in direct contact with or cultivated without A. avenae.

2018-11-30 | E-MTAB-7005 | biostudies-arrayexpress

Coprinopsis cinerea

Project description:Coprinopsis cinerea Raw sequence reads

| PRJNA755756 | ENA

Coprinopsis cinerea

Project description:Coprinopsis cinerea Raw sequence reads

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Coprinopsis cinerea

Project description:Coprinopsis cinerea Raw sequence reads

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Coprinopsis cinerea

Project description:Coprinopsis cinerea Raw sequence reads