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ABSTRACT: Transcriptomic profiles of Coprinopsis cinerea #326 basidiospores and during germination

PROVIDER: PRJNA560226 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR9967570_1.fastq.gz	Fastqsanger.gz
	SRR9967570_2.fastq.gz	Fastqsanger.gz
	SRR9967571_1.fastq.gz	Fastqsanger.gz
	SRR9967571_2.fastq.gz	Fastqsanger.gz
	SRR9967572_1.fastq.gz	Fastqsanger.gz

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Project description:UV mutagenesis on Coprinopsis cinerea #326

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Coprinopsis cinerea strain:#326

Project description:Coprinopsis cinerea strain:#326 Genome sequencing

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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

Project description:Small RNA sequencing of basidiospore and different germination stages in Coprinopsis cinerea #326 strain

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Blue light exposure and nutrient conditions influence the expression of genes involved in simultaneous hyphal knot formation in Coprinopsis cinerea.

Project description:To identify genes express in earliest stage of fruiting body initiation in Coprinopsis cinerea, strain #326 (AmutBmut haploid fruiting strain), genes expressed at 0, 0.5, 1, 3h after light exposure were compared by Super-SAGE Approximately, 1 million tags were sequenced from each mycelial sample to obtain 65,535 unique tags. First, we made matches between the tags and predicted genes of the WT strain, and 24.4% tags matched to predicted genes. Tags of 11.4% genes that did not match with predicted genes matched with the genome sequence of strain #326, and 64.1% of unique tags (2.5~4.5% of total tag counts) were not identified in the #326 genome sequence. In tags that matched to #326 strain genome, we obtained reads 1,000 bp upstream of the genome sequence from the tags, and found that 81% of 1000 bp upstream genome sequences contain predicted genes. The tag counts that matched the same predicted genes were incremented, and fisher’s exact test was carried out using IDEG6

2018-12-03 | GSE99617 | GEO

Comparison of C. cinerea vegetative dikaryotic to vegetative monokaryotic mycelia

Project description:Coprinopsis cinerea vegetative dikaryotic mycelia compared to vegetative monokaryotic mycelia

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Project description:Genome resequencing of Coprinopsis cinerea AmutBmut pab1-1 #326

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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

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

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