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

ABSTRACT: 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

ORGANISM(S): Coprinopsis cinerea

SUBMITTER: Claire Burns

PROVIDER: E-GEOD-37968 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Comparison of gene expression during meiosis between wild-type and rad50-deficient strains of Coprinopsis cinerea

Project description:Meiosis was compared in rad50-1 and wild type strains of C. cinerea at 6 time points spanning the meiotic timecourse. Abstract: The basidiomycete Coprinopsis cinerea is well-suited to studies of meiosis because meiosis progresses synchronously in ten million cells within each mushroom cap. Approximately 20% of C. cinerea genes exhibit changing expression during meiosis, but meiosis and mushroom development happen concurrently so differentially expressed genes might not be directly involved in meiotic processes. Using microarrays, we examined global gene expression across a meiotic time course in two mutants in which meiosis arrests but mushrooms develop normally. Genes differentially expressed in the mutants compared to wild type are likely to be involved in meiosis and sporulation as opposed to mushroom development. In rad50-1, which arrests in late prophase, RNA abundance for a group of early meiotic genes remains high, while the expression of a group of late meiotic genes is never induced. In contrast, in msh5-22 (which fails to undergo pre-meiotic DNA replication), both early and late meiotic genes are underexpressed relative to wild type at late meiotic time points as the cells die. Genes that are differentially expressed in both mutants are particularly strong candidates for playing roles in meiosis and sporulation. Five time points were analyzed, with four biological replicate rad50-1 samples used for each timepoint. Reference wild-type samples consisted of pooled RNA from ten samples at the appropriate timepoint.

2012-05-14 | E-GEOD-37942 | biostudies-arrayexpress

Comparison of gene expression during meiosis between wild-type and msh5-deficient strains of Coprinopsis cinerea

Project description:Meiosis was compared in msh5-22 and wild type strains of C. cinerea at 6 time points spanning the meiotic timecourse. Abstract: The basidiomycete Coprinopsis cinerea is well-suited to studies of meiosis because meiosis progresses synchronously in ten million cells within each mushroom cap. Approximately 20% of C. cinerea genes exhibit changing expression during meiosis, but meiosis and mushroom development happen concurrently so differentially expressed genes might not be directly involved in meiotic processes. Using microarrays, we examined global gene expression across a meiotic time course in two mutants in which meiosis arrests but mushrooms develop normally. Genes differentially expressed in the mutants compared to wild type are likely to be involved in meiosis and sporulation as opposed to mushroom development. In rad50-1, which arrests in late prophase, RNA abundance for a group of early meiotic genes remains high, while the expression of a group of late meiotic genes is never induced. In contrast, in msh5-22 (which fails to undergo pre-meiotic DNA replication), both early and late meiotic genes are underexpressed relative to wild type at late meiotic time points as the cells die. Genes that are differentially expressed in both mutants are particularly strong candidates for playing roles in meiosis and sporulation. Six time points were analyzed, with four biological replicate msh5-22 samples used for each timepoint. Reference wild-type samples consisted of pooled RNA from ten samples at the appropriate timepoint.

2012-05-14 | E-GEOD-37943 | biostudies-arrayexpress

The meiotic transcriptome of the basidomycete fungus Coprinopsis cinerea (Coprinus cinereus)

Project description:Coprinopsis cinerea exhibits synchronised meiosis in the gill tissue of the fungus, which is 75% meiotic. The mushroom develops from a dikaryon, which contains two separate nuclei. These nucleifuse in the basidia (karyogamy). After karyogamy, the nuclei enter an extended meiotic prophase, in which pahcytene occurs at 6 hours post karyogamy (K+6). The tetrads produced by the second meiotic division are present 12 hours after karyogamy (K+12). To examine a comprehensive timecourse of meiosis in this organism, we took samples over a 15-hour period, 3 hours apart: K-3, K, K+3, K+6, K+9, K+12. Keywords: time course Four biological replicate samples of each timepoint were taken. Labelled cDNA was hybridized to arrays in a 2 channel reaction. The reference sample was a mixture of timepoint samples.

2010-01-31 | E-GEOD-13731 | biostudies-arrayexpress

Comparison of C. cinerea vegetative dikaryotic to vegetative monokaryotic mycelia

Project description:Coprinopsis cinerea vegetative dikaryotic mycelia compared to vegetative monokaryotic mycelia Vegetative dikaryon cDNA was comparitively hybridized with monokaryotic vegetative cDNA. Labelled cDNA was hybridized to arrays in a 2 channel reaction.

2010-05-15 | E-GEOD-18540 | biostudies-arrayexpress

The dikaryon formation (mating) transcriptome of the basidomycete fungus Coprinopsis cinerea (Coprinus cinereus)

Project description:Mating compatibility in C. cinerea is controlled by two loci, A and B. Following fusion of undifferentiated hyphal cells, a complex program is initiated which results in the maintenance of one nucleus from each parent in every cell (the dikaryon). We identified downstream targets of the A locus (A on), the B locus (B on), and both loci (Aon Bon) using strains in which the two pathways are activated separately, and a dikaryotic strain. keywords: Cell type comparison Four biological replicate samples of each experimental strain were taken. Labelled cDNA was hybridized to arrays in a 2 channel reaction. The reference sample was an unmated monokaryotic strain.

2010-06-21 | E-GEOD-20628 | biostudies-arrayexpress

Comparison of C. cinerea vegetative dikaryotic to vegetative monokaryotic mycelia

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

2010-02-01 | GSE18540 | GEO

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

Project description:Coprinopsis cinerea eQTL

| PRJNA514181 | ENA

Project description:Coprinopsis cinerea sequencing

| PRJNA938261 | ENA

Gene expression analysis of stage 1 primordia and vegetative mycelia from Coprinopsis cinerea

Project description:Sexual reproduction is an ancient trait that evolved shortly after the appearance of the first eukaryotic cell. In order to study the transcriptional circuitries driving sexual reproduction in basidiomycota, we sequenced the poly(A)-positive transcriptome of stage 1 primordia and vegetative mycelia from the self-compatible dikaryotic basidiomycete Coprinopsis cinerea A43mutB43mut. Please note Okayama7 samples not included in this submission.

2014-06-01 | E-MTAB-1968 | biostudies-arrayexpress

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