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
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.
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
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.
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
