GEO DataSets

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Pleurotus ostreatus; Pterula gracilis

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL30230 GPL30229

43 Samples

Download data: CSV

(Submitter supplied) Pleurotus ostreatus tissue types and developmental stages

Organism:

Pleurotus ostreatus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL30229

32 Samples

Download data: CSV

(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:

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; Candidozyma auris; Pyricularia oryzae KJ201; Syncephalis fuscata; Podospora anserina; Phanerodontia chrysosporium; Agaricus bisporus; Mixia osmundae; Sporobolomyces roseus; Cordyceps militaris; Wolfiporia cocos; Spinellus fusiger; Hesseltinella vesiculosa; Microbotryum lychnidis-dioicae; Heterobasidion irregulare; Phycomyces blakesleeanus; Fusarium fujikuroi; Neurospora crassa; Pleurotus ostreatus; Aureobasidium pullulans; Laccaria bicolor; Uncinocarpus reesii; Parasitella parasitica; Botrytis cinerea; Tilletiopsis washingtonensis

Type:

Methylation profiling by high throughput sequencing; Third-party reanalysis

29 related Platforms

31 Samples

Download data: TSV, TXT, XLS

(Submitter supplied) In this study, we analyzed the genome-wide epigenetic and transcriptional patterns of the white-rot basidiomycete Pleurotus ostreatus throughout its life cycle. Our results performed by using high-throughput sequencing analyses revealed that strain-specific DNA methylation profiles are primarily involved in the repression of transposon activity, and suggest that 21 nt small RNAs play a key role in transposon silencing.Furthermore, we provide evidence that transposon-associated DNA methylation, but not sRNA production, is directly involved in the silencing of genes surrounded by transposons. more...

Organism:

Pleurotus ostreatus

Type:

Expression profiling by high throughput sequencing; Methylation profiling by high throughput sequencing; Non-coding RNA profiling by high throughput sequencing

Platform:

GPL24803

53 Samples

Download data: XLS

(Submitter supplied) To elucidate the mechanisms of fruit body development in Pleurotus ostreatus, the transcriptomes of four different development stages including mycelium, primordium, young fruit body, and mature fruit body were obtained by RNA-seq.

Organism:

Pleurotus ostreatus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL24803

4 Samples

Download data: FA, TXT

(Submitter supplied) Wood-degrading fungi play a critical role in global carbon cycling, and their varied mechanisms for deconstruction offer pathways for industrial bioconversion. In this study, we used comparative genomics to isolate upregulation patterns among fungi with brown rot (carbohydrate-selective) or white rot (lignin-degrading) nutritional modes. Specifically, we used whole-transcriptome profiling to compare early, middle, and late decay stages on wood wafers, matching differentially-expressed gene (DEG) patterns with fungal growth and enzyme activities. more...

Organism:

Postia placenta; Pleurotus ostreatus; Gloeophyllum trabeum; Trametes versicolor

Type:

Expression profiling by high throughput sequencing

4 related Platforms

36 Samples

Download data: GTF, TXT, XLSX

(Submitter supplied) Photoresponse mechanism of oyster muchroom mycelia was studied using a custom microarray prepared on the basis of the genome information (Pleurotus ostreatus PC15 v2.0) in JGI Genome Portal. Blue light stimulation to the mycelia caused the up-regulation and down-regulation of genes expression. Particulary, the genes coding rate-controlling enzymes in glycolysis, pentose phosphate, and sikimic acid pathways were up-regulated to accumulate shikimic acid dramatically.

Organism:

Pleurotus ostreatus

Type:

Expression profiling by array

Platform:

GPL18806

8 Samples

Download data: TXT

(Submitter supplied) Pleurotus ostreatus, also known as the oyster mushroom, is an active lignin decomposer in the forests. The genomes of the monokaryotic strains PC15 and PC9 have been used to characterize the content and distribution of transposable elements. This study analyzes the impact of transposable element insertions on the global transcriptome of P. ostreatus. The transcriptome of PC15 and PC9 has been analyzed in exponential growth during submerged fermentation in malt-yeast extract-sucrose medium

Organism:

Pleurotus ostreatus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL21882

2 Samples

Download data: GFF, TXT

(Submitter supplied) Microarrays have become established tools for describing microbial systems, however the assessment of expression profiles for environmental microbial communities still presents unique challenges. Notably, the concentration of particular transcripts are likely very dilute relative to the pool of total RNA, and PCR-based amplification strategies are vulnerable to amplification biases and the appropriate primer selection. more...

Organism:

Agaricus bisporus; Lentinula edodes; Fusarium oxysporum; Botrytis cinerea; Neurospora crassa; Pleurotus ostreatus; Heterobasidion annosum; synthetic construct; unidentified; Fusarium proliferatum; Cryphonectria parasitica; Phlebia radiata; Trametes versicolor; Coriolopsis gallica; Dichomitus squalens; Phanerodontia chrysosporium; Pleurotus eryngii; Schizophyllum commune; Trametes cinnabarina; Gelatoporia subvermispora; Trametes coccinea

Type:

Expression profiling by array

Platform:

GPL7797

68 Samples

Download data: TXT

(Submitter supplied) http://www.genomics.agilent.com/article.jsp?crumbAction=push&pageId=1456

Organism:

Pleurotus ostreatus

1 Series

8 Samples

Download data: TXT

(Submitter supplied) Probes were printed at 100 µM (in 100 mM Na2HPO4, 200 mM NaCl, 0.01% SDS print buffer) concentrations on epoxysilane-coated glass slides by a Microgrid II printing system (PerkinElmer Life And Analytical Sciences, Inc., Waltham, MA). Control spots were present as buffer, beacon, biotin, polyA and polyT oligonucleotides. The buffer spots were spots of blank print buffer (defined below) intended to ensure probe spots were well-spaced. more...

Organism:

Cryphonectria parasitica; Neurospora crassa; Phlebia radiata; Pleurotus ostreatus; Pleurotus eryngii; Trametes versicolor; Schizophyllum commune; Agaricus bisporus; Lentinula edodes; Fusarium oxysporum; Trametes cinnabarina; Heterobasidion annosum; synthetic construct; Botrytis cinerea; Gelatoporia subvermispora; Coriolopsis gallica; Dichomitus squalens; Trametes coccinea; Fusarium proliferatum; Phanerodontia chrysosporium

1 Series

68 Samples

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