GEO DataSets

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

Organism:

Phanerodontia chrysosporium; Rickenella mellea; Coprinopsis cinerea; Schizophyllum commune; Lentinus tigrinus

Type:

Expression profiling by high throughput sequencing

5 related Platforms

92 Samples

Download data: CSV

(Submitter supplied) The evolution of complex multicellularity has been one of the major transitions in the history of life. In contrast to simple multicellular aggregates of cells, it has evolved only in a handful of lineages, including the animals, embryophytes, red and brown algae and fungi. Despite being a key step towards the evolution of complex organisms, the evolutionary origins and the genetic underpinnings of complex multicellularity are incompletely known. more...

Organism:

Phanerodontia chrysosporium

Type:

Expression profiling by high throughput sequencing

Platform:

GPL25555

8 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; Phycomyces blakesleeanus; Fusarium fujikuroi; Neurospora crassa; Pleurotus ostreatus; Aureobasidium pullulans; Laccaria bicolor; Uncinocarpus reesii; Parasitella parasitica; Botrytis cinerea; Tilletiopsis washingtonensis; 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

Type:

Methylation profiling by high throughput sequencing; Third-party reanalysis

29 related Platforms

31 Samples

Download data: TSV, TXT, XLS

(Submitter supplied) Illumina HiSeq2500 technology was used to generate mRNA profiles from Phanerochaete chrysosporium treated with oak extractives for 1, 3 and 6h. 125bp pair-end reads were generated and aligned to the P.chrysosporium reference transcripts. (https://genome.jgi.doe.gov/Phchr2/Phchr2.home.html) using CLC Genomics Workbench 9.

Organism:

Phanerodontia chrysosporium

Type:

Expression profiling by high throughput sequencing

Platform:

GPL25555

12 Samples

Download data: TXT

(Submitter supplied) The biodegradation of lignocellulose requires the disruption of its lignin, which shields the metabolically assimilable polysaccharides in this recalcitrant natural composite. Although a variety of microorganisms can attack lignocellulose, white rot basidiomycetes are uniquely efficient at this process, cleaving the recalcitrant intermonomer linkages of lignin via extracellular oxidative mechanisms and mineralizing many of the resulting fragments to carbon dioxide via intracellular processes. more...

Organism:

Phanerodontia chrysosporium

Type:

Expression profiling by high throughput sequencing

Platform:

GPL20273

18 Samples

Download data: XLSX

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

Organism:

Phanerodontia chrysosporium; Postia placenta; Phanerochaete chrysosporium RP-78

Type:

Expression profiling by array

Platforms:

GPL7187 GPL20212

47 Samples

Download data: CALLS, PAIR

(Submitter supplied) Using whole genome microarrays based on the annotated genomes of Phanerochaete chrysosporium, we monitored the changes in its transcriptomes relevant to cell wall degradation during growth on three chemically distinct Populus trichocarpa (poplar) wood substrates. Results of this study are sumbitted for review in Biotechnology for Biofuels

Organism:

Phanerodontia chrysosporium; Phanerochaete chrysosporium RP-78

Type:

Expression profiling by array

Platform:

GPL20212

24 Samples

Download data: CALLS, PAIR

(Submitter supplied) The transcriptome of Phanerochaete chrysosporium control mycelium was compared to the transcriptome of mycelium grown on oak acetonic extractives containing medium. The array probes were designed from gene models taken from the Joint Genome Institute (JGI, Department of Energy) Phanerochaete chrysosporium genome sequence version 1. The aim of this study was to determine gene expression changes in Phanerochaete chrysosporium grown on oak extract with a special focus on detoxification systems.

Organism:

Phanerodontia chrysosporium

Type:

Expression profiling by array

Platform:

GPL18237

6 Samples

Download data: PAIR

(Submitter supplied) Transcript profiles of Phanerochaete chrysosporium grown on different substrates were analyszed. Array design was based on the DoE's Joint Genome Institute's gene models for P. chrysosporium version s. The research goal is to identify genes essential for lignocellulose depolymerization.

Organism:

Phanerodontia chrysosporium; Phanerochaete chrysosporium RP-78

Type:

Expression profiling by array

Platform:

GPL18011

9 Samples

Download data: PAIR, TXT

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

Organism:

Postia placenta; Phanerochaete chrysosporium RP-78; Phanerodontia chrysosporium

Type:

Expression profiling by array

Platforms:

GPL8022 GPL13673

12 Samples

Download data: CALLS, PAIR

(Submitter supplied) Transcript profiles of Phanerochaete chrysosporium grown on ball-milled aspen or ball-milled pine were analyzed. Array design based on the DoE's Joint Genome Institute's v2.1 annotation. Goal is to define genes involved in lignocellulose degradation.

Organism:

Phanerochaete chrysosporium RP-78; Phanerodontia chrysosporium

Type:

Expression profiling by array

Platform:

GPL8022

6 Samples

Download data: CALLS, PAIR

(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:

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

Type:

Expression profiling by array

Platform:

GPL7797

68 Samples

Download data: TXT

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

Organism:

Phanerodontia chrysosporium; Phanerochaete chrysosporium RP-78

Type:

Expression profiling by array

Platform:

GPL8022

18 Samples

Download data: TXT

(Submitter supplied) Transcript profiles of Phanerochaete chrysosporium grown on carbon-limited medium, nitrogen-limited medium and replete medium. Array design based on the DoE's Joint Genome Institute's v2.1 annotation. Goal is to define genes involved in lignin degradation. Keywords: gene expression under three different culture conditions

Organism:

Phanerochaete chrysosporium RP-78; Phanerodontia chrysosporium

Type:

Expression profiling by array

Platform:

GPL8022

9 Samples

Download data: TXT

(Submitter supplied) Transcript profiles of Phanerochaete chrysosporium grown on different substrates were analyzed. Array design based on the DoE's Joint Genome Institute's v2.1 annotation. Goal is to define genes involved in cellulose degradation. Keywords: gene expression under different culture conditions

Organism:

Phanerodontia chrysosporium; Phanerochaete chrysosporium RP-78

Type:

Expression profiling by array

Platform:

GPL8022

9 Samples

Download data: TXT

(Submitter supplied) White rot fungi are able to degrade woody lignin and other persistent organic compounds including artificial chemicals (e.g. chlorinated dioxin) in secondary metabolism. This ability has potential in a wide range of biotechnological applications including remediation of organopollutants and the industrial processing of paper and textiles. Ligninolytic fungi secondarily secrete extracellular oxidative enzymes thought to play an important role in these compounds decay. more...

Organism:

Phanerodontia chrysosporium

Type:

Expression profiling by SAGE

Platform:

GPL4722

2 Samples

Download data

(Submitter supplied) The .ndf file is linked below as a supplementary file. Protocol: Proprietary maskless array in situ oligonucleotide synthesis. See http://www.nimblegen.com/

Organism:

Phanerochaete chrysosporium RP-78

2 Series

24 Samples

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