GEO DataSets

(Submitter supplied) Members of the fungal genus Armillaria are necrotrophic pathogens with efficient plant biomass-degrading strategies. Armillaria species are some of the largest terrestrial organisms on Earth that cause tremendous losses in diverse ecosystems. Despite their global importance, how Armillaria evolved pathogenicity in a clade of dominantly non-pathogenic wood-degraders (Agaricales) remains elusive. Here, using new genomic data, we show that Armillaria species, in addition to widespread gene duplications and de novo gene origins, acquired at least 1,025 genes via 124 horizontal gene transfer (HGT) events, primarily from Ascomycota donors. more...

Organism:

Eucalyptus grandis; Armillaria luteobubalina

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL20030 GPL33426 GPL33427

28 Samples

Download data: TXT

(Submitter supplied) Members of the fungal genus Armillaria are necrotrophic pathogens with efficient plant biomass-degrading strategies. Armillaria species are some of the largest terrestrial organisms on Earth that cause tremendous losses in diverse ecosystems. Despite their global importance, how Armillaria evolved pathogenicity in a clade of dominantly non-pathogenic wood-degraders (Agaricales) remains elusive. Here, using new genomic data, we show that Armillaria species, in addition to widespread gene duplications and de novo gene origins, appear to have acquired at least 1025 genes via 124 horizontal gene transfer (HGT) events, primarily from Ascomycota donors. more...

Organism:

Armillaria ostoyae; Armillaria borealis

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL33516 GPL33517

24 Samples

Download data

(Submitter supplied) Members of the fungal genus Armillaria are necrotrophic pathogens with efficient plant biomass-degrading strategies. Armillaria species are some of the largest terrestrial organisms on Earth that cause tremendous losses in diverse ecosystems. Despite their global importance, how Armillaria evolved pathogenicity in a clade of dominantly non-pathogenic wood-degraders (Agaricales) remains elusive. Here, using new genomic data, we show that Armillaria species, in addition to widespread gene duplications and de novo gene origins, appear to have acquired at least 1025 genes via 124 horizontal gene transfer (HGT) events, primarily from Ascomycota donors. more...

Organism:

Armillaria ostoyae

Type:

Expression profiling by high throughput sequencing

Platform:

GPL33517

12 Samples

Download data: XLSX

(Submitter supplied) Members of the fungal genus Armillaria are necrotrophic pathogens with efficient plant biomass-degrading strategies. Armillaria species are some of the largest terrestrial organisms on Earth that cause tremendous losses in diverse ecosystems. Despite their global importance, how Armillaria evolved pathogenicity in a clade of dominantly non-pathogenic wood-degraders (Agaricales) remains elusive. Here, using new genomic data, we show that Armillaria species, in addition to widespread gene duplications and de novo gene origins, appear to have acquired at least 1025 genes via 124 horizontal gene transfer (HGT) events, primarily from Ascomycota donors. more...

Organism:

Armillaria borealis

Type:

Expression profiling by high throughput sequencing

Platform:

GPL33516

12 Samples

Download data: XLSX

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

Organism:

Armillaria ostoyae; Armillaria cepistipes

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL23605 GPL28472

25 Samples

Download data: CSV

(Submitter supplied) The genus Armillaria spp. (Fungi, Basidiomycota) includes devastating pathogens of temperate forests and saprotrophs that decay wood. Pathogenic and saprotrophic Armillaria species can efficiently colonize and decay woody substrates, however, mechanisms of wood penetration and colonization are poorly known. We assayed the colonization and decay of autoclaved spruce roots using the conifer-specialists Armillaria ostoyae and A. more...

Organism:

Armillaria cepistipes

Type:

Expression profiling by high throughput sequencing

Platform:

GPL28472

14 Samples

Download data: CSV

(Submitter supplied) The genus Armillaria spp. (Fungi, Basidiomycota) includes devastating pathogens of temperate forests and saprotrophs that decay wood. Pathogenic and saprotrophic Armillaria species can efficiently colonize and decay woody substrates, however, mechanisms of wood penetration and colonization are poorly known. We assayed the colonization and decay of autoclaved spruce roots using the conifer-specialists Armillaria ostoyae and A. more...

Organism:

Armillaria ostoyae

Type:

Expression profiling by high throughput sequencing

Platform:

GPL23605

11 Samples

Download data: CSV

(Submitter supplied) Armillaria species are devastating forest pathogens that are among the largest terrestrial organisms on Earth. They explore hosts and achieve immense colony sizes by rhizomorphs, root-like multicellular structures of clonal dispersal. To resolve the genetic bases of their unique biology, we sequenced and analyzed genomes of 4 Armillaria species and performed RNA-Seq on 7 invasive and reproductive developmental stages. more...

Organism:

Armillaria ostoyae

Type:

Expression profiling by high throughput sequencing

Platform:

GPL23605

30 Samples

Download data: CSV, GFF3, 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:

Pleurotus ostreatus; Gloeophyllum trabeum; Postia placenta; Trametes versicolor

Type:

Expression profiling by high throughput sequencing

4 related Platforms

36 Samples

Download data: GTF, TXT, XLSX

(Submitter supplied) During mycoparasitism, a fungus—the host—is parasitized by another fungus—the mycoparasite. The genetic underpinnings of these relationships have been best characterized in Ascomycete fungi. However, within Basidiomycete fungi, there are rare instances of mushroom-forming species parasitizing the reproductive structures, or sporocarps, of other mushroom-forming species. One of the most enigmatic of these occurs between Entoloma abortivum and species of Armillaria, where hyphae of E. more...

Organism:

Armillaria mellea; Entoloma abortivum

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL30606 GPL30604 GPL30605

27 Samples

Download data: CSV, FA, TXT

(Submitter supplied) Agaricomycetes produce the most efficient enzyme systems to degrade wood and the most complex morphological structures in the fungal kingdom. Despite decades-long interest in their genetic bases, the evolution and functional diversity of both wood-decay and fruiting body formation are incompletely known.Here, we perform comparative genomic and transcriptomic analyses of wood-decay and fruiting body development in Auriculariopsis ampla and Schizophyllum commune (Schizophyllaceae), species with secondarily simplified morphologies and enigmatic wood-decay strategy and weak pathogenicity to woody plants. more...

Organism:

Auriculariopsis ampla

Type:

Expression profiling by high throughput sequencing

Platform:

GPL26790

15 Samples

Download data: CSV