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ABSTRACT: metagenome assembly of PRJNA795879 data set (Ascomycete fungi that are symbionts of lichens from the Lecanoromycetes Genome sequencing and assembly).

PROVIDER: PRJEB72501 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR18162808_scaffolds.fa.gz	Other
	SRR18162807_scaffolds.fa.gz	Other
	SRR18162813_scaffolds.fa.gz	Other
	SRR18162810_scaffolds.fa.gz	Other
	SRR18162822_scaffolds.fa.gz	Other

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Lichen fungal symbionts

Project description:Ascomycete fungi that are symbionts of lichens from the Lecanoromycetes Genome sequencing and assembly

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Project description:metagenome assembly of PRJNA731936 data set (Lichens of the Southern Appalachians).

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Transcriptional profiling of the Neurospora crassa Δcre-1 mutant (FGSC 10372) compared to the wild type strain (FGSC 2489) in response to minimal medium or Avicel medium

Project description:In filamentous ascomycete fungi, the utilization of alternate carbon sources is influenced by the zinc finger transcription factor CreA/CRE-1, which encodes a carbon catabolite repressor protein homologous to Mig1 from Saccharomyces cerevisiae. In Neurospora crassa, deletion of cre-1 results in increased secretion of amylase and β-galactosidase. Here, we determined the CRE-1 regulon by investigating the transcriptome of a Δcre-1 strain compared to wild type when grown on Avicel versus minimal medium (MM). Our data provide comprehensive information on the CRE-1 regulon in N. crassa and contribute to deciphering the global role of carbon catabolite repression in filamentous ascomycete fungi during plant cell wall deconstruction.

2011-07-21 | GSE30313 | GEO

Transcriptional profiling of the Neurospora crassa Δcre-1 mutant (FGSC 10372) compared to the wild type strain (FGSC 2489) in response to minimal medium or Avicel medium

2011-07-20 | E-GEOD-30313 | biostudies-arrayexpress

Metabolomics study of root, rhizosphere and leaf samples from a Populus Trichocarpa common garden

Project description:This data set contains 1376 mass spectrometry reads from root, rhizosphere and leaf sample of Populus Trichocarpa, as well as associated controls. This metabolomics data set was collected as part of a larger campaign which complements the metabolomics data with metagenome sequencing, transcriptomics, and soil measurement data.

2022-12-12 | MSV000090886 | MassIVE

Proteomic and genomic analysis of the marine fungus Paradendryphiella salina

Project description:We set out to investigate the genetic adaptions of the known marine fungus Paradendryphiella salina CBS112865 to the degradation of brown macro-algae, expecting to find a repertoire of carbohydrate active enzymes highly specialized to the degradation of algal polysaccharides. We performed whole genome, transcriptome sequencing and shotgun proteomic analysis of the secretome of P. salina growing on three species of brown algae and under carbon starvation. The genome comparison to close terrestrial fungal relatives, revealed P. salina to have a similar, but reduced carbohydrate active enzyme (CAZyme) profile, except for the presence of three putative alginate lyase 7 genes, most likely acquired via ancient horizontal gene transfer event from a marine bacterium and a polysaccharide lyase 8 gene with similarity to ascomycete chondroitin AC lyases. The proteomic analysis revealed both PL7 and PL8 enzymes to be highly abundant in the algal fermentations together with enzymes necessary for degradation of laminarin, cellulose, lipids and peptides. Our findings indicate that the base CAZyme repertoire of saprobic and plant pathogenic ascomycetes with the necessary addition of alginate lyases provide the fungi with the enzymatic capabilities to thrive on brown algae polysaccharides and even cope with the algal defense mechanisms.

2019-11-13 | PXD012152 | Pride

Complete metabolic reconstruction of the microbiome of the model sponge Ianthella basta

Project description:Marine sponges are essential for coral reefs to thrive and harbour a diverse microbiome that is thought to contribute to host health. Although the overall function of sponge symbionts has been increasingly described, in-depth characterisation of each taxa remains challenging, with many sponge species hosting up to 3,000 distinct microbial species. Recently, the sponge Ianthella basta has emerged as a model organism for symbiosis research, hosting only three dominant symbionts: a Thaumarchaeotum, a Gammaproteobacterium, and an Alphaproteobacterium and a range of other minor taxa. Here, we retrieved metagenome assembled genomes (MAGs) for >90% of I. basta’s microbial community which allowed us to make a complete metabolic reconstruction of the sponge’s microbiome, identifying metabolic complementarity between microbes, as well as the importance of symbionts present in low abundance. We also mined the metagenomes for putative viral sequences, highlighting the contribution of viruses to the overall metabolism of the sponge, and complement this data with metaproteomic sequencing to identify active metabolic pathways in both prokaryotes and viruses. This data now allows us to use I. basta as a model organism for studying host-microbe interactions and provides a basis for future (genomic) manipulative experiments.

2023-02-24 | PXD032278 | Pride

Project description:Soil fungi data set

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Transcriptomic profile of the Beauveria bassiana infection to the Galleria mellonella

Project description:The ascomycete fungus Beauveria bassiana is a pathogen of hundreds of insect species and is commercially produced as an environmentally friendly mycoinsecticide. Genome-wide insight into the infection of the fungi is critical for genetic improvement of fungal insecticides but has been poorly explored. We constructed three transcriptomes of Beauveria bassiana at 24, 48 and 72 hours post treatment of infection (BbI) and of control (Bbc).

2017-04-18 | GSE97879 | GEO

Transcriptional profiling of Piriformospora indica colonizing living and dead barley roots

Project description:Recent sequencing projects have provided deep insight into fungal lifestyle-associated genomic adaptations. Here we report on the 25 Mb genome of the mutualistic root symbiont Piriformospora indica (Sebacinales, Basidiomycota) and provide a global characterization of fungal transcriptional responses associated with the colonization of living and dead roots. Extensive comparative analysis of the P. indica genome with other Basidiomycota and Ascomycota fungi that have diverse lifestyles strategies identified features typically associated with both, biotrophism and saprotrophism. The tightly controlled expression of the lifestyle-associated gene sets during the onset of the symbiosis, revealed by microarrays analysis, argues for a biphasic root colonization strategy of P. indica. Our finding provides a significant advance in understanding development of biotrophic plant symbionts and suggests a series of incremental shifts along the continuum from saprotrophy towards biotrophy in the evolution of mycorrhizal association from decomposer fungi.

2011-10-01 | GSE31266 | GEO

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