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ABSTRACT: Transcriptomes of decay tests (Rhodonia planta, FPRL280 and MAD-698 and Gloeophyllum trabeum), untreated and acetylated

PROVIDER: PRJNA681134 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR13171819.fastq.gz	Fastqsanger.gz
	SRR13171820.fastq.gz	Fastqsanger.gz
	SRR13171821.fastq.gz	Fastqsanger.gz
	SRR13171822.fastq.gz	Fastqsanger.gz
	SRR13171823.fastq.gz	Fastqsanger.gz

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Rhodonia placenta, Gloeophyllum trabeum strain:FPRL280, MAD-698, BAM 115

Project description:Rhodonia placenta (FPRL280, MAD-698) and Gloeophyllum trabeum transcriptomes

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Functional transcriptomics reveal distinct combat strategies between lineages of wood-degrading fungi with redundant wood decay mechanisms

Project description:Wood-degrading fungi vary in their strategies for deconstructing wood, and their competitive successes shape the rate and fate of carbon released from wood, Earth’s largest pool of aboveground terrestrial carbon. In this study, one-on-one interspecific interactions between two model brown rot (carbohydrate-selective) fungi, Gloeophyllum trabeum and Rhodonia (Postia) placenta, were studied on wood wafers where a clearly resolved interaction zone (IZ) could be generated, reproducibly. Comparative RNAseq and proteomics between the IZ and non-interacting hyphae of each species identified combative strategies for each fungus. Glycoside hydrolases were a relatively smaller portion of the interaction secretome compared to non-interacting hyphae. The interaction zone showed higher pectinase specific activity than all other sampling locations, and higher laminarinase specific activity (branched β‐glucan proxy) was seen in the IZ secretome relative to equivalent hyphae in single‐species cultures. Our efforts also identified two distinct competitive strategies in these two fungi with a shared nutritional mode (brown rot) but polyphyletic ancestral lineages. Gloeophyllum trabeum (Gloeophyllum clade) employed secondary metabolite (SM) synthesis in response to a competitor, as shown by the upregulation of several SM-synthesizing genes in the interaction. R. placenta (Antrodia clade) instead upregulated a larger variety of uncharacterized oxidoreductases in interacting hyphae, suggesting that an oxidative burst may be a response to competitors in this fungus. Both species produced several hypothetical proteins exclusively in the interaction zone, leaving abundant unknowns on the battlefield. This work supports the existence of multiple interaction strategies among brown rot fungi and highlights the functional diversity among wood decay fungi.

2020-05-22 | GSE151023 | GEO

Gloeophyllum trabeum ATCC 11539

Project description:Gloeophyllum trabeum ATCC 11539 genome sequencing project

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Phanaerochaete chrysosporium and Postia placenta gene expression in ball-milled aspen or ball-milled pine medium

Project description:This SuperSeries is composed of the following subset Series: GSE27941: Lignocellulose-induced regulation of Phanaerochaete chrysosporium genes GSE29656: Postia placenta MAD-698 gene expression in ball-milled aspen or ball-milled pine medium Refer to individual Series

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Transcriptome analysis of the brown rot fungus Gloeophyllum trabeum during lignocellulose degradation

Project description:Brown rot fungi have great potential in biorefinery wood conversion systems, because they are the primary wood decomposers in coniferous forests and have an efficient lignocellulose degrading system. Their initial wood degradation mechanism is thought to consist of an oxidative radical-based system that acts sequentially with an enzymatic saccharification system, but the complete molecular mechanism of this system has not yet been elucidated. Some studies have shown that wood degradation mechanisms of brown rot fungi have diversity in their substrate selectivity. Gloeophyllum trabeum, one of the most studied brown rot species, has broad substrate selectivity and even can degrade some grasses. However, the basis for this broad substrate specificity is poorly understood. In this study, we performed RNA-seq analyses on G. trabeum grown on media containing glucose, cellulose, or Japanese cedar (Cryptomeria japonica) as the sole carbon source. Beyond the gene expression on glucose, 1129 genes were upregulated on cellulose and 1516 genes were upregulated on cedar. Carbohydrate Active enZyme (CAZyme) genes upregulated on cellulose and cedar media by G. trabeum included GH12, GH131, CE1, AA3_1, AA3_2, AA3_4 and AA9, which is a newly reported expression pattern for brown rot fungi. The upregulation of both terpene synthase and cytochrome P450 genes on cedar media suggests the potential importance of these genes in the production of secondary metabolites associated with the chelator-mediated Fenton reaction. These results provide new insights into the inherent wood degradation mechanism of G. trabeum and the diversity of brown rot mechanisms.

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Project description:Anti-fungal activity of Dalbergia retusa extract on Gloeophyllum trabeum

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Project description:Postia placenta MAD-698 gene expression in different media

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