Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Phanerochaete sordida strain:YK-624

ABSTRACT: Phanerochaete sordida strain:YK-624 Transcriptome or Gene expression

PROVIDER: PRJNA690204 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR13376252_1.fastq.gz	Fastqsanger.gz
	SRR13376252_2.fastq.gz	Fastqsanger.gz
	SRR13376253_1.fastq.gz	Fastqsanger.gz
	SRR13376253_2.fastq.gz	Fastqsanger.gz
	SRR13376254_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 12

Similar Datasets

Phanerochaete sordida strain:YK-624

Project description:Phanerochaete sordida YK-624 genome

| PRJDB11801 | ENA

Phanerochaete sordida strain:YK-624

Project description:Phanerochaete sordidad RNAseq with TBBPA

| PRJDB16601 | ENA

Phanerochaete sordida

Project description:Phanerochaete sordida overview

| PRJNA776074 | ENA

Phanerochaete sordida strain:YK624

Project description:Transcriptomics analysis reveals the high bio-degradation efficiency of white-rot fungus Phanerochaete sordida YK-624 on lignin

| PRJDB8909 | ENA

Phanerochaete sordida

Project description:Phanerochaete sordida Transcriptome or Gene expression

| PRJNA732985 | ENA

Phanerochaete sordida

Project description:Phanerochaete sordida Transcriptome or Gene expression

| PRJNA732979 | ENA

Phanerochaete sordida

Project description:Phanerochaete sordida Transcriptome or Gene expression

| PRJNA689248 | ENA

Draft Genome Sequence of the White-Rot Fungus Phanerochaete sordida YK-624.

Project description:Here, we report the draft genome sequence of the white-rot basidiomycete fungus Phanerochaete sordida YK-624 (ATCC 90872), which was isolated in Yakushima, Kagoshima, Japan. The genome of this strain was found to be 41.2 Mbp, with a G+C content of 58.7%, and to comprise 17,108 predicted protein-coding sequences.

| S-EPMC8530024 | biostudies-literature

RNA-sequencing analysis of bisphenol A biodegradation by white-rot fungus <i>Phanerochaete sordida</i> YK-624.

Project description:Bisphenol A (BPA) is a representative example of an endocrine-disrupting chemical. It is one of the most produced chemical substances in the world, but it causes harmful effects in organisms, such that the effective degradation of BPA is critical. The white-rot fungus Phanerochaete sordida YK-624 has been shown to effectively degrade BPA under ligninolytic and non-ligninolytic conditions. However, it is still unclear what kinds of enzymes are involved in BPA degradation. To explore the mechanism of BPA degradation, the present study analysed the functional genes of P. sordida YK-624 using RNA-sequencing (RNA-Seq). Oxidation-reduction process and metabolic pathway were enriched under ligninolytic and non-ligninolytic conditions by Gene Ontology (GO) analysis and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway analysis. It is suggested that BPA might be used as a carbon source by P. sordida YK-624. Lignin peroxidase and cytochrome P450 were detected in upregulated differentially expressed genes (DEGs). The lignin-degrading enzyme lignin peroxidase and the intracellular cytochrome P450 system were involved in BPA degradation by P. sordida YK-624, respectively. Furthermore, quantitative real-time PCR (qPCR) was used to validate the reliability of the RNA-Seq results.Supplementary informationThe online version contains supplementary material available at 10.1007/s13205-022-03298-w.

| S-EPMC9375798 | biostudies-literature

Ergosterol and Its Metabolites Induce Ligninolytic Activity in the Lignin-Degrading Fungus <i>Phanerochaete sordida</i> YK-624.

Project description:White-rot fungi are the most important group of lignin biodegraders. Phanerochaete sordida YK-624 has higher ligninolytic activity than that of model white-rot fungi. However, the underlying mechanism responsible for lignin degradation by white-rot fungi remains unknown, and the induced compounds isolated from white-rot fungi for lignin degradation have never been studied. In the present study, we tried to screen ligninolytic-inducing compounds produced by P. sordida YK-624. After large-scale incubation of P. sordida YK-624, the culture and mycelium were separated by filtration. After the separation and purification, purified compounds were analyzed by high-resolution electrospray ionization mass spectrometry and nuclear magnetic resonance. The sterilized unbleached hardwood kraft pulp was used for the initial evaluation of ligninolytic activity. Ergosterol was isolated and identified and it induced the lignin-degrading activity of this fungus. Moreover, we investigated ergosterol metabolites from P. sordida YK-624, and the ergosterol metabolites ergosta-4,7,22-triene-3,6-dione and ergosta-4,6,8(14),22-tetraen-3-one were identified and then chemically synthesized. These compounds significantly improved the lignin-degrading activity of the fungus. This is the first report on the ligninolytic-inducing compounds produced by white-rot fungi.

| S-EPMC10532932 | biostudies-literature

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data