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ABSTRACT: Transcriptomic analysis of brown film formation in Lentinula edodes under sawdust fermentation

PROVIDER: PRJNA705065 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR13788806_1.fastq.gz	Fastqsanger.gz
	SRR13788806_2.fastq.gz	Fastqsanger.gz
	SRR13788807_1.fastq.gz	Fastqsanger.gz
	SRR13788807_2.fastq.gz	Fastqsanger.gz
	SRR13788808_1.fastq.gz	Fastqsanger.gz

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Spore formation of Lentinula edodes (LongSAGE)

Project description:Gene expression profiles before and after spore formation of Lentinula edodes (L54) grown at sawdust.

2010-11-24 | GSE25463 | GEO

Spore formation of Lentinula edodes

Project description:Gene expression profiles before and after spore formation of Lentinula edodes (L54)grown at sawdust. Keywords: time-course

2006-02-09 | GSE4202 | GEO

Comparative phosphoproteome analysis to identify candidate phosphoproteins involved in blue light-induced brown film formation in Lentinula edodes

Project description:Light plays an important role in the growth and differentiation of Lentinula edodes mycelia, and mycelial morphology is influenced by light wavelengths. The blue light-induced formation of brown film on the vegetative mycelial tissues of L. edodes is an important process. However, the mechanisms of L. edodes’ brown film formation, as induced by blue light, are still unclear. Using a high-resolution liquid chromatography-tandem mass spectrometry integrated with a highly sensitive immune-affinity antibody method, phosphoproteomes of L. edodes mycelia under red- and blue-light conditions were analyzed. A total of 11,224 phosphorylation sites were identified on 2,786 proteins, of which 9,243 sites on 2,579 proteins contained quantitative information. In total, 475 sites were up-regulated and 349 sites were down-regulated in the blue vs red group. To characterize the differentially phosphorylated proteins, systematic bioinformatics analyses, including gene ontology annotations, domain annotations, subcellular localizations, and Kyoto Encyclopedia of Genes and Genomes pathway annotations, were performed. These differentially phosphorylated proteins were correlated with light signal transduction, cell wall degradation, and melanogenesis, suggesting that these processes are involved in the formation of the brown film. Our study provides new insights into the molecular mechanisms of the blue light-induced brown film formation at the post-translational modification level.

2020-10-15 | PXD016536 | Pride

Spore formation of Lentinula edodes

Project description:Gene expression profiles before and after spore formation of Lentinula edodes (L54)grown at sawdust. Keywords: time-course SAGE were used to generate tags from RNA of fruit bodies of L. edodes. RNA were extracted from the fruit bodies before and after spore observed. Gene expression profiles of both stages were compared to screen out genes may relate to spore formation.

2006-02-08 | E-GEOD-4202 | biostudies-arrayexpress

Spore formation of Lentinula edodes (LongSAGE)

Project description:Gene expression profiles before and after spore formation of Lentinula edodes (L54) grown at sawdust. SAGE were used to generate tags from RNA of fruit bodies of L. edodes. RNA were extracted from the fruit bodies before and after spore observed. Gene expression profiles of both stages were compared to screen out genes may relate to spore formation. To facilitate comparison of LongSAGE and SAGE data in GEO, LongSAGE tags (15bp) were trimmed to become 10bp and uploaded in previous submission (GSM87320, GSM87321). The current submission are actual LongSAGE experimental data without any extrapolation from SAGE data.

2010-11-24 | E-GEOD-25463 | biostudies-arrayexpress

Development stages of Lentinula edodes

Project description:Gene expression profiles at different development stages and different growth medium of Lentinula edodes (L54) are comparied. Keywords: time-course

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metagenome

Project description:Bacterial community on brown film formed by Lentinula edodes

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Potential role of lysine acetylation in brown film formation and post-ripening of Lentinula edodes mycelium

Project description:Lentinula edodes is one of the most widely cultivated edible mushrooms in the world. When cultivated in sawdust, the surface mycelium of L. edodes needs a long post-ripening stage wherein it forms a brown film (BF) by secreting and accumulating pigments. BF formation is critical for the high quality and yield of fruiting bodies. Protein lysine acetylation (KAC) is an important post-translational modification that regulates growth and development. Previous studies have shown that deacetylase levels are significantly increased during BF formation in the post-ripening stage of L. edodes. The aim of this study was to assess the role of protein acetylation during BF formation. To this end, we compared the proteomes and acetylomes of L. edodes mycelia before and after BF formation using label-free quantitative proteomics, acetylation enrichment techniques and high-resolution liquid chromatography-mass spectrometry-based quantitative proteomics. We identified 5613 acetylation sites in 1991 proteins, and quantitative information was available for 4848 of these sites in 1815 proteins. Comparative acetylome analysis showed that the modification of 699 sites increased and that of 562 sites decreased during BF formation. Bioinformatics analysis of the differentially acetylated proteins showed significant enrichment in the tricarboxylic acid (TCA) cycle and proteasome pathways. Furthermore, functional assays showed that BF formation is associated with significant changes in the activities of proteasome, citrate synthase and isocitrate dehydrogenase, indicating that the acetylation of proteasomal and TCA cycle proteins are critical for BF formation and post-ripening. Consistent with this hypothesis, the lysine deacetylase inhibitor trichostatin (TSA) delayed autophagy and BF formation in L. edodes. Taken together, KAC and autophagy play important roles in the mycelial BF formation and post-ripening stage of L. edodes.

2023-06-08 | PXD042811 |

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Project description:Gene expression profiles at different development stages and different growth medium of Lentinula edodes (L54) are comparied. Keywords: time-course

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Lentinula edodes

Project description:Spore formation of Lentinula edodes

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