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Metagenome

ABSTRACT: Bacterial community on brown film formed by Lentinula edodes

PROVIDER: PRJDB16842 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	DRR508755_1.fastq.gz	Fastqsanger.gz
	DRR508755_2.fastq.gz	Fastqsanger.gz
	DRR508756_1.fastq.gz	Fastqsanger.gz
	DRR508756_2.fastq.gz	Fastqsanger.gz
	DRR508757_1.fastq.gz	Fastqsanger.gz

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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 (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

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

2005-01-20 | GSE2167 | GEO

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

2005-01-19 | E-GEOD-2167 | biostudies-arrayexpress

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

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

| PRJNA705065 | ENA

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

Analyses of the brown stain on the Parthenon Centaur head

Project description:Marbles of Greek origin have been reported to form a brown stain layer, also known as patina or film. Early investigations discovered that this layer is formed by the two calcium oxalate minerals whewellite and weddellite. The origin of this oxalate film is, however, not clear, while one of the hypotheses is that it is a result of bacteria, fungi, or lichen growing on the surface of the marble. The present study characterizes the brown stain from one of the Parthenon marbles in Danish custody using LC-MS-based proteomics aiming to shed light on the possible biological origin of the staining layer. The marbles curated in Copenhagen are particularly interesting because the pieces have been kept indoors since before the onset of the industrial revolution, therefore they have experienced air pollution to a much lesser degree than the marbles still residing at the Acropolis.

2024-01-17 | PXD043505 | Pride

Project description:Lentinula edodes WGRS

| PRJNA668876 | ENA