Ontology highlight
ABSTRACT:
PROVIDER: PRJNA1243027 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR32903100.fastq.gz | Fastqsanger.gz | |||
| SRR32903101.fastq.gz | Fastqsanger.gz | |||
| SRR32903102.fastq.gz | Fastqsanger.gz | |||
| SRR32903103.fastq.gz | Fastqsanger.gz | |||
| SRR32903104.fastq.gz | Fastqsanger.gz |
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Project description:Aspergillus were believed the dominant fungi in Post-fermentation Pu-erh tea (Pu-erh Shucha, PFPT), a well-known traditional Chinese tea with multiple healthful benefits. However, the functions of Aspergillus in PFPT fermentation lack deeply investigated. In this work, A. niger, A. tamarii and A. fumigatus were fermented on sun-dried green tea leaves, and these samples (marked as Asn, Ast and Asf) were analyzed by integration of proteomics and metabolomics methods. We identified 2035, 2210 and 1095 Unique proteins in Asn, Asf and Ast, and assigned majority of identified proteins to cellular process and metabolic process in GeneOntology (GO) analysis. Majority KEGG pathways enriched significantly belonged to Metabolism. Through dbCAN annotation, 232, 205 and 226 proteins were annotated to 103, 86 and 97 families or subfamilies of Carbohydrate-active enzymes (CAZymes) in Asn, Asf and Ast, respectively. CAZymes involved in degradation of cellulose, starch, lignin, pectin, xylan and xyloglucan were identified, such as endoglucanases, glucosidase, cellulase. We further identified enzymes hypothesized to hydrolysis, oxidization, polymerization, conversion, biosynthesis and degradation of polyphenols or benzenoids. Together, we found that Aspergillus. spp produced enzymes in tea leaves, which involved in the degradation of plant polysaccharides and metabolism of tea polyphenols.
2019-10-13 | PXD015798 |
Project description:Transcriptomics signatures of Aspergillus niger were used to predict regulator proteins mediating the survival responses against these stressors and the phenotypes of selected null mutant strains were studied. This integrated approach allowed us to reconstruct a model for the cell wall salvage gene network of A. niger that ensures survival of the fungus upon cell surface stress. The model predicts that (i) caspofungin and aureobasidin A induce the cell wall integrity pathway as main compensatory response including RhoB, RhoD, MkkA and RlmA as regulator proteins. (ii) RlmA is the main transcription factor required for the protection against calcofluor white but cooperates with MsnA and CrzA to ensure survival of A. niger when challenged with caspofungin or aureobasidin A. All three transcription factors are important for these compensatory responses and involve induction of glucan and chitin synthesising genes amongst others. (iii) Membrane stress provoked by aureobasidin A via disturbance of sphingolipid synthesis induces cell wall stress in A. niger, but membrane stress provoked by fenpropimorph via disturbance of ergosterol synthesis does not. The present work uncovered different defence strategies of A. niger to protect itself against cell wall stress conditions. At least three transcription factors - RlmA, MsnA and CrzA – are employed in a well-balanced manner. The data also predicts a fourth transfactor, SrbA, which seems to be specifically important during fenpropimorph-induced cell membrane stress. Future studies will disclose how these regulators are interlocked in different signalling pathways to secure survival of A. niger under different cell wall stress conditions.
2014-12-31 | GSE56471 | GEO
Project description:Comparative genomics and transcriptomics of the filamentous fungi Aspergillus oryzae and Aspergillus niger have opened possibilities for investigating the cellular metabolism and regulation of these fungi on a systemic level. The aim of this work was to understand how metabolism is regulated and to identify common regulatory responses between A. oryzae and A. niger. We therefore conducted batch fermentations with A. oryzae and A. niger grown on three different carbon sources (glucose, maltose, and xylose) in order to investigate their genome-wide transcription response Keywords: Two Aspergillus species and different carbon sources
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Project description:Microbial fermentation is involved in the processing of a dark tea popular for centuries in Northwest China which has shown many health benefits. This study will examine anti-obesity, hyperlipidemic and hyperglycemic effects of CGMCC No.8730 Eurotium cristatum (EC) fermented dark tea (8730DT).
2019-07-14 | GSE84496 | GEO
Project description:Pu-erh tea has attracted increasing attention worldwide because of its special flavor and health effects, but its impact on composition and function of the gut microbiota remains unclear. The aim of this study was to investigate effects of aqueous extracts of fermented (ripe) and non-fermented (raw) Pu-erh teas on the composition and function of intestinal microbiota of rats with diet-induced obesity. We conducted a comparative metagenomic and metaproteomic investigation of the microbial communities in cecal samples taken from obese rats administrated with or without extracts of raw and ripe Pu-erh tea. By analyzing the composition and diversity of 16S rRNA amplicons and expression profiles of 814 distinct proteins, we found that, despite differences in the chemical compositions of the raw and ripe Pu-erh tea, administration of either at two different doses (0.15 and 0.40 g/Kg body weight), significantly (P<0.05) increased community diversity, and changed the composition of the cecal microbiota by increasing the relative abundances of Firmicutes and decreasing those of Bacteroidetes. Community metabolic processes including sucrose metabolism, glycolysis, syntheses of proteins, rRNA and antibiotics were significantly (P<0.05), or had a tendency (0.10<P<0.05) to be, promoted by enriching relevant enzymes. Furthermore, evidences from population, molecular and metabolic levels have shown that polyphenols of raw Pu-erh tea and their metabolites can promote potentially the growth of Akkermansia municiphila by stimulating the type II and III secretion system protein, elongation factor Tu, and glyceraldehyde-3-phosphate dehydrogenase. This study has provided new evidences for the prebiotic effects of Pu-erh tea.
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Project description:This SuperSeries is composed of the following subset Series: GSE37758: Aspergillus niger : Control (fructose) vs. steam-exploded sugarcane induction (SEB) GSE37760: Aspergillus niger : Control (fructose) vs. xylose + arabinose (XA) Refer to individual Series
2012-05-06 | E-GEOD-37795 | biostudies-arrayexpress
Project description:Comparative genomics and transcriptomics of the filamentous fungi Aspergillus oryzae and Aspergillus niger have opened possibilities for investigating the cellular metabolism and regulation of these fungi on a systemic level. The aim of this work was to understand how metabolism is regulated and to identify common regulatory responses between A. oryzae and A. niger. We therefore conducted batch fermentations with A. oryzae and A. niger grown on three different carbon sources (glucose, maltose, and xylose) in order to investigate their genome-wide transcription response Keywords: Two Aspergillus species and different carbon sources Three conditions (glucose, maltose and xylose) with three biological replicates for A. oryzae and A. niger
2009-10-21 | E-GEOD-13868 | biostudies-arrayexpress
Project description:Expression data from batch cultivations of Aspergillus niger wild type strain ATCC 1015 and adrA, facB and creA deletion mutants constructed on ATCC 1015 background strain with glucose or glycerol as carbon sources. Genome-wide transcriptome analysis was used to identify genes either affected directly or indirectly by each transcription factor investigated during growth on a repressing or a derepressing carbon source. For this purpose, batch cultivations under well-controlled conditions were performed with Aspergillus niger wild type strain ATCC 1015 and the three deletion mutants of the corresponding transcription factors AdrA, FacB and CreA. Samples for RNA extraction were collected and further processed for hybridization in custom-designed Affymetrix microarrays containing probes for three Aspergillus species, including A. niger.
2011-01-31 | GSE19952 | GEO
Project description:Expression data from batch cultivations of Aspergillus niger wild type strain ATCC 1015 and adrA, facB and creA deletion mutants constructed on ATCC 1015 background strain with glucose or glycerol as carbon sources. Genome-wide transcriptome analysis was used to identify genes either affected directly or indirectly by each transcription factor investigated during growth on a repressing or a derepressing carbon source. For this purpose, batch cultivations under well-controlled conditions were performed with Aspergillus niger wild type strain ATCC 1015 and the three deletion mutants of the corresponding transcription factors AdrA, FacB and CreA. Samples for RNA extraction were collected and further processed for hybridization in custom-designed Affymetrix microarrays containing probes for three Aspergillus species, including A. niger. Triplicate batch fermentations of each of the four Aspergillus niger strains used, the wild type A. niger strain ATCC 1015 and three gene deletion mutants, were carried out using glucose or glycerol as carbon source, and transcriptome analysis was performed. Biomass from each batch cultivation was harvested in the exponential phase of growth and further processed for RNA extraction and hybridization on Affymetrix microarrays.
2011-01-31 | E-GEOD-19952 | biostudies-arrayexpress