Ontology highlight
ABSTRACT:
PROVIDER: PRJNA813380 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR18250962_1.fastq.gz | Fastqsanger.gz | |||
| SRR18250962_2.fastq.gz | Fastqsanger.gz | |||
| SRR18250963_1.fastq.gz | Fastqsanger.gz | |||
| SRR18250963_2.fastq.gz | Fastqsanger.gz | |||
| SRR18250964_1.fastq.gz | Fastqsanger.gz |
Items per page: 5 1 - 5 of 12 |
Similar Datasets
Project description:Polycyclic aromatic hydrocarbons (PAHs) are widely distributed pollutants. As in saturated PAH-contaminated sites oxygen is rapidly depleted, microorganisms able to use these compounds as a carbon source in the absence of molecular oxygen are crucial for their consumption. Here, we described the metabolic pathway for anaerobic degradation of phenanthrene by a sulfate-reducing enrichment culture (TRIP) obtained from a natural asphalt lake. The dominant organism of this culture belongs to the Desulfobacteraceae family of deltaproteobacteria. Proteogenome analysis revealed that the metabolic capacity of this bacterium includes the key enzymes for dissimilatory sulfate reduction, the Embden-Meyerhof-Parnas pathway, a complete tricarboxylic acid cycle as well as the key elements of the Wood-Ljungdahl pathway. Genes encoding enzymes potentially involved in the degradation of phenanthrene were identified in the genome of this bacterium. Two gene clusters were identified encoding a carboxylase enzyme involved in the activation of phenanthrene, as well as genes encoding reductases potentially involved in subsequent ring dearomatization and reduction steps. The predicted metabolic pathways were corroborated by transcriptome and proteome analyses and provide the first metabolic pathway for anaerobic degradation of three-rings PAHs.
2019-01-23 | PXD010151 | Pride
Project description:phenanthrene anaerobic biodegradation community Raw sequence reads
| PRJNA416026 | ENA
Project description:The synthetic microbial community used in this study was composed of the major functional guilds (cellulolytic fermenter, sulfate reducer, hydrogenotrophic methanogen and acetoclastic methanogen) that mediate the anaerobic conversion of cellulosic biomass to CH4 and CO2 in wetland soils. The choice of a facultative sulfate-reducing bacterium (Desulfovibrio vulgaris Hildenborough) introduced metabolic versatility and enabled investigations into the community response to sulfate intrusion. The growth status of these multi-species cultures was measured over a week by daily analysis of substrate consumption and product accumulation. The quad-cultures were analyzed with metaproteomics at the end of experiment to characterize the community structure and metabolic activities.
2023-02-17 | PXD035759 | Pride
Project description:Crude oil is the one of the most important natural assets of humankind, yet it is a major environmental pollutant, in particular, in marine environments. One of the largest crude oil polluted areas in the word is the semi-enclosed Mediterranean Sea, where the metabolic potential of indigenous populations towards the chronic pollution at a large scale is yet to be defined, particularly in anaerobic and micro-anaerobic marine sites. Here, we provided a novel insight into the active microbial metabolism in sediments from three environments along the coastline of Italy. Microbial proteomes exhibited prevalence in anaerobic metabolism, not related to the biodegradation directly, suggesting the strong limitation by oxygen induced by the carbon overload. They also point at previously unrecognized metabolic coupling between methane and methanol utilizers as well as sulfur reducers in marine petroleum polluted sediments.
2015-07-24 | PXD001490 | Pride
Project description:Identification of the peptides composing the enriched multisubunit enzymes natively purified from the microbial enrichment, based on gel bands obtained by native electrophoresis. The anaerobic oxidation of alkanes is a microbial process occurring in deep-sea hydrocarbon seeps that plays a key ecological role in these exotic niches. The metabolic capacity of anaerobic ethane oxidation, involving uncharted biochemistry, was reported in two archaeal species depending on sulfate-reducing partner bacteria. This study deciphers the molecular basis of the CO2-generating steps of ethanotrophy by characterising the native archaeal enzymes isolated from a thermophilic enrichment. While other microorganisms couple these steps to ferredoxin reduction, we found that the CO-dehydrogenase and the formylmethanofuran-dehydrogenase are bound to F420-reductase modules. The crystal structures of these multi-metalloenzyme complexes revealed electronic bridges coupling C1-oxidation to F420-reduction. Accordingly, both systems exhibit robust F420-reductase activities, which are not detected in methanogenic or methanotrophic relative organisms. We speculate that the whole catabolism of these archaea is reoriented towards F420-reduction, which facilitates the electron transfer to the sulfate-reducing partner, therefore representing the driving force of ethanotrophy.
2024-09-23 | PXD054507 | Pride
Project description:The effect of nitrate reduction (anaerobic cultivation in the presence of heme, vitamin K2 and nitrate) was compared with anaerobic cultivation supplemented with citrate (Lactobacillus plantarum). The medium was chemically defined medium with mannitol as main carbon source Two-condition experiment, nitrate vs citrate reducing cells. Biological replicates: 4 nitrate reducing cultures, 4 citrate reducing cultures, independently grown and harvested. Two slides were used, each slide contained 8 Arrays. Citrate reducing cultures are called reactor 1-4, Nitrate reducing cultures are called reactor A-D
2010-05-16 | E-GEOD-18339 | biostudies-arrayexpress
Project description:Ethane-degrading sulfate-reducing enrichment culture
| PRJNA495932 | ENA