Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

ABSTRACT: Proteorhodopsin-containing prokaryotes in Marine Environments

PROVIDER: PRJNA354899 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR5053380.fastq.gz	Fastqsanger.gz
	SRR5053381.fastq.gz	Fastqsanger.gz
	SRR5053382.fastq.gz	Fastqsanger.gz
	SRR5053383.fastq.gz	Fastqsanger.gz
	SRR5053384.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 12

Similar Datasets

Regional heterogeneity and seasonal succession in proteorhodopsin containing marine microbial assemblages

Project description:Regional heterogeneity and seasonal succession in proteorhodopsin containing marine microbial assemblages

| PRJEB14603 | ENA

Role of thiosulfate as a source of energy in the bathypelagic North Atlantic Ocean

Project description:The available energy and carbon sources for prokaryotes in the deep ocean remain still largely enigmatic. Reduced sulfur compounds, such as thiosulfate, are a potential energy source for both auto- and heterotrophic marine prokaryotes. Shipboard experiments performed in the North Atlantic using Labrador Sea Water (~2000 m depth) amended with thiosulfate led to an enhanced prokaryotic dissolved inorganic carbon (DIC) fixation.

2021-04-30 | GSE136729 | GEO

Psychroflexus torquis 1D LC/MS

Project description:Proteorhodopsin has been an ongoing hot topic for the past decade. However the complete physiological role of this extremely widely distributed protein remains mysterious. In this study we aim to give an insight to the physiology of a proteorhodopsin-containing sea ice bacteria – Psychroflexus torquis using gel-free label-free proteomic approach for the first time. We also addressed the life strategy that used by this organism to successfully inhabit extreme sea ice environment.

2015-07-24 | PXD000673 | Pride

Marine Proteobacteria metabolise glycolate via the β-hydroxyaspartate cycle

Project description:One of the most abundant organic carbon sources in the ocean is glycolate, a compound that is commonly secreted by marine phytoplankton resulting in an estimated annual flux of one petagram of glycolate in marine environments. While it is generally accepted that glycolate is oxidized to glyoxylate by marine bacteria, the further fate of this C2 metabolite is not well understood. Here we show that ubiquitous marine Proteobacteria are able to assimilate glyoxylate via the hydroxyaspartate cycle (BHAC) that was originally proposed 56 years ago. We unravel the biochemistry of the BHAC and describe the structure of its key enzymes, including a previously unknown primary imine reductase. Overall, the BHAC allows for the direct production of oxaloacetate from glyoxylate through only four enzymatic steps, representing the most efficient glyoxylate assimilation route described to date. Analysis of marine metagenomes shows that the BHAC is globally distributed and on average 20-fold more abundant than the glycerate pathway, the only other known pathway for net glyoxylate assimilation. In a field study on a phytoplankton bloom, we show that glycolate is present in high nanomolar concentrations and taken up by prokaryotes at rates that allow a full turnover of the glycolate pool within one week. During the bloom, the BHAC is present in up to 1.5% of the bacterial community and actively transcribed, supporting its role in glycolate assimilation and suggesting a new trophic interaction between autotrophic phytoplankton and heterotrophic bacterioplankton.

2019-10-14 | PXD013274 | Pride

Bacteria

Project description:Isolation of novel species of prokaryotes from aquatic environments

| PRJDB17504 | ENA

coral metagenome

Project description:uncultured marine prokaryotes Targeted loci environmental

| PRJNA310360 | ENA

Ruegeria pomeroyi DSS-3

Project description:Degrades dimethylsulfoniopropionate in marine environments

| PRJNA281 | ENA

Survey functional genes in Arctic marine sediment communities

Project description:The objective was to identify functional genes encoded by Fungi and fungal-like organisms to assess putative ecological roles Using the GeoChip microarray, we detected fungal genes involved in the complete assimilation of nitrate and the degradation of lignin, as well as evidence for Partitiviridae (a mycovirus) that likely regulates fungal populations in the marine environment. These results demonstrate the potential for fungi to degrade terrigenously-sourced molecules, such as permafrost and compete with algae for nitrate during blooms. Ultimately, these data suggest that marine fungi could be as important in oceanic ecosystems as they are in freshwater environments.

2020-07-14 | GSE117831 | GEO

Analysis of Polysaccharide Utilization Loci from 53 sequenced North Sea Flavobacteriia suggests that major algal glycans exhibit limited structural diversity

Project description:Marine algae convert a substantial fraction of the carbon dioxide they fix into various polysaccharides. Bacteria specialized on the remineralization of these polysaccharides often feature genomic clusters, termed polysaccharide utilization loci (PULs). Such PULs are often prevalent in, but not limited to, marine Flavobacteriia. Since knowledge on extant PUL diversity is sparse, we sequenced the genomes of 53 North Sea Flavobacteriia. We obtained 400 PULs, suggesting usage of a large array of polysaccharides, including laminarin, α- and β-mannans, fucose-, xylose-, galactose-, rhamnose- and arabinose-containing substrates, pectins, and chitins. Many of the PULs were novel, some indicating substrates that have rarely been described in marine environments. PUL repertoires of isolates often differed significantly within genera, corroborating ecological niche-associated glycan partitioning. Polysaccharide uptake in Flavobacteriia is mediated by SusCD. Respective protein trees revealed clustering according to polysaccharide specificities. Analysis of SusCD expression in multiyear phytoplankton bloom-associated metaproteomes indicated changes in microbial utilization of glucan, ß-mannan and sulfated xylan, suggesting that distinct substrates are temporarily abundant.

2018-08-16 | PXD008238 | Pride

sponge metagenome

Project description:Prokaryotes associated with marine sponges Targeted Locus (Loci)

| PRJNA269111 | ENA