Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

ABSTRACT: Metagenome assembly of PRJNA688016 data set (Metagenomic sequences from shallow-sea hydrothermal sediments)

PROVIDER: PRJEB88918 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other
	SRR13309659_cleaned.contigs.fa.gz	Other
	SRR13309656_cleaned.contigs.fa.gz	Other
	SRR13309657_cleaned.contigs.fa.gz	Other
	SRR13309658_cleaned.contigs.fa.gz	Other

Items per page:

1 - 5 of 8

Similar Datasets

Project description:Metagenomic sequences from shallow-sea hydrothermal sediments

| PRJNA688016 | ENA

Proteomics of Candidatus Thiodiazotropha endoloripes, the chemosynthetic symbiont of the lucinid clam Loripes lucinalis from the Bay of Fetovaia

Project description:The Lucinidae is a large family of marine bivalves. They occur in diverse habitats from shallow-water seagrass sediments to deep-sea hydrothermal vents. All members of this family so far investigated host intracellular sulfur-oxidizing symbionts that belong to the Gammaproteobacteria. We recently discovered the capability for nitrogen fixation in draft genomes of the symbionts of Loripes lucinalis from the Bay of Fetovaia, Elba, Italy. With proteomics, we investigated whether the genes for nitrogen fixation are expressed by the symbionts.

2016-08-19 | PXD004536 | Pride

hydrothermal vent metagenome

Project description:Shallow-sea Hydrothermal Systems Metagenome

| PRJNA178514 | ENA

Cultivation and characterization of a novel clade of deep-sea Chloroflexi: providing a glimpse of Chloroflexi involved in sulfur cycling

Project description:The deep marine subsurface is one of the largest unexplored biospheres on Earth, where members of the phylum Chloroflexi are abundant and globally distributed. However, the deep-sea Chloroflexi have remained elusive to cultivation, hampering a more thorough understanding of their metabolisms. In this work, we have successfully isolated a representative of the phylum Chloroflexi, designated strain ZRK33, from deep-sea cold seep sediments. Phylogenetic analyses based on 16S rRNA genes, genomes, RpoB and EF-tu proteins indicated that strain ZRK33 represents a novel class within the phylum Chloroflexi, designated Sulfochloroflexia. We present a detailed description of the phenotypic traits, complete genome sequence and central metabolisms of the novel strain ZRK33. Notably, sulfate and thiosulfate could significantly promote the growth of the new isolate, possibly through accelerating the hydrolysis and uptake of saccharides. Thus, this result reveals that strain ZRK33 may play a crucial part in sulfur cycling in the deep-sea environments. Moreover, the putative genes associated with assimilatory and dissimilatory sulfate reduction are broadly distributed in the genomes of 27 metagenome-assembled genomes (MAGs) from deep-sea cold seep and hydrothermal vents sediments. Together, we propose that the deep marine subsurface Chloroflexi play key roles in sulfur cycling for the first time. This may concomitantly suggest an unsuspected availability of sulfur-containing compounds to allow for the high abundance of Chloroflexi in the deep sea.

2024-05-22 | PXD023380 | Pride

hydrothermal vent metagenome

Project description:Hydrothermal Sediments Metagenomic assembly

| PRJNA298367 | ENA

microorganisms of the shallow-sea hydrothermal ecosystem- Kueishantao Islet

Project description:microorganisms of the shallow-sea hydrothermal ecosystem- Kueishantao Islet Metagenomic assembly

| PRJNA454803 | ENA

microorganisms (metatranscriptomes) of the shallow-sea hydrothermal ecosystem- Kueishantao Islet

Project description:microorganisms（metatranscriptomes） of the shallow-sea hydrothermal ecosystem- KST Islet Metagenomic assembly

| PRJNA470797 | ENA

In situ proteomic data of E. flavus 21-3 and corresponding mutants

Project description:Zero-valent sulfur (ZVS) distributes widely in the deep-sea cold seep, which is important immediate in the active sulfur cycle of cold seep. In our preview work, a novel ZVS formation pathway discovered in the deep-sea cold weep bacterium Erythrobacter flavus 21-3 was described. However, whether this pathway worked and what function roles it played in the cold seep were unknown. In this study, E. flavus 21-3 was verified to produce zero-valent sulfur in the cold seep using genes soxB and tsdA as our preview report described. Based on proteomic data, stoichiometric methods and microscopic observation, this ZVS formation pathway benefited E. flavus 21-3 in the deep-sea cold seep. Notably, 30% metagenomes contained these two genes in the shallow sediments, which present the most abundant sulfur genes and active sulfur cycle in the cold seep sediments. It suggested that this sulfur formation pathway exist across many bacteria in the cold seep. This strongly indicates that this novel pathway might be frequently used by microbes and plays an important role in the biogeochemical sulfur cycle in cold seep.

2022-07-09 | PXD029383 | Pride

hydrothermal vent metagenome

Project description:Shallow-sea Hydrothermal Vents Targeted Locus (Loci)

| PRJNA157211 | ENA

Project description:EMG produced TPA metagenomics assembly of PRJNA301767 data set (Deep-sea sediments Metagenome).

| PRJEB51546 | ENA