Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Metagenomics of Hot Lake sediments

ABSTRACT: Analysis of surface sediments from two sites within the shallow-sea hydrothermal vent Hot Lake (Panarea, Italy)

PROVIDER: PRJEB4753 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	ERR355885.fastq.gz	Fastqsanger.gz
	ERR355886.fastq.gz	Fastqsanger.gz
	ERR355887.fastq.gz	Fastqsanger.gz
	ERR355888.fastq.gz	Fastqsanger.gz
	ERR355889.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 6

Similar Datasets

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

Biological effects of marine contaminated sediments on Sparus aurata juveniles

Project description:Chemical analysis of the compounds present in sediment, although informative, often is not indicative of the downstream biological effects that these contaminants exert on resident aquatic organisms. More direct molecular methods are needed to determine if marine life is affected by exposure to sediments. In this study, we used an aquatic multispecies microarray and q-PCR to investigate the effects on gene expression in juvenile sea bream (Sparus aurata) of two contaminated sediments defined as sediment 1 and 2 respectively, from marine areas in Northern Italy.

2011-01-01 | E-TABM-1146 | biostudies-arrayexpress

Sulfur-rich sediments collected from shallow-water hydrothermal vent of Kueishan Island (Taiwan)

Project description:Sulfur-rich sediments collected from shallow-water hydrothermal vent of Kueishan Island (Taiwan) Assembly

| PRJNA853916 | ENA

Sulfur-rich sediments collected from shallow-water hydrothermal vent of Kueishan Island (Taiwan)

Project description:Sulfur-rich sediments collected from shallow-water hydrothermal vent of Kueishan Island (Taiwan) Assembly

| PRJNA855887 | ENA

Metaproteome analysis of hydrothermal vent chimney biofilms

Project description:At hydrothermal vent sites, chimneys consisting of sulfides, sulfates, and oxides are formed upon contact of reduced hydrothermal fluids with oxygenated seawater. The walls and surfaces of these chimneys are an important habitat for vent-associated microorganisms. We used community proteogenomics to investigate and compare the composition and in situ protein expression of microbial communities colonizing two actively venting hydrothermal chimneys from the Manus Basin back-arc spreading center (Papua New Guinea).

2018-04-27 | PXD009105 | Pride

Genomics insights into high pressure adaptation in a Thermococcus sp. from the world’s deepest hydrothermal vents

Project description:The present study describes the isolation of a Thermococcus sp. strain 175 from the world‘s deepest hydrothermal vent sites known thus far – The Mid-Cayman Rise.consisting of two hydrothermal venting systems Bee Bee (or Piccard), at 4950m depth and Von Damm (or Walsh) at 2300m The strain is capable of growth over 0.1MPa (atm. Pressure) to 120MPa, the widest known range of pressure dependent growth. The study further explores piezophilic adaptation using comparative genomic tools. Insights into the transcriptome of this strain providers the first look into the transcriptional machinery of peizophilic Thermococci.

2017-08-22 | GSE70228 | GEO

Sulfur-rich sediments collected from shallow-water hydrothermal vent of Kueishan Island (Taiwan)

Project description:Sulfur-rich sediments collected from shallow-water hydrothermal vent of Kueishan Island (Taiwan) Raw sequence reads

| PRJNA851985 | ENA

Temporal gill transcriptome of the deep-sea mussel Bathymodiolus azoricus in situ and in the laboratory

Project description:The project was designed to explore biological rhythms in the hydrothermal vent mussel Bathymodiolus azoricus. The experiment provides the first high-resolution temporal transcriptomes of an hydrothermal species, both in situ and in the laboratory. For each condition, 5 mussels were sampled every 2h 4min for 24h 48min.

2020-06-12 | E-MTAB-8451 | biostudies-arrayexpress

microbiome of methane hydrate sediments: Hydrate Ridge

Project description:Gas hydrates, also known as clathrates, are cages of ice-like water crystals encasing gas molecules such as methane (CH4). Despite the global importance of gas hydrates, their microbiomes remain mysterious. Microbial cells are physically associated with hydrates, and the taxonomy of these hydrate-associated microbiomes is distinct from non-hydrate-bearing sites. Global 16S rRNA gene surveys show that members of sub-clade JS-1 of the uncultivated bacterial candidate phylum Atribacteria are the dominant taxa in gas hydrates. The Atribacteria phylogeny is highly diverse, suggesting the potential for wide functional variation and niche specialization. Here, we examined the distribution, phylogeny, and metabolic potential of uncultivated Atribacteria in cold, salty, and high-pressure sediments beneath Hydrate Ridge, off the coast of Oregon, USA, using a combination of 16S rRNA gene amplicon, metagenomic, and metaproteomic analysis. Methods were developed to extract bacterial cellular protein from these sediments, as outlined below. Sample Description Three sediments samples were collected from beneath Hydrate Ridge, off the coast of Oregon, USA. Sediments were cored at ODP site 1244 (44°35.1784´N; 125°7.1902´W; 895 m water depth) on the eastern flank of Hydrate Ridge ~3 km northeast of the southern summit on ODP Leg 204 in 2002 and stored at -80°C at the IODP Gulf Coast Repository. E10H5 sediment is from 68.5 meters below sediment surface interface C1H2 sediment is from 2 meters below sediment surface interface. C3H4 sediment is from 21 meters below sediment surface interface.

2020-01-22 | PXD012479 | Pride

Sulfur-rich sediments collected from shallow-water hydrothermal vent of Kueishan Island (Taiwan)

Project description:Sulfur-rich sediments collected from shallow-water hydrothermal vent of Kueishan Island (Taiwan) metagenomic Raw sequence reads

| PRJNA847634 | ENA

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data