Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

ABSTRACT: Pelagic Marine Viral Communities of the Southern Hemisphere

PROVIDER: PRJNA516152 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR8466803_1.fastq.gz	Fastqsanger.gz
	SRR8466803_2.fastq.gz	Fastqsanger.gz
	SRR8466804_1.fastq.gz	Fastqsanger.gz
	SRR8466804_2.fastq.gz	Fastqsanger.gz
	SRR8466805_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 12

Similar Datasets

Project description:HISTORICAL SOUTHERN HEMISPHERE FIN WHALES

| PRJNA962470 | ENA

A microarray for assessing transcription from pelagic marine microbial taxa

Project description:Metagenomic approaches have revealed unprecedented genetic diversity within microbial communities across vast expanses of the world’s oceans. Linking this genetic diversity with key metabolic and cellular activities of microbial assemblages is a fundamental challenge. Here we report on a collaborative effort to design MicroTOOLs (Microbiological Targets for Ocean Observing Laboratories), a high-density oligonucleotide microarray that targets functional genes of diverse taxa in pelagic and coastal marine microbial communities. MicroTOOLs integrates nucleotide sequence information from disparate data types: genomes, PCR-amplicons, metagenomes, and metatranscriptomes. It targets 19 400 unique sequences over 145 different genes that are relevant to stress responses and microbial metabolism across the three domains of life and viruses. MicroTOOLs was used in a proof-of-concept experiment that compared the functional responses of microbial communities following Fe and P enrichments of surface water samples from the North Pacific Subtropical Gyre. We detected transcription of 68% of the gene targets across major taxonomic groups, and the pattern of transcription indicated relief from Fe limitation and transition to N limitation in some taxa. Prochlorococcus (eHLI), Synechococcus (sub-cluster 5.3) and Alphaproteobacteria SAR11 clade (HIMB59) showed the strongest responses to the Fe enrichment. In addition, members of uncharacterized lineages also responded. The MicroTOOLs microarray provides a robust tool for comprehensive characterization of major functional groups of microbes in the open ocean, and the design can be easily amended for specific environments and research questions.

2013-03-07 | GSE44448 | GEO

Effects of nutrient enrichment on surface microbial community gene expression in the oligotrophic North Pacific Subtropical Gyre

Project description:Marine microbial communities are critical for biogeochemical cycles and the productivity of ocean ecosystems. Primary productivity, at the base of marine food webs, is constrained by nutrient availability in the surface ocean, and nutrient advection from deeper waters can fuel photosynthesis. In this study, we compared the transcriptional responses by surface microbial communities after experimental deep water mixing to the transcriptional patterns of in situ microbial communities collected with high-resolution automated sampling during a bloom in the North Pacific Subtropical Gyre. Transcriptional responses were assayed with the MicroTOOLs (Microbiological Targets for Ocean Observing Laboratories) marine environmental microarray, which targets all three domains of life and viruses. The experiments showed that mixing of deep and surface waters substantially affects the transcription of photosystem and nutrient response genes among photosynthetic taxa within 24 hours, and that there are specific responses associated with the addition of deep water containing particles (organisms and detritus) compared to filtered deep water. In situ gene transcription was most similar to that in surface water experiments with deep water additions, showing that in situ populations were affected by mixing of nutrients at the six sampling sites. Together, these results show the value of targeted metatranscriptomes for assessing the physiological status of complex microbial communities.

2018-09-03 | GSE109218 | GEO

marine sediment metagenome

Project description:Metagenomic analyses of the viral communities in (hado)pelagic sediments

| PRJDB2610 | ENA

marine metagenome

Project description:Pelagic marine microbial communities from North Sea - COGITO_mtgs_100330 metagenome

| PRJNA367463 | ENA

marine metagenome

Project description:Pelagic marine microbial communities from North Sea - COGITO_mtgs_100413 metagenome

| PRJNA367464 | ENA

marine metagenome

Project description:Pelagic marine microbial communities from North Sea - COGITO_mtgs_100423 metagenome

| PRJNA365001 | ENA

marine metagenome

Project description:Pelagic marine microbial communities from North Sea - COGITO_mtgs_110421 metagenome

| PRJNA365010 | ENA

marine metagenome

Project description:Pelagic marine microbial communities from North Sea - COGITO_mtgs_110426 metagenome

| PRJNA365011 | ENA

marine metagenome

Project description:Pelagic marine microbial communities from North Sea - COGITO_mtgs_110506 metagenome

| PRJNA365012 | 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