Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Metagenomic and metatranscriptomic data from a growth chamber mesocosm

ABSTRACT: Metagenomic and metatranscriptomic data from a growth chamber mesocosm

PROVIDER: PRJNA930014 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR24036800_1.fastq.gz	Fastqsanger.gz
	SRR24036800_2.fastq.gz	Fastqsanger.gz
	SRR24036801_1.fastq.gz	Fastqsanger.gz
	SRR24036801_2.fastq.gz	Fastqsanger.gz
	SRR24036802_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 192

Similar Datasets

Metatranscriptomes of phytoplankton blooms from an ocean acidification mesocosm experiment

Project description:Sequencing the metatranscriptome can provide information about the response of organisms to varying environmental conditions. We present a methodology for obtaining random whole-community mRNA from a complex microbial assemblage using Pyrosequencing. The metatranscriptome had, with minimum contamination by ribosomal RNA, significant coverage of abundant transcripts, and included significantly more potentially novel proteins than in the metagenome. Keywords: metatranscriptome, mesocosm, ocean acidification This experiment is part of a much larger experiment. We have produced 4 454 metatranscriptomic datasets and 6 454 metagenomic datasets. These were derived from 4 samples. The experiment is an ocean acidification mesocosm set up in a Norwegian Fjord in 2006. We suspended 6 bags containing 11,000 L of sea water in a Coastal Fjord and then we bubbled CO2 through three of these bags to simulate ocean acidification conditions in the year 2100. The other three bags were bubbled with air. We then induced a phytoplankton bloom in all six bags and took measurements and performed analyses of phytoplankton, bacterioplankton and physiochemical characteristics over a 22 day period. We took water samples from the peak of the phytoplankton bloom and following the decline of the phytoplankton bloom to analyses using 454 metagenomics and 454 metatranscriptomics. Day 1, High CO2 Bag and Day 1, Present Day Bag, refer to the metatranscriptomes from the peak of the bloom. Day 2, High CO2 Bag and Day 2, Present Day Bag, refer to the metatranscriptomes following the decline of the bloom. Obviously High CO2 refers to the ocean acidification mesocosm and Present Day refers to the control mesocosm. Raw data for both the metagenomic and metatranscriptomic components are available at NCBI's Short Read Archive at ftp://ftp.ncbi.nlm.nih.gov/sra/Studies/SRP000/SRP000101

2008-02-08 | E-GEOD-10119 | biostudies-arrayexpress

Carnoulès Metagenome 8 Metagenomic/Metatranscriptomic Assembly

Project description:Assembly of CARN8, a metagenome from Carnoulès acid mine drainage metagenomic and metatranscriptomic data.

| PRJEB28721 | ENA

Metagenomic/Metatranscriptomic Sequencing of Pulmonary Fluid in Immunocompromised Children

Project description:Metagenomic/Metatranscriptomic Sequencing of Pulmonary Fluid in Immunocompromised Children

| PRJNA489750 | ENA

Metagenomic/Metatranscriptomic Sequencing of Pulmonary Fluid in Immunocompromised Children

Project description:Metagenomic/Metatranscriptomic Sequencing of Pulmonary Fluid in Immunocompromised Children

| PRJNA489751 | ENA

metagenomic and metatranscriptomic data of fecal mini-bioreactor samples

Project description:Metagenomic and metatranscriptomic data of fecal mini-bioreactor samples Raw sequence reads

| PRJNA949391 | ENA

Southern ocean mesocosm metaproteomics

Project description:Mesocosms (600 L) were deployed at the Southern Ocean Time Series (SOTS) in Austral late summer during a high nutrient, low chlorophyll period. One mesocosm represented control, present-day conditions (high nutrients/low temperature/low pCO2/low Fe/low irradiance), while the other was amended to represent a projected 2100 scenario (low nutrients/high temperature/high pCO2/high Fe/high irradiance). Approximately 2 L were filtered from the mesocosms onto 5 µm filters at Days 0, 2, 4, and 7 of the incubation.

2022-10-26 | PXD021185 | Pride

Metatranscriptomes of phytoplankton blooms from an ocean acidification mesocosm experiment

2008-02-08 | GSE10119 | GEO

soil metatranscriptomic

Project description:soil metatranscriptomic Raw sequence reads

| PRJNA1092855 | ENA

Human gut metatranscriptomic

Project description:Human gut metatranscriptomic Transcriptome

| PRJNA1018112 | ENA

Functional genomic analysis of a nitrate reductase knockdown relative to wild-type in model-ecosystems (mesocosm)

Project description:Current advances in genomics and computational biology have afforded novel insight as to how the phenotype is generated from the genotype – systems biology. We argue that systems biology, when viewed through an ecological lens, provides an unprecedented opportunity to understand how genes cascade through multiple levels of biological organization to alter ecosystem function. To test this approach, we established six monocultures of Arabidopsis thaliana ‘Columbia’- wild-type plants, six monocultures of a single gene variant (mutant) to the wild-type, and six mixtures with equal density plantings of each genotype in mesocosm chambers (50 x 50 x 45 cm). The mutant harbored a T-DNA insertion in the main nitrate reductase gene (nia2). This is the gateway enzyme for N metabolism, which resulted in activity levels that were 38% of the wild-type. Mesocosms were instrumented to monitor soil and air temperature, water and humidity status, and CO2 differentials. Transcript expression profiles were generated for each of the monoculture populations by collecting and processing 100 leaves per mesocosm at generation 2 and 4.

2011-01-01 | GSE16068 | GEO

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