Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Freshwater metagenome

ABSTRACT: DNA/RNA Plankton and Sediment Freshwater Lakes (Archaea)

PROVIDER: PRJNA268143 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR1771430.fastq.gz	Fastqsanger.gz
	SRR1771440.fastq.gz	Fastqsanger.gz
	SRR1771431.fastq.gz	Fastqsanger.gz
	SRR1771441.fastq.gz	Fastqsanger.gz
	SRR1771432.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 16

Similar Datasets

Epigenetic adaptation of stickleback to sea and freshwater conditions: RNA-seq

Project description:Three-spined stickleback (Gasterosteus aculeatus) represents a convenient model to study microevolution - adaptation to freshwater environment. While genetic adaptations to freshwater are well-studied, epigenetic adaptations attracted little attention. In this work, we investigated the role of DNA methylation in the adaptation of marine stickleback population to freshwater conditions. DNA methylation profiling was performed in marine and freshwater populations of sticklebacks, as well as in marine sticklebacks placed into freshwater environment and freshwater sticklebacks placed into seawater. For the first time, we demonstrated that genes encoding ion channels kcnd3, cacna1fb, gja3 are differentially methylated between marine and freshwater populations. We also showed that after placing marine stickleback into fresh water, its DNA methylation profile partially converges to the one of a freshwater stickleback. This suggests that immediate epigenetic response to freshwater conditions can be maintained in freshwater population. Interestingly, we observed enhanced epigenetic plasticity in freshwater sticklebacks that may serve as a compensatory regulatory mechanism for the lack of genetic variation in the freshwater population. Some of the regions that were reported previously to be under selection in freshwater populations also show differential methylation. Thus, epigenetic changes might represent a parallel mechanism of adaptation along with genetic selection in freshwater environment. This is the RNA-seq experiment, DNA methylation data (bisulfite-seq) is provided under accession number GSE82310.

2021-11-03 | GSE186925 | GEO

Salt stress in freshwater anaerobic methane-oxidizing archaea

Project description:Maider J. Echeveste Medrano and colleagues characterized the physiological and metabolic response of freshwater methanotrophic archaea to salt stress. The study performed metaproteomics, gene expression profiles and dedicated metabolomics to identify the pathways involved in the salt stress response and the osmolyte present in anaerobic methanotrophic archaea. Correspondence to Cornelia U. Welte c.welte@science.ru.nl

2024-07-17 | PXD048239 | Pride

Transcriptional analysis of freshwater bacterium Polynucleobacter asymbioticus strain QLW-P1DMWA-1T

Project description:Polynucleobacter asymbioticus strain QLW-P1DMWA-1T represents a group of highly successful heterotrophic planktonic bacteria, dwelling in freshwater systems (lakes, ponds, and streams) across all climatic zones and across all continents. This includes habitats characterised by strongly fluctuating environmental conditions. So the experiments were designed to mimick winter and summer scenarios with additional impact of UV irradiation. Comparative transcriptomic studies were conducted to analyse gene-expression levels in contrasting experimental conditions. Overall, molecular candidates were revealed that may contribute in rapid acclimatisation of this strain in their immediate environment.

2017-10-31 | GSE98129 | GEO

freshwater metagenome

Project description:Freshwater lakes Targeted loci environmental

| PRJNA291036 | ENA

freshwater metagenome

Project description:Yosemite freshwater lakes Targeted Locus (Loci)

| PRJNA264571 | ENA