Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

ABSTRACT: Evaluation the influences of different sampling strategies and DNA extracting methods on eDNA metabarcoding: A case study of fish diversity monitoring in an estuarine ecosystem

PROVIDER: PRJNA736834 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR14791334.fastq.gz	Fastqsanger.gz
	SRR14791335.fastq.gz	Fastqsanger.gz
	SRR14791336.fastq.gz	Fastqsanger.gz
	SRR14791337.fastq.gz	Fastqsanger.gz
	SRR14791338.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 27

Similar Datasets

Towards functional profiling for eDNA based monitoring in coastal environments: a comparison of three approaches

Project description:Monitoring microbial communities can aid in understanding the state of these habitats. Environmental DNA (eDNA) techniques provide efficient and comprehensive monitoring by capturing broader diversity. Besides structural profiling, eDNA methods allow the study of functional profiles, encompassing the genes within the microbial community. In this study, three methodologies were compared for functional profiling of microbial communities in estuarine and coastal sites in the Bay of Biscay. The methodologies included inference from 16S metabarcoding data using Tax4Fun, GeoChip microarrays, and shotgun metagenomics.

2024-04-14 | E-MTAB-13075 | biostudies-arrayexpress

Padarn eDNA: annual time series with eDNA metabarcoding.

Project description:Biodiversity monitoring of a lake ecosystem through eDNA metabarcoding

| PRJEB13009 | ENA

Proteomic analysis of livers from the European flounder Platichthys flesus from several french estuaries.

Project description:Proteomics of Platichthys flesus livers after sampling different estuarine sites to describe key proteins in response to environmental stresses.

2024-11-06 | PXD045611 | Pride

fish metagenome

Project description:Broad fish monitoring using eDNA metabarcoding in Japanese large lakes evaluating by sampling methods, limnological and species traits with comparing historical record

| PRJDB9488 | ENA

sediment metagenome

Project description:Sundarbans estuarine ecosystem Metagenome

| PRJNA317950 | ENA

Project description:Aye-aye mitogenome eDNA sampling

| PRJNA434884 | ENA

Phylogenetic patterns in the microbial response to resource availability: amino acid incorporation in San Francisco Bay

Project description:Aquatic microorganisms are typically identified as either oligotrophic or copiotrophic, representing trophic strategies adapted to low or high nutrient concentrations, respectively. Here, we sought to take steps towards identifying these and additional adaptations to nutrient availability with a quantitative analysis of microbial resource use in mixed communities. We incubated an estuarine microbial community with stable isotope labeled amino acids (AAs) at concentrations spanning three orders of magnitude, followed by taxon-specific quantitation of isotopic incorporation using NanoSIMS analysis of high-density microarrays. The resulting data revealed that trophic response to AA availability falls along a continuum between copiotrophy and oligotrophy, and high and low activity. To illustrate strategies along this continuum more simply, we statistically categorized microbial taxa among three trophic types, based on their incorporation responses to increasing resource concentration. The data indicated that taxa with copiotrophic-like resource use were not necessarily the most active, and taxa with oligotrophic-like resource use were not always the least active. Two of the trophic strategies were not randomly distributed throughout a 16S rDNA phylogeny, suggesting they are under selective pressure in this ecosystem and that a link exists between evolutionary relatedness and substrate affinity. The diversity of strategies to adapt to differences in resource availability highlights the need to expand our understanding of microbial interactions with organic matter in order to better predict microbial responses to a changing environment. manuscript accepted by PLoS ONE 4 datasets: 1) fluorescence data for 3 treatments combined, 2) isotopic data for treatment = LOW, 3) isotopic data for treatment = MEDIUM, 4) isotopic data for treatment = HIGH

2014-03-26 | E-GEOD-56119 | biostudies-arrayexpress

Project description:eDNA in artificial reef ecosystem

| PRJNA1215008 | ENA

Project description:Comparison of Faecal Sampling Methods

| PRJNA648177 | ENA

Project description:Study of iDNA and eDNA methods in the monitoring of vertebrate diversity in subtropical forests

| PRJNA1119376 | ENA