Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Eco-AlpsWater 18S rRNA sequences

ABSTRACT: Eco-AlpsWater project: 18S rRNA sequences determined in samples collected in 59 Alpine lakes and rivers

PROVIDER: PRJEB49184 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	ERR7499720_1.fastq.gz	Fastqsanger.gz
	ERR7499720_2.fastq.gz	Fastqsanger.gz
	ERR7499730_1.fastq.gz	Fastqsanger.gz
	ERR7499730_2.fastq.gz	Fastqsanger.gz
	ERR7499740_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 656

Similar Datasets

Eco-AlpsWater 16S rRNA sequences

Project description:Eco-AlpsWater project: 16S rRNA sequences determined in samples collected in 59 Alpine lakes and rivers

| PRJEB49047 | ENA

Eco-AlpsWater 12S rRNA sequences: an intercalibration exercise

Project description:Eco-AlpsWater project: 12S rRNA sequences determined in mock and environmental samples

| PRJEB49223 | ENA

AmpC-Eco

Project description:AmpC-Eco

| PRJEB61431 | ENA

18S sequences of Phaeophyceae hosts

Project description:18S clone sequences from Phaeophyceae

| PRJEB61543 | ENA

Arabidopsis HOT3/eIF5B1 constrains rRNA RNAi by facilitating 18S rRNA maturation during translation initiation (18S END-Seq)

Project description:Ribosome biogenesis is essential for protein synthesis in gene expression. Yeast eIF5B has been shown biochemically to facilitate 18S rRNA 3’ end maturation during late-40S ribosomal subunit assembly and gate the transition from translation initiation to elongation. But the effects of eIF5B have not been studied at the genome-wide level in any organism, and 18S rRNA 3’ end maturation is poorly understood in plants. Arabidopsis HOT3/eIF5B1 was found to promote development and heat-stress acclimation by translational regulation, but its molecular function remained unknown. Here, we show that HOT3 is a late-stage ribosome biogenesis factor that facilitates 18S rRNA 3’ end processing and is a translation initiation factor that globally impacts the transition from initiation to elongation. By developing and implementing 18S-ENDseq, we revealed previously unknown events in 18S rRNA 3’ end maturation or metabolism. We quantitatively defined new processing hotspots and identified adenylation as the prevalent non-templated RNA modification at the 3’ ends of pre-18S rRNAs. Aberrant 18S rRNA maturation in hot3 further activated RNAi to generate RDR1- and DCL2/4-dependent risiRNAs mainly from a 3’ portion of 18S rRNA. We further showed that risiRNAs in hot3 were predominantly localized in ribosome-free fractions not responsible for the 18S rRNA maturation or translation initiation defects in hot3. Our study uncovered the molecular function of HOT3/eIF5B1 in 18S rRNA maturation at the late-40S assembly stage and revealed the regulatory crosstalk among ribosome biogenesis, mRNA translation initiation, and siRNA biogenesis in plants.

2023-04-19 | GSE223167 | GEO

Eco-AlpsWater cytochrome c oxidase subunit I gene (COI) sequences

Project description:Eco-AlpsWater project: cytochrome c oxidase subunit I gene (COI) sequences determined in samples collected in Lake Garda and Lake Albano (Italy)

| PRJEB70388 | ENA

Microbe's microbiomes: 18S rRNA gene sequences.

Project description:Microbe's microbiomes: 18S rRNA gene sequences.

| PRJEB25892 | ENA

18S

Project description:18S metagenome

| PRJNA544742 | ENA

Project description:18S rDNA Community Survey of High Elevation Alpine Lakes

| PRJNA608943 | ENA

Electrophoresis-Correlative Data-Independent Acquisition (Eco-DIA) Improves the Sensitivity of Mass Spectrometry for Limited Proteome Amounts

Project description:In this project, we developed electrophoresis-correlative (Eco) data-independent acquisition (DIA) mass spectrometry (MS). We recognized a correlation between the measured mass-to-charge (m/z) and migration time (MT) for peptides during capillary electrophoresis (CE) electrospray ionization (ESI) MS. We leveraged this relationship to dynamically tailor the experimental settings of DIA on an orbitrap mass spectrometer. This approach substantially improved utilization of the limited duty cycle during tandem MS and detection sensitivity compared to the classical DIA. From 1 ng of the standard HeLa proteome digest, Eco-DIA identified ~38% more proteins than conventional DIA, without the assistance of a project-specific spectral library. Proteins that were quantified exclusively by Eco-DIA were in the lower abundance range. Eco-DIA improved the sensitivity of detection from limited amounts of proteomes using CE-ESI-MS.

2024-09-17 | PXD051717 | Pride

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