Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Biofilm metagenome

ABSTRACT: Next-generation sequencing of 18S rRNA genes in marine biofilm from a colour experiment

PROVIDER: PRJNA798461 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR17666281_1.fastq.gz	Fastqsanger.gz
	SRR17666281_2.fastq.gz	Fastqsanger.gz
	SRR17666282_1.fastq.gz	Fastqsanger.gz
	SRR17666282_2.fastq.gz	Fastqsanger.gz
	SRR17666283_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 30

Similar Datasets

biofilm meta genome

Project description:Next-generation sequencing of 16S rRNA genes in marine biofilm from a colour experiment

| PRJNA798460 | ENA

Biofilm metagenome

Project description:Next generation sequencing of 18S rRNA genes in marine biofilm from Bioshelter tiles

| PRJNA802872 | ENA

Biofilm metagenome

Project description:Next generation sequencing of 18S rRNA genes in marine biofilm from Living Seawalls panels

| PRJNA798090 | ENA

Biofilm metagenome

Project description:Next generation sequencing of 16S rRNA genes in marine biofilm from Bioshelter tiles

| PRJNA802870 | ENA

Biofilm meta genome

Project description:Next generation sequencing of 16S rRNA genes in marine biofilm from Living Seawalls panels

| PRJNA798089 | ENA

Marine biofilm

Project description:Marine biofilm 18S amplicon Raw sequence reads

| PRJNA998917 | ENA

sediment metagenome

Project description:Next-generation sequencing of 18S rRNA genes in Torres Strait marine sediments

| PRJNA636614 | ENA

sediment metagenome

Project description:Next-generation sequencing of 18S rRNA genes in marine sediments around remnant oyster reefs

| PRJNA636639 | ENA

sediment metagenome

Project description:Next-generation sequencing of 18S rRNA genes in marine sediments from the Terrigal coast

| PRJNA681696 | ENA

The kinase Rio1 and a ribosome collision-dependent decay pathway survey the integrity of 18S rRNA cleavage

Project description:The 18S rRNA sequence is highly conserved, particularly at its 3’-end, which is formed by the endonuclease Nob1. How Nob1 identifies its target sequence is not known, and in vitro experiments have shown Nob1 to be error-prone. Moreover, the sequence around the 3’-end is degenerate with similar sites nearby. Here we used yeast genetics, biochemistry, and next generation sequencing to investigate a role for the ATPase Rio1 in monitoring the accuracy of the 18S rRNA 3’-end. We demonstrate that Nob1 can miscleave its rRNA substrate and that miscleaved rRNA accumulates upon bypassing the Rio1-mediated quality control step, but not in healthy cells with intact quality control mechanisms. Mechanistically, we show that Rio1 binding to miscleaved rRNA is weaker than its binding to accurately processed 18S rRNA. Accordingly, excess Rio1 results in accumulation of miscleaved rRNA. Ribosomes containing miscleaved rRNA can translate, albeit more slowly, thereby inviting collisions with trailing ribosomes. These collisions result in degradation of the defective ribosomes utilizing parts of the machinery for mRNA quality control. Altogether, the data support a model in which Rio1 inspects the 3’-end of the nascent 18S rRNA to prevent miscleaved 18S rRNA-containing ribosomes from erroneously engaging in translation, where they induce ribosome collisions. The data also demonstrate how ribosome collisions purify cells of altered ribosomes with different functionalities, with important implications for the concept of ribosome heterogeneity.

2024-03-03 | GSE259239 | 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