Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

The small RNA RyhB is a regulator of cytochrome expression in Shewanella oneidensis

ABSTRACT: Study of the roles played by Fur and RyhB in Shewanella oneidensis

ORGANISM(S): Shewanella oneidensis

PROVIDER: GSE104952 | GEO | 2018/01/01

SECONDARY ACCESSION(S): PRJNA414224

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

The small RNA RyhB is a regulator of cytochrome expression in Shewanella oneidensis

Project description:The small RNA RyhB is a regulator of cytochrome expression in Shewanella oneidensis

| PRJNA414224 | ENA

Transcriptional targets of Shewanella oneidensis HnoC (SO_2540)

2013-11-01 | GSE44689 | GEO

Transcriptional targets of Shewanella oneidensis HnoC (SO_2540)

Project description:To identify the transcriptional targets of the DNA-binding response regulator HnoC (SO_2540), mRNA transcript levels in Shewanella oneidensis were measured using whole genome microarray analysis. Transcript levels were compared between WT Shewanella oneidensis and a hnoC deletion strain. Transcript levels of a WT and hnoC deletion strain were measured after 15 hrs growth, 4 independent replicates were performed for each strain

2013-11-01 | E-GEOD-44689 | biostudies-arrayexpress

Quantitative proteome of Shewanella oneidensis MR-1

Project description:We investigated the anode-specific responses of Shewanella oneidensis MR-1, an exoelectroactive ammaproteobacterium, using for the first time iTRAQ and 2D-LC MS/MS driven membrane proteomics to compare protein abundances in S. oneidensis when generating power in MFCs, and growing in a continuous culture.

2016-12-08 | PXD004090 | Pride

Comparison of gene expression and mutant fitness in Shewanella oneidensis MR-1

Project description:Comparison of gene expression and mutant fitness in Shewanella oneidensis MR-1

2012-07-19 | GSE39462 | GEO

Shewanella oneidensis

Project description:Shewanella oneidensis transcriptome analysis

| PRJNA939980 | ENA

The Small RNA RyhB Is a Regulator of Cytochrome Expression in <i>Shewanella oneidensis</i>.

Project description:Shewanella oneidensis produces an extensive electron transfer network that results in metabolic flexibility. A large number of c-type cytochromes are expressed by S. oneidensis and these function as the fundamental electron transport chain proteins. Although several S. oneidensis cytochromes have been well-characterized, little is known about how their expression is regulated. In this study, we investigate the role of the ferric uptake regulator (Fur) and the sRNA RyhB in regulation. Our results demonstrate that loss of Fur leads to diminished growth and an apparent decrease in heme-containing proteins. Remarkably, deleting the Fur-repressed ryhB gene almost completely reverses these physiological changes, indicating that the phenotypes resulting from loss of Fur are (at least partially) dependent on RyhB. RNA sequencing identified a number of possible RyhB repressed genes. A large fraction of these encode c-type cytochromes, among them two of the most abundant periplasmic cytochromes CctA (also known as STC) and ScyA. We show that RyhB destabilizes the mRNA of four of its target genes, cctA, scyA, omp35, and nrfA and this requires the presence of the RNA chaperone Hfq. Iron limitation decreases the expression of the RyhB target genes cctA and scyA and this regulation relies on the presence of both Fur and RyhB. Overall, this study suggests that controlling cytochrome expression is of importance to maintain iron homeostasis and that sRNAs molecules are important players in the regulation of fundamental processes in S. oneidensis MR-1.

| S-EPMC5826389 | biostudies-literature

Elevated intracellular cyclic-di-GMP level in Shewanella oneidensis increases expression of c-type cytochromes

Project description:Transcriptomic analysis used to understand the influence of elevated intracellular cyclic-di-GMP in Shewanella oneidensis on expression of c-type cytochrome at transcript level.

2021-01-26 | GSE138586 | GEO

Shewanella oneidensis MR-1

Project description:Shewanella oneidensis Transcriptome

| PRJNA668666 | ENA

dRNA-seq of Shewanella oneidensis MR-1

Project description:We combined high-resolution tiling microarrays and 5'-end RNA sequencing to obtain a genome-wide map of transcription start sites (TSSs) for Shewanella oneidensis MR-1. To test the reliability of these TSSs, we compared our result to those from differential RNA sequencing (dRNA-seq), which discriminates primary and processed ends of transcripts. We found that our identified TSSs tend to have significantly more mapped reads in the TEX(+) sample than the TEX(-) sample. Overall, the dRNA-seq results support the validity of our predictions for TSS.

2014-06-12 | GSE58292 | 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