PXD005621

PXD005621 is an original dataset announced via ProteomeXchange.

Title	An integrative, multi-omics analysis of the Hfq regulon
Description	The ability of bacteria to respond to environmental change is based on the exploration of sophisticated regulatory landscapes. While we can learn a great deal from reductive analyses of individual pathways, and global approaches to gene regulation, a deeper understanding of these complex signalling networks requires the simultaneous consideration of several regulatory layers at the genome-scale. To highlight the power of this approach we analysed the Hfq transcriptional/translational regulatory network in the plant-associated rhizobacterium Pseudomonas fluorescens. Extensive multi-omics analyses including proteomics quantification using isobaric isotope labelling (iTRAQ )were used to assess how hfq deletion affects gene transcription, translation and protein abundance. The subsequent integration of these datasets highlighted the discrete contributions by Hfq to gene regulation at different levels, confirmed previous predictions, and suggested novel regulatory principles for Hfq function. The integrative approach to regulatory analysis described here has significant potential, for both dissecting individual signalling pathways and understanding the strategies bacteria use to cope with external challenges.
HostingRepository	PRIDE
AnnounceDate	2017-10-18
AnnouncementXML	Submission_2017-10-18_00:49:39.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Gerhard Saalbach
SpeciesList	scientific name: Pseudomonas fluorescens (strain SBW25); NCBI TaxID: 216595;
ModificationList	iTRAQ4plex-116 reporter+balance reagent acylated residue; monohydroxylated residue; iodoacetamide derivatized residue
Instrument	LTQ Orbitrap

Revision	Datetime	Status	ChangeLog Entry
0	2016-12-22 02:14:48	ID requested
⏵ 1	2017-10-18 00:49:40	announced

Grenga L, Chandra G, Saalbach G, Galmozzi CV, Kramer G, Malone JG, Analyzing the Complex Regulatory Landscape of Hfq - an Integrative, Multi-Omics Approach. Front Microbiol, 8():1784(2017) [pubmed]

curator keyword: Biological

submitter keyword: Pseudomonas fluorescens, Multi-Omics, Proteomics, isobaric labelling, hfq, posttranscriptional regulation

Jacob George Malone
contact affiliation	Group Leader, John Innes Institue Norwich, UK, Dept. Molecular MIcrobiology,
contact email	jacob.malone@jic.ac.uk
lab head
Gerhard Saalbach
contact affiliation	Biological Chemistry
contact email	gerhard.saalbach@jic.ac.uk
dataset submitter

Dataset FTP location NOTE: Most web browsers have now discontinued native support for FTP access within the browser window. But you can usually install another FTP app (we recommend FileZilla) and configure your browser to launch the external application when you click on this FTP link. Or otherwise, launch an app that supports FTP (like FileZilla) and use this address: ftp://ftp.pride.ebi.ac.uk/pride/data/archive/2017/10/PXD005621

PRIDE project URI

• PRIDE
  1. PXD005621
     1. Label: PRIDE project
     2. Name: An integrative, multi-omics analysis of the Hfq regulon