PXD013307

PXD013307 is an original dataset announced via ProteomeXchange.

Title	Metabolic remodeling during biofilm development of Bacillus subtilis
Description	Biofilms are structured communities of tightly associated cells that constitute thepredominant state of bacterial growth in naturaland human-madeenvironments. Although the core genetic circuitry that controls biofilm formation in model bacteria such as Bacillus subtilishas been well characterized, little is known about the role that metabolism plays in this complex developmental process. Here, weperformed a time-resolved analysisof the metabolic changes associated with pellicle biofilm formation and development inB. subtilisby combining metabolomic, transcriptomic, and proteomic analyses. We report a surprisingly widespread and dynamic remodeling of metabolism affecting central carbon metabolism, primary biosynthetic pathways, fermentation pathways, and secondary metabolism. Most of these metabolic alterations were hithertounrecognized as biofilm-associated.For example, we observed increased activity of the tricarboxylic acid (TCA) cycle during early biofilm growth, a shift from fatty acid biosynthesis to fatty acid degradation, reorganization of iron metabolism and transport, and a switch from acetate to acetoin fermentation. Close agreement between metabolomic, transcriptomic, and proteomic measurements indicated that remodeling of metabolism during biofilm development was generally controlled at the transcriptional level. Our resultsalsoprovide insights into the transcription factors and regulatory networks involved in thiscomplexmetabolic remodeling. Following upon these results, we demonstrate that acetoin production via acetolactate synthase is essential for robust biofilm growthand has the dual role of conservingredox balance and maintaining extracellularpH.This study represents a comprehensive systems-level investigation of the metabolic remodeling occurring during B. subtilisbiofilm development that will serve as a useful roadmap for future studies on biofilm physiology.
HostingRepository	PRIDE
AnnounceDate	2019-04-30
AnnouncementXML	Submission_2019-04-30_05:35:11.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Edna Angelica Trujillo
SpeciesList	scientific name: Bacillus subtilis subsp. subtilis str. NCIB 3610; NCBI TaxID: 535026;
ModificationList	monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Orbitrap Fusion Lumos; LTQ Orbitrap

Revision	Datetime	Status	ChangeLog Entry
0	2019-03-29 06:50:33	ID requested
⏵ 1	2019-04-30 05:35:12	announced

Dataset with its publication pending

submitter keyword: Metabolomics, proteomics, biofilm modeling

Daniel Amador-Noguez
contact affiliation	Department of Bacteriology, University of Wisconsin-Madison, Madison, WI, USA
contact email	amadornoguez@wisc.edu
lab head
Edna Angelica Trujillo
contact affiliation	University of Wisconsin Madison
contact email	etrujillo2@wisc.edu
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/2019/04/PXD013307

PRIDE project URI

• PRIDE
  1. PXD013307
     1. Label: PRIDE project
     2. Name: Metabolic remodeling during biofilm development of Bacillus subtilis