PXD047939

PXD047939 is an original dataset announced via ProteomeXchange.

Title	Efficiency of acetate-based isopropanol synthesis in Escherichia coli W is controlled by ATP availability
Description	Due to increasing ecological concerns, recombinant microbial production of biochemicals from sustainable carbon sources like acetate is rapidly gaining importance. However, for establishing successful large-scale production scenarios, a solid understanding of metabolic driving forces is required to inform bioprocess design. To generate such knowledge, we constructed isopropanol-producing Escherichia coli W strains. Based on strain screening and metabolic considerations a 2-stage process was designed incorporating a growth phase followed by a nitrogen starvation phase. This process design yielded the highest isopropanol titers on acetate to date (13.3 g L-1). Additionally, we performed shotgun and acetylated proteomics and identified several stress conditions in the bioreactor scenarios, such as acid stress and impaired sulfur uptake. Metabolic modelling allowed for an in-depth characterization of intracellular flux distributions, uncovering ATP availability as a determining factor for routing carbon towards the isopropanol pathway. Moreover, we asserted the importance of a balance between fluxes of the NADPH-providing isocitrate dehydrogenase (ICDH) and the product pathway. Using the newly gained system-level understanding for isopropanol production from acetate, we assessed possible engineering approaches and propose process designs to maximize production. Collectively, our work contributes to the establishment and optimization of acetate-based bioproduction systems.
HostingRepository	PRIDE
AnnounceDate	2024-10-17
AnnouncementXML	Submission_2024-10-17_06:02:23.915.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Tamara Tomin
SpeciesList	scientific name: Escherichia coli; NCBI TaxID: 562;
ModificationList	acetylated residue; monohydroxylated residue; iodoacetamide derivatized residue
Instrument	timsTOF Pro

Revision	Datetime	Status	ChangeLog Entry
0	2023-12-19 04:34:54	ID requested
⏵ 1	2024-10-17 06:02:24	announced

Kutscha R, Tomin T, Birner-Gruenberger R, Bekiaris PS, Klamt S, Pfl, ü, gl S, Efficiency of acetate-based isopropanol synthesis in Escherichia coli W is controlled by ATP demand. Biotechnol Biofuels Bioprod, 17(1):110(2024) [pubmed]

10.1186/s13068-024-02534-0;

submitter keyword: acetate, isopropanol, ecoli, bioingeneering, ecoli W

Ruth Birner-Gruenberger
contact affiliation	Professor for Analytical Chemistry Institute of Chemical Technologies and Analytics TU Wien Getreidemarkt 9/E164 A-1060 Vienna Austria Associate Professor for Biochemistry Diagnostic and Research Institute of Pathology Medical University of Graz Stiftingtalstrasse 24 A-8010 Graz Austria
contact email	ruth.birner-gruenberger@tuwien.ac.at
lab head
Tamara Tomin
contact affiliation	Senior Scientist at Institute of Chemical Technologies and Analytics Faculty of Technical Chemistry, TU Wien Getreidemarkt 9/164, 1060 Vienna
contact email	tamara.tomin@tuwien.ac.at
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD047939
     1. Label: PRIDE project
     2. Name: Efficiency of acetate-based isopropanol synthesis in Escherichia coli W is controlled by ATP availability