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PXD016381 is an original dataset announced via ProteomeXchange.

Dataset Summary
TitleRedox controls metabolic robustness in the gas-fermenting acetogen Clostridium autoethanogenum
DescriptionLiving biological systems display a fascinating ability to self-organise their metabolism. This ability ultimately determines metabolic robustness that is fundamental to control cellular behaviour. However, fluctuations in metabolism can affect cellular homeostasis through transient oscillations. For example, yeast cultures exhibit rhythmic oscillatory behaviour in high-cell density continuous cultures. Oscillatory behaviour provides a unique opportunity for quantitating the robustness of metabolism, as cells respond to changes by inherently compromising metabolic efficiency. Here, we quantify the limits of metabolic robustness in self-oscillating autotrophic continuous cultures of the gas-fermenting acetogen Clostridium autoethanogenum. On-line gas analysis and high-resolution temporal metabolomics showed oscillations in gas uptake rates and extracellular by-products synchronised with biomass levels. Loss of H2 uptake makes CO the sole carbon and energy source until cells recover uptake of H2 in synchrony with increasing biomass levels. Intriguingly, oscillations are not linked to translational control as no differences were observed in protein expression during oscillations. However, intracellular metabolomics analysis revealed decreasing levels of redox ratios in perfect synchrony with the cycles. Therefore, we developed a thermodynamic metabolic flux analysis (tMFA) model to investigate if regulation in acetogens is controlled at the thermodynamic level. The data shows that the feasible range for the thermodynamic driving force of the Nfn transhydrogenase complex (i.e. NADH/NAD+√óNADP+/NADPH) closely matched the experimentally observed range. The data indicate that metabolic oscillations in gas fermentation acetogens are controlled at the thermodynamic level. Our work suggests thermodynamic control of metabolism, potentially contributing to metabolic efficiency and working as a mean of energy conservation.
ReviewLevelPeer-reviewed dataset
DatasetOriginOriginal dataset
RepositorySupportUnsupported dataset by repository
PrimarySubmitterKaspar Valgepea
SpeciesList scientific name: Clostridium autoethanogenum; NCBI TaxID: 84023;
ModificationListiodoacetamide derivatized residue
InstrumentQ Exactive HF-X
Dataset History
RevisionDatetimeStatusChangeLog Entry
02019-11-21 05:56:37ID requested
12020-05-17 23:49:43announced
22020-06-01 06:15:07announced2020-06-01: Updated publication reference for DOI(s): 10.1073/pnas.1919531117.
Publication List
Keyword List
submitter keyword: metabolic robustness
gas fermentation
Wood-Ljungdahl pathway
data-independent acquisition
Contact List
Esteban Marcellin
contact affiliationAustralian Institute for Bioengineering and Nanotechnology (AIBN), The University of Queensland, Australia
contact emaile.marcellin@uq.edu.au
lab head
Kaspar Valgepea
contact affiliationAustralian Institute for Bioengineering and Nanotechnology,The University of Queensland
contact emailk.valgepea@uq.edu.au
dataset submitter
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