PXD008367

PXD008367 is an original dataset announced via ProteomeXchange.

Title	H2 drives metabolic rearrangements in gas-fermenting Clostridium autoethanogenum
Description	Background: The global demand for affordable carbon has never been stronger, and there is an imperative in many industrial processes to use waste streams to make products. Gas-fermenting acetogens offer a potential solution and several commercial gas fermentation plants are currently under construction. As energy limits acetogen metabolism, supply of H2 should diminish substrate loss to CO2 and facilitate production of reduced and energy-intensive products. However, the effects of H2 supply on CO-grown acetogens have yet to be experimentally quantified under controlled growth conditions. Results: Here, we quantify the effects of H2 supplementation by comparing growth on CO, syngas, and a high-H2 CO gas mix using chemostat cultures of Clostridium autoethanogenum. Cultures were characterised at the molecular level using metabolomics, proteomics, gas analysis, and a genome-scale metabolic model (GEM). CO-limited chemostats operated at two steady-state biomass concentrations facilitated co-utilisation of CO and H2. We show that H2 supply strongly impacts carbon distribution with a four-fold reduction in substrate loss as CO2 (61% vs. 17%) and a proportional increase of flux to ethanol (15% vs. 61%). Notably, H2 supplementation lowers the molar acetate/ethanol ratio by five-fold. At the molecular level, quantitative proteome analysis showed no obvious changes leading to these metabolic rearrangements suggesting the involvement of post-translational regulation. Metabolic modelling showed that H2 availability provided reducing power via H2 oxidation and saved redox as cells reduced all the CO2 to formate directly using H2 in the Wood-Ljungdahl pathway. Modelling further indicated that the methylene-THF reductase reaction was ferredoxin-reducing under all conditions. In combination with proteomics, modelling also showed that ethanol was synthesised through the acetaldehyde:ferredoxin oxidoreductase (AOR) activity. Conclusions: Our quantitative molecular analysis revealed that H2 drives rearrangements at several layers of metabolism and provides novel links between carbon, energy, and redox metabolism advancing our understanding of energy conservation in acetogens. We conclude that H2 supply can substantially increase the efficiency of gas fermentation and thus the feed gas composition can be considered an important factor in developing gas fermentation-based bioprocesses.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_04:24:10.316.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Kaspar Valgepea
SpeciesList	scientific name: Clostridium autoethanogenum; NCBI TaxID: 84023;
ModificationList	iodoacetamide derivatized residue
Instrument	Q Exactive HF

Revision	Datetime	Status	ChangeLog Entry
0	2017-12-05 03:29:15	ID requested
1	2018-03-05 00:31:41	announced
2	2018-03-08 06:01:35	announced	Updated publication reference for PubMed record(s): 29507607.
⏵ 3	2024-10-22 04:24:16	announced	2024-10-22: Updated project metadata.

10.1186/s13068-018-1052-9;

Valgepea K, de Souza Pinto Lemgruber R, Abdalla T, Binos S, Takemori N, Takemori A, Tanaka Y, Tappel R, K, ö, pke M, Simpson SD, Nielsen LK, Marcellin E, . Biotechnol Biofuels, 11():55(2018) [pubmed]

curator keyword: Biological

submitter keyword: acetogen

gas fermentation

quantitative proteomics

data-independent acquisition

genome-scale modelling

metabolomics

Esteban Marcellin
contact affiliation	Australian Institute for Bioengineering and Nanotechnology (AIBN), The University of Queensland
contact email	e.marcellin@uq.edu.au
lab head
Kaspar Valgepea
contact affiliation	Australian Institute for Bioengineering and Nanotechnology,The University of Queensland
contact email	k.valgepea@uq.edu.au
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD008367
     1. Label: PRIDE project
     2. Name: H2 drives metabolic rearrangements in gas-fermenting Clostridium autoethanogenum