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References from Implementation of a Clostridium luticellarii genome-scale model for upgrading syngas fermentations. Local targets link to admitted publications; unresolved targets remain external evidence.
Integration of gene expression data into genome-scale metabolic models
10.1016/j.ymben.2003.12.002 · 2004 · External reference
Biobased short chain fatty acid production-exploring microbial community dynamics and metabolic networks through kinetic and microbial modeling approaches
2024 · External reference
Syngas-aided anaerobic fermentation for medium-chain carboxylate and alcohol production: the case for microbial communities
10.1007/s00253-019-10086-9 · 2019 · External reference
10.1093/nar/gkab1106
10.1093/nar/gkab1106 · External reference
10.1371/journal.pcbi.1009093
10.1371/journal.pcbi.1009093 · External reference
10.1016/j.csbj.2020.10.003 · Admitted local publication
10.1093/molbev/msab293
10.1093/molbev/msab293 · External reference
Simultaneous application of enzyme and thermodynamic constraints to metabolic models using an updated Python implementation of GECKO
10.1128/spectrum.01705-23 · 2023 · External reference
Continuous n-valerate formation from propionate and methanol in an anaerobic chain elongation open-culture bioreactor
10.1186/s13068-019-1468-x · 2019 · External reference
L-rhamnose metabolism in clostridium beijerinckii strain dsm 6423
10.1128/aem.02656-18 · 2019 · External reference
Metabolic shift induced by synthetic co-cultivation promotes high yield of chain elongated acids from syngas
10.1038/s41598-019-54445-y · 2019 · External reference
Production of medium-chain fatty acids and higher alcohols by a synthetic co-culture grown on carbon monoxide or syngas
10.1186/s13068-016-0495-0 · 2016 · External reference
10.1007/s11306-015-0819-2
10.1007/s11306-015-0819-2 · External reference
10.1196/annals.1419.016
10.1196/annals.1419.016 · External reference
10.1186/1752-0509-7-74
10.1186/1752-0509-7-74 · External reference
Model-based driving mechanism analysis for butyric acid production in clostridium tyrobutyricum
10.1186/s13068-022-02169-z · 2022 · External reference
Selective anaerobic fermentation of syngas into either C2-C6 organic acids or ethanol and higher alcohols
10.1016/j.biortech.2019.02.018 · 2019 · External reference
Modeling growth kinetics, interspecies cell fusion, and metabolism of a clostridium acetobutylicum/clostridium ljungdahlii syntrophic coculture
10.1128/msystems.01325-20 · 2021 · External reference
In silico analysis of clostridium acetobutylicum atcc 824 metabolic response to an external electron supply
10.1007/s00449-015-1513-5 · 2016 · External reference
Low fermentation ph is a trigger to alcohol production, but a killer to chain elongation
2016 · External reference
Upgrading syngas fermentation effluent using clostridium kluyveri in a continuous fermentation
10.1186/s13068-017-0764-6 · 2017 · External reference
Probabilistic thermodynamic analysis of metabolic networks
10.1093/bioinformatics/btab194 · 2021 · External reference
Merging automation and fundamental discovery into the design–build–test–learn cycle of nontraditional microbes
10.1016/j.tibtech.2022.03.004 · 2022 · External reference
The effect of syngas composition on the growth and product formation of butyribacterium methylotrophicum
10.1016/j.enzmictec.2007.03.004 · 2007 · External reference
Thermodynamics-based metabolic flux analysis
10.1529/biophysj.106.093138 · 2007 · External reference
Flux sampling is a powerful tool to study metabolism under changing environmental conditions
10.1038/s41540-019-0109-0 · 2019 · External reference
Directing clostridium ljungdahlii fermentation products via hydrogen to carbon monoxide ratio in syngas
10.1016/j.biombioe.2019.03.011 · 2019 · External reference
An efficient new process for the selective production of odd-chain carboxylic acids by simple carbon elongation using megasphaera hexanoica
10.1038/s41598-019-48591-6 · 2019 · External reference
Methanol supply speeds up synthesis gas fermentation by methylotrophic-acetogenic bacterium, eubacterium limosum kist612
10.1016/j.biortech.2020.124521 · 2021 · External reference
10.1371/journal.pcbi.1004321
10.1371/journal.pcbi.1004321 · External reference
Methanol and methyl group conversion in acetogenic bacteria: biochemistry, physiology and application
10.1093/femsre/fuaa040 · 2021 · External reference
10.1111/1462-2920.14356
10.1111/1462-2920.14356 · External reference
10.1371/journal.pcbi.1006971
10.1371/journal.pcbi.1006971 · External reference
Methanol-based chain elongation with acetate to n-butyrate and isobutyrate at varying selectivities dependent on ph
10.1021/acssuschemeng.0c00907 · 2020 · External reference
10.1038/s41587-020-0446-y
10.1038/s41587-020-0446-y · External reference
Gas fermentation—a flexible platform for commercial scale production of low-carbon-fuels and chemicals from waste and renewable feedstocks
10.3389/fmicb.2016.00694 · 2016 · External reference
Ecmpy 2.0: a python package for automated construction and analysis of enzyme-constrained models
10.1016/j.synbio.2024.04.005 · 2024 · External reference
Steerable isobutyric and butyric acid production from co2 and h2 by clostridium luticellarii
10.1111/1751-7915.14321 · 2024 · External reference
Genome-scale modeling using flux ratio constraints to enable metabolic engineering of clostridial metabolism in silico
10.1186/1752-0509-6-42 · 2012 · External reference
10.3390/antiox10050729
10.3390/antiox10050729 · External reference
Metabolic network reconstruction and genome-scale model of butanol-producing strain clostridium beijerinckii ncimb 8052
10.1186/1752-0509-5-130 · 2011 · External reference
Sustainable ethanol fermentation from synthesis gas by clostridium ljungdahlii in a continuous stirred tank bioreactor
10.1002/jctb.3712 · 2012 · External reference
Overcoming the energetic limitations of syngas fermentation
10.1016/j.cbpa.2017.10.003 · 2017 · External reference
10.1093/bioinformatics/btt059
10.1093/bioinformatics/btt059 · External reference
Characterizing acetogenic metabolism using a genome-scale metabolic reconstruction of clostridium ljungdahlii
10.1186/1475-2859-12-118 · 2013 · External reference
10.1016/j.cell.2016.02.004
10.1016/j.cell.2016.02.004 · External reference
10.1038/nbt.1614
10.1038/nbt.1614 · External reference
10.1016/j.ymben.2020.11.012
10.1016/j.ymben.2020.11.012 · External reference
10.1007/10_2021_180
10.1007/10_2021_180 · 2021 · External reference
Upgrading dilute ethanol to odd-chain carboxylic acids by a synthetic co-culture of anaerotignum neopropionicum and clostridium kluyveri
10.1186/s13068-023-02336-w · 2023 · External reference
Production of isobutyric acid from methanol by clostridium luticellarii
10.1039/d0gc02700f · 2020 · External reference
Draft genome sequence of the butanoic acid-producing bacterium clostridium luticellarii dsm 29923, used for strong aromatic Chinese liquor production
10.1128/genomea.00377-18 · 2018 · External reference
Unresolved reference
External reference
Pytfa and mattfa: a python package and a Matlab toolbox for thermodynamics-based flux analysis
10.1093/bioinformatics/bty499 · 2019 · External reference
10.1002/bit.28421
10.1002/bit.28421 · External reference
Curation and analysis of a saccharomyces cerevisiae genome-scale metabolic model for predicting production of sensory impact molecules under enological conditions
10.3390/pr8091195 · 2020 · External reference
10.1038/nprot.2009.203
10.1038/nprot.2009.203 · External reference
10.1016/j.ymben.2017.04.007
10.1016/j.ymben.2017.04.007 · External reference
H 2 drives metabolic rearrangements in gas-fermenting clostridium autoethanogenum
10.1186/s13068-018-1052-9 · 2018 · External reference
Clostridium luticellarii sp. Nov., isolated from a mud cellar used for producing strong aromatic liquors
10.1099/ijsem.0.000641 · 2015 · External reference
Genome-scale metabolic reconstruction and analysis for clostridium kluyveri
10.1139/gen-2017-0177 · 2018 · External reference