Draft Genome Sequence of the Butanoic Acid-Producing Bacterium Clostridium luticellarii DSM 29923, Used for Strong Aromatic Chinese Liquor Production

Bremekamp, Rica; Lutz, Veronika Theresa; Schulz, Lisa Maria; Daniel, Rolf

doi:10.1128/genomea.00377-18

Cited by 12 publications

(11 citation statements)

References 6 publications

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“…CO 2 could be incorporated into acetate, n-valerate and/or n-caproate thereby improving carbon recovery in the chain elongation process. Increased relative abundance in chain-elongating conditions (0.5–2 g nZVI⋅L –1 ) was observed for C. luticellarii which may use the Wood-Ljungdahl pathway to take up electrons, H 2 and/or CO 2 coupled to chain elongation ( Poehlein et al, 2018 ; Petrognani et al, 2020 ). Caproiciproducens and Ruminococcaceae species were also enriched under these same conditions but their capability to utilize CO 2 /H 2 /electrons for chain elongation remains to be studied.…”

Section: Discussionmentioning

confidence: 98%

“…Hydrolyzed lactate seemed to be rapidly used for chain elongation since chain elongation products showed sustained production over time despite lactate monomers were depleted ( Figure 2 ). Several bacteria harboring genes involved in lactate oxidation (lactate dehydrogenases, Ldh) and the RBO pathway such as C. tyrobutyricum ( Wu et al, 2017 ), C. luticellarii ( Poehlein et al, 2018 ) and members of the family Ruminococcaceae ( Tao et al, 2017 ) including Caproiciproducens species (e.g., Bengelsdorf et al, 2019 ) were enriched in these conditions. C. tyrobutyricum is known as an efficient n-butyrate producer ( Wu et al, 2017 ) but is not reported to produce longer carboxylates.…”

Section: Discussionmentioning

confidence: 99%

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nZVI Impacts Substrate Conversion and Microbiome Composition in Chain Elongation From D- and L-Lactate Substrates

Contreras-Dávila

Esveld

Buisman

et al. 2021

Front. Bioeng. Biotechnol.

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Medium-chain carboxylates (MCC) derived from biomass biorefining are attractive biochemicals to uncouple the production of a wide array of products from the use of non-renewable sources. Biological conversion of biomass-derived lactate during secondary fermentation can be steered to produce a variety of MCC through chain elongation. We explored the effects of zero-valent iron nanoparticles (nZVI) and lactate enantiomers on substrate consumption, product formation and microbiome composition in batch lactate-based chain elongation. In abiotic tests, nZVI supported chemical hydrolysis of lactate oligomers present in concentrated lactic acid. In fermentation experiments, nZVI created favorable conditions for either chain-elongating or propionate-producing microbiomes in a dose-dependent manner. Improved lactate conversion rates and n-caproate production were promoted at 0.5–2 g nZVI⋅L–1 while propionate formation became relevant at ≥ 3.5 g nZVI⋅L–1. Even-chain carboxylates (n-butyrate) were produced when using enantiopure and racemic lactate with lactate conversion rates increased in nZVI presence (1 g⋅L–1). Consumption of hydrogen and carbon dioxide was observed late in the incubations and correlated with acetate formation or substrate conversion to elongated products in the presence of nZVI. Lactate racemization was observed during chain elongation while isomerization to D-lactate was detected during propionate formation. Clostridium luticellarii, Caproiciproducens, and Ruminococcaceae related species were associated with n-valerate and n-caproate production while propionate was likely produced through the acrylate pathway by Clostridium novyi. The enrichment of different potential n-butyrate producers (Clostridium tyrobutyricum, Lachnospiraceae, Oscillibacter, Sedimentibacter) was affected by nZVI presence and concentrations. Possible theories and mechanisms underlying the effects of nZVI on substrate conversion and microbiome composition are discussed. An outlook is provided to integrate (bio)electrochemical systems to recycle (n)ZVI and provide an alternative reducing power agent as durable control method.

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Section: Discussionmentioning

confidence: 98%

Section: Discussionmentioning

confidence: 99%

nZVI Impacts Substrate Conversion and Microbiome Composition in Chain Elongation From D- and L-Lactate Substrates

Contreras-Dávila

Esveld

Buisman

et al. 2021

Front. Bioeng. Biotechnol.

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“…So far, hydrogenotrophy and caproate production have not been reported as functions of C. luticellarii ( Wang et al, 2015 ). However, its genome harbors typical genes of the Wood-Ljungdahl pathway ( Poehlein et al, 2018 ) and C. luticellarii was the main candidate to elongate propionate to valerate and to produce i -butyrate in a recent study ( de Smit et al, 2019 ). Moreover, a caproate producer recently isolated in our laboratory, Clostridiales bacterium isolate BL-3, is also closely related to C. luticellarii ( Liu et al, 2020b , c ).…”

Section: Discussionmentioning

confidence: 99%

Hydrogen as a Co-electron Donor for Chain Elongation With Complex Communities

Baleeiro

Kleinsteuber

Sträuber

2021

Front. Bioeng. Biotechnol.

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Electron donor scarcity is seen as one of the major issues limiting economic production of medium-chain carboxylates from waste streams. Previous studies suggest that co-fermentation of hydrogen in microbial communities that realize chain elongation relieves this limitation. To better understand how hydrogen co-feeding can support chain elongation, we enriched three different microbial communities from anaerobic reactors (A, B, and C with ascending levels of diversity) for their ability to produce medium-chain carboxylates from conventional electron donors (lactate or ethanol) or from hydrogen. In the presence of abundant acetate and CO2, the effects of different abiotic parameters (pH values in acidic to neutral range, initial acetate concentration, and presence of chemical methanogenesis inhibitors) were tested along with the enrichment. The presence of hydrogen facilitated production of butyrate by all communities and improved production of i-butyrate and caproate by the two most diverse communities (B and C), accompanied by consumption of acetate, hydrogen, and lactate/ethanol (when available). Under optimal conditions, hydrogen increased the selectivity of conventional electron donors to caproate from 0.23 ± 0.01 mol e–/mol e– to 0.67 ± 0.15 mol e–/mol e– with a peak caproate concentration of 4.0 g L–1. As a trade-off, the best-performing communities also showed hydrogenotrophic methanogenesis activity by Methanobacterium even at high concentrations of undissociated acetic acid of 2.9 g L–1 and at low pH of 4.8. According to 16S rRNA amplicon sequencing, the suspected caproate producers were assigned to the family Anaerovoracaceae (Peptostreptococcales) and the genera Megasphaera (99.8% similarity to M. elsdenii), Caproiciproducens, and Clostridium sensu stricto 12 (97–100% similarity to C. luticellarii). Non-methanogenic hydrogen consumption correlated to the abundance of Clostridium sensu stricto 12 taxa (p < 0.01). If a robust methanogenesis inhibition strategy can be found, hydrogen co-feeding along with conventional electron donors can greatly improve selectivity to caproate in complex communities. The lessons learned can help design continuous hydrogen-aided chain elongation bioprocesses.

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“…In the present study, no alcohols were detected throughout the operation time. Bacteria capable of performing homoacetogenesis such as Oscillibacter [46] and Clostridium luticellarii [47] were present in chain-elongating microbiomes. However, homoacetogenesis from H 2 and CO 2 did not seem likely to occur (∆G' <20 kJ•edonor −1 ) at the P H2 observed here (0.1 atm period I;~0.3 atm periods IV-V).…”

Section: Shift From MCC To Scc Production Was Unrelated To Hydrogen Partial Pressurementioning

confidence: 99%

Lactate Metabolism and Microbiome Composition Are Affected by Nitrogen Gas Supply in Continuous Lactate-Based Chain Elongation

et al. 2021

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Chain elongation reactor microbiomes produce valuable medium-chain carboxylates (MCC) from non-sterile residual substrates where lactate is a relevant intermediate. Gas supply has been shown to impact chain elongation performance. In the present study, the effect of nitrogen gas (N2) supply on lactate metabolism, conversion rates, biomass growth, and microbiome composition was evaluated in a lactate-fed upflow anaerobic reactor with continuous or intermittent N2 gas supply. Successful MCC production was achieved with continuous N2 gas supply at low superficial gas velocities (SGV) of 0.22 m∙h−1. Supplying N2 at high SGV (>2 m∙h−1) either continuously (2.2 m∙h−1) or intermittently (3.6 m∙h−1) disrupted chain elongation, resulting in production of short-chain carboxylates (SCC), i.e., acetate, propionate, and n-butyrate. Caproiciproducens-dominated chain-elongating microbiomes enriched at low SGV were washed out at high SGV where Clostridium tyrobutyricum-dominated microbiomes thrived, by displaying higher lactate consumption rates. Suspended growth seemed to be dominant regardless of SGV and gas supply regime applied with no measurable sludge bed formed. The highest MCC production from lactate of 10 g COD∙L−1∙d−1 with electron selectivities of 72 ± 5%was obtained without N2 gas supply at a hydraulic retention time (HRT) of 1 day. The addition of 5 g∙L−1 of propionate did not inhibit chain elongation, but rather boosted lactate conversion rates towards MCC with n-heptylate reaching 1.8 g COD∙L−1∙d−1. N2 gas supply can be used for mixing purposes and to steer lactate metabolism to MCC or SCC production.

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Draft Genome Sequence of the Butanoic Acid-Producing Bacterium Clostridium luticellarii DSM 29923, Used for Strong Aromatic Chinese Liquor Production

Cited by 12 publications

References 6 publications

nZVI Impacts Substrate Conversion and Microbiome Composition in Chain Elongation From D- and L-Lactate Substrates

nZVI Impacts Substrate Conversion and Microbiome Composition in Chain Elongation From D- and L-Lactate Substrates

Hydrogen as a Co-electron Donor for Chain Elongation With Complex Communities

Lactate Metabolism and Microbiome Composition Are Affected by Nitrogen Gas Supply in Continuous Lactate-Based Chain Elongation

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