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Mariën Q, Regueira A, Ganigué R. Steerable isobutyric and butyric acid production from CO 2 and H 2 by Clostridium luticellarii. Microb Biotechnol 2024; 17:e14321. [PMID: 37649327 PMCID: PMC10832561 DOI: 10.1111/1751-7915.14321] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/08/2023] [Revised: 07/07/2023] [Accepted: 07/08/2023] [Indexed: 09/01/2023] Open
Abstract
Clostridium luticellarii is a recently discovered acetogen that is uniquely capable of producing butyric and isobutyric acid from various substrates (e.g. methanol), but it is unclear which factors influence its (iso)butyric acid production from H2 and CO2 . We aimed to investigate the autotrophic metabolism of C. luticellarii by identifying the necessary growth conditions and examining the effects of pH and metabolite levels on product titers and selectivity. Results show that autotrophic growth of C. luticellarii requires the addition of complex nutrient sources and the absence of shaking conditions. Further experiments combined with thermodynamic calculations identified pH as a key parameter governing the direction of metabolic fluxes. At circumneutral pH (~6.5), acetic acid is the sole metabolic end product but C. luticellarii possesses the unique ability to co-oxidize organic acids such as valeric acid under high H2 partial pressures (>1 bar). Conversely, mildly acidic pH (≤5.5) stimulates the production of butyric and isobutyric acid while partly halting the oxidation of organic acids. Additionally, elevated acetic acid concentrations stimulated butyric and isobutyric acid production up to a combined selectivity of 53 ± 3%. Finally, our results suggest that isobutyric acid is produced by a reversible isomerization of butyric acid, but valeric and caproic acid are not isomerized. These combined insights can inform future efforts to optimize and scale-up the production of valuable chemicals from CO2 using C. luticellarii.
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Affiliation(s)
- Quinten Mariën
- Center for Microbial Ecology and Technology (CMET)Ghent UniversityGhentBelgium
- Center for Advanced Process Technology for Urban Resource Recovery (CAPTURE)GhentBelgium
| | - Alberte Regueira
- Center for Microbial Ecology and Technology (CMET)Ghent UniversityGhentBelgium
- Center for Advanced Process Technology for Urban Resource Recovery (CAPTURE)GhentBelgium
- CRETUS, Department of Chemical EngineeringUniversidade de Santiago de CompostelaSantiago de CompostelaSpain
| | - Ramon Ganigué
- Center for Microbial Ecology and Technology (CMET)Ghent UniversityGhentBelgium
- Center for Advanced Process Technology for Urban Resource Recovery (CAPTURE)GhentBelgium
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Valer L, Rossetto D, Scintilla S, Hu YJ, Tomar A, Nader S, Betinol IO, Mansy S. Methods to identify and characterize iron-sulfur oligopeptides in water. CAN J CHEM 2022. [DOI: 10.1139/cjc-2021-0237] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
Abstract
Iron-sulfur clusters are ubiquitous cofactors that mediate central biological processes. However, despite their long history, these metallocofactors remain challenging to investigate when coordinated to small (≤ six amino acids) oligopeptides in aqueous solution. In addition to being often unstable in vitro, iron-sulfur clusters can be found in a wide variety of forms with varied characteristics, which makes it difficult to easily discern what is in solution. This difficulty is compounded by the dynamics of iron-sulfur peptides, which frequently coordinate multiple types of clusters simultaneously. To aid investigations of such complex samples, a summary of data from multiple techniques used to characterize both iron-sulfur proteins and peptides is provided. Although not all spectroscopic techniques are equally insightful, it is possible to use several, readily available methods to gain insight into the complex composition of aqueous solutions of iron-sulfur peptides.
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Affiliation(s)
- Luca Valer
- University of Trento, 19034, Trento, Trentino-Alto Adige, Italy
| | | | | | - Yin Juan Hu
- University of Alberta, 3158, Chemistry, Edmonton, Alberta, Canada
| | - Anju Tomar
- University of Trento, 19034, Trento, Trentino-Alto Adige, Italy
| | - Serge Nader
- University of Alberta, 3158, Chemistry, Edmonton, Alberta, Canada
| | | | - Sheref Mansy
- University of Alberta, 3158, Chemistry, Edmonton, Alberta, Canada
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Di Rocco G, Battistuzzi G, Borsari M, Bortolotti CA, Ranieri A, Sola M. The enthalpic and entropic terms of the reduction potential of metalloproteins: Determinants and interplay. Coord Chem Rev 2021. [DOI: 10.1016/j.ccr.2021.214071] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
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Lancellotti L, Borsari M, Bellei M, Bonifacio A, Bortolotti CA, Di Rocco G, Ranieri A, Sola M, Battistuzzi G. Urea-induced denaturation of immobilized yeast iso-1 cytochrome c: Role of Met80 and Tyr67 in the thermodynamics of unfolding and promotion of pseudoperoxidase and nitrite reductase activities. Electrochim Acta 2020. [DOI: 10.1016/j.electacta.2020.137237] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/29/2022]
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Adsorbing surface strongly influences the pseudoperoxidase and nitrite reductase activity of electrode-bound yeast cytochrome c. The effect of hydrophobic immobilization. Bioelectrochemistry 2020; 136:107628. [PMID: 32795942 DOI: 10.1016/j.bioelechem.2020.107628] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/30/2020] [Revised: 07/31/2020] [Accepted: 07/31/2020] [Indexed: 02/02/2023]
Abstract
The Met80Ala and Met80Ala/Tyr67Ala variants of S. cerevisiae iso-1 cytochrome c (ycc) and their adducts with cardiolipin immobilized onto a gold electrode coated with a hydrophobic self-assembled monolayer (SAM) of decane-1-thiol were studied through cyclic voltammetry and surface-enhanced resonance Raman spectroscopy (SERRS). The electroactive species - containing a six-coordinate His/His axially ligated heme and a five-coordinate His/- heme stable in the oxidized and reduced state, respectively - and the pseudoperoxidase activity match those found previously for the wt species and are only slightly affected by CL binding. Most importantly, the reduced His/- ligated form of these variants is able to catalytically reduce the nitrite ion, while electrode-immobilized wt ycc and other His/Met heme ligated variants under a variety of conditions are not. Besides the pseudoperoxidase and nitrite reductase functions, which are the most physiologically relevant abilities of these constructs, also axial heme ligation and the equilibria between conformers are strongly affected by the nature - hydrophobic vs. electrostatic - of the non-covalent interactions determining protein immobilization. Also affected are the catalytic activity changes induced by a given mutation as well as those due to partial unfolding due to CL binding. It follows that under the same solution conditions the structural and functional properties of immobilized ycc are surface-specific and therefore cannot be transferred from an immobilized system to another involving different interfacial protein-SAM interactions.
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Paradisi A, Lancellotti L, Borsari M, Bellei M, Bortolotti CA, Di Rocco G, Ranieri A, Sola M, Battistuzzi G. Met80 and Tyr67 affect the chemical unfolding of yeast cytochrome c: comparing the solution vs.immobilized state. RSC Chem Biol 2020. [DOI: 10.1039/d0cb00115e] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/26/2022] Open
Abstract
The motional regime affects the unfolding propensity and axial heme coordination of the Met80Ala and Met80Ala/Tyr67Ala variants of yeast iso-1 cytochromec.
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Affiliation(s)
| | - Lidia Lancellotti
- Department of Chemistry and Geology
- University of Modena and Reggio Emilia
- 41126 Modena
- Italy
| | - Marco Borsari
- Department of Chemistry and Geology
- University of Modena and Reggio Emilia
- 41126 Modena
- Italy
| | - Marzia Bellei
- Department of Life Sciences
- University of Modena and Reggio Emilia
- 41126 Modena
- Italy
| | | | - Giulia Di Rocco
- Department of Life Sciences
- University of Modena and Reggio Emilia
- 41126 Modena
- Italy
| | - Antonio Ranieri
- Department of Life Sciences
- University of Modena and Reggio Emilia
- 41126 Modena
- Italy
| | - Marco Sola
- Department of Life Sciences
- University of Modena and Reggio Emilia
- 41126 Modena
- Italy
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Taguchi AT, Miyajima-Nakano Y, Fukazawa R, Lin MT, Baldansuren A, Gennis RB, Hasegawa K, Kumasaka T, Dikanov SA, Iwasaki T. Unpaired Electron Spin Density Distribution across Reduced [2Fe-2S] Cluster Ligands by 13Cβ-Cysteine Labeling. Inorg Chem 2017; 57:741-746. [DOI: 10.1021/acs.inorgchem.7b02676] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Alexander T. Taguchi
- Department of Biochemistry and Molecular Biology, Nippon Medical School, Sendagi, Tokyo 113-8602, Japan
| | - Yoshiharu Miyajima-Nakano
- Department of Biochemistry and Molecular Biology, Nippon Medical School, Sendagi, Tokyo 113-8602, Japan
| | - Risako Fukazawa
- Department of Biochemistry and Molecular Biology, Nippon Medical School, Sendagi, Tokyo 113-8602, Japan
| | | | - Amgalanbaatar Baldansuren
- Department of Veterinary
Clinical Medicine, University of Illinois at Urbana−Champaign, Urbana, Illinois 61801, United States
| | - Robert B. Gennis
- Department of Biochemistry, University of Illinois at Urbana−Champaign, Urbana, Illinois 61801, United States
| | - Kazuya Hasegawa
- Japan Synchrotron Radiation Research Institute (SPring-8/JASRI), Sayo, Hyogo 679-5198, Japan
| | - Takashi Kumasaka
- Japan Synchrotron Radiation Research Institute (SPring-8/JASRI), Sayo, Hyogo 679-5198, Japan
| | - Sergei A. Dikanov
- Department of Veterinary
Clinical Medicine, University of Illinois at Urbana−Champaign, Urbana, Illinois 61801, United States
| | - Toshio Iwasaki
- Department of Biochemistry and Molecular Biology, Nippon Medical School, Sendagi, Tokyo 113-8602, Japan
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Zanello P. The competition between chemistry and biology in assembling iron–sulfur derivatives. Molecular structures and electrochemistry. Part II. {[Fe2S2](SγCys)4} proteins. Coord Chem Rev 2014. [DOI: 10.1016/j.ccr.2014.08.003] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/11/2023]
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Di Rocco G, Ranieri A, Bortolotti CA, Battistuzzi G, Bonifacio A, Sergo V, Borsari M, Sola M. Axial iron coordination and spin state change in a heme c upon electrostatic protein-SAM interaction. Phys Chem Chem Phys 2014; 15:13499-505. [PMID: 23824165 DOI: 10.1039/c3cp50222h] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/02/2023]
Abstract
A bacterial di-heme cytochrome c binds electrostatically to a gold electrode surface coated with a negatively charged COOH-terminated SAM adopting a sort of 'perpendicular' orientation. Cyclic voltammetry, Resonance Raman and SERRS spectroscopies indicate that the high-potential C-terminal heme center proximal to the SAM's surface undergoes an adsorption-induced swapping of one axial His ligand with a water molecule, which is probably lost in the reduced form, and a low- to high-spin transition. This coordination change for a bis-His ligated heme center upon an electrostatically-driven molecular recognition is as yet unprecedented, as well as the resulting increase in reduction potential. We discuss it in comparison with the known methionine ligand lability in monoheme cytochromes c occurring upon interaction with charged molecular patches. One possible implication of this finding in biological ET is that mobile redox partners do not behave as rigid and invariant bodies, but in the ET complex are subjected to molecular changes and structural fluctuations that affect in a complex way the thermodynamics and the kinetics of the process.
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Affiliation(s)
- Giulia Di Rocco
- Department of Life Sciences, University of Modena and Reggio Emilia, Via Campi 183, I-41125 Modena, Italy
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Abstract
Glutathione (γ-glutamyl-cysteinyl-glycine, GSH) is a major thiol-containing peptide with cellular levels of up to 10 mM. (1) Several recent reports have demonstrated glutaredoxins (Grx) to form [Fe(2)S(2)] cluster-bridged dimers, where glutathione provides two exogenous thiol ligands, and have implicated such species in cellular iron sulfur cluster biosynthesis. We report the finding that glutathione alone can coordinate and stabilize an [Fe(2)S(2)] cluster under physiological conditions, with optical, redox, Mössbauer, and NMR characteristics that are consistent with a [Fe(2)S(2)](GS)(4) composition. The Fe-S assembly protein ISU catalyzes formation of [Fe(2)S(2)](GS)(4) from iron and sulfide ions in the presence of glutathione, and the [Fe(2)S(2)] core undergoes reversible exchange between apo ISU and free glutathione.
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Affiliation(s)
- Wenbin Qi
- Ohio State Biochemistry Program, The Ohio State University, 100 West 18th Ave, Columbus, OH 43210
| | - Jingwei Li
- Department of Chemistry, The Ohio State University, 100 West 18th Ave, Columbus, OH 43210
| | - C. Y Chain
- Departamento de Física, Facultad de Ciencias Exactas, Universidad Nacional de La Plata, Argentina
| | - G.A. Pasquevich
- Departamento de Física, Facultad de Ciencias Exactas, Universidad Nacional de La Plata, Argentina
| | - A. F. Pasquevich
- Departamento de Física, Facultad de Ciencias Exactas, Universidad Nacional de La Plata, Argentina
| | - J. A. Cowan
- Ohio State Biochemistry Program, The Ohio State University, 100 West 18th Ave, Columbus, OH 43210
- Department of Chemistry, The Ohio State University, 100 West 18th Ave, Columbus, OH 43210
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Wu SP, Bellei M, Mansy SS, Battistuzzi G, Sola M, Cowan JA. Redox chemistry of the Schizosaccharomyces pombe ferredoxin electron-transfer domain and influence of Cys to Ser substitutions. J Inorg Biochem 2011; 105:806-11. [PMID: 21497579 DOI: 10.1016/j.jinorgbio.2011.03.004] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/18/2010] [Revised: 01/29/2011] [Accepted: 03/10/2011] [Indexed: 11/26/2022]
Abstract
Schizosaccharomyces pombe (Sp) ferredoxin contains a C-terminal electron transfer protein ferredoxin domain (etp(Fd)) that is homologous to adrenodoxin. The ferredoxin has been characterized by spectroelectrochemical methods, and Mössbauer, UV-Vis and circular dichroism spectroscopies. The Mössbauer spectrum is consistent with a standard diferric [2Fe-2S](2+) cluster. While showing sequence homology to vertebrate ferredoxins, the E°' and the reduction thermodynamics for etp(Fd) (-0.392 V) are similar to plant-type ferredoxins. Relatively stable Cys to Ser derivatives were made for each of the four bound Cys residues and variations in the visible spectrum in the 380-450 nm range were observed that are characteristic of oxygen ligated clusters, including members of the [2Fe-2S] cluster IscU/ISU scaffold proteins. Circular dichroism spectra were similar and consistent with no significant structural change accompanying these mutations. All derivatives were active in an NADPH-Fd reductase cytochrome c assay. The binding affinity of Fd to the reductase was similar, however, V(max) reflecting rate limiting electron transfer was found to decrease ~13-fold. The data are consistent with relatively minor perturbations of both the electronic properties of the cluster following substitution of the Fe-bond S atom with O, and the electronic coupling of the cluster to the protein.
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Affiliation(s)
- Shu-pao Wu
- Evans Laboratory of Chemistry, Ohio State University, Columbus, OH 43210, USA
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