Max Planck Institute for Terrestrial Microbiology

Publications and Outreach

Get a full list of publications via: [Pubmed] [Google Scholar] [ResearcherID] [Orcid]
Get reprints via: [ResearchGate] or contact me per E-mail

Other Publications • Outreach

Peer-reviewed Research Articles and Reviews

2024

Journal Article

Schann, K.; Bakker, J.; Boinot, M.; Kuschel, P.; He, H.; Nattermann, M.; Paczia, N.; Erb, T. J.; Bar-Even, A.; Wenk, S.: Design, construction and optimization of formaldehyde growth biosensors with broad application in biotechnology. Microbial Biotechnology 17 (7), e14527 (2024)

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Journal Article

Kim, Y.; Lee, S. H.; Gade, P.; Nattermann, M.; Maltseva, N.; Endres, M.; Chen, J.; Wichmann, P.; Hu, Y.; Marchal, D. G. et al.; Yoshikuni, Y.; Erb, T. J.; Gonzalez, R.; Michalska, K.; Joachimiak, A.: Revealing reaction intermediates in one-carbon elongation by thiamine diphosphate/CoA-dependent enzyme family. Communications Chemistry 7 (1) (2024)

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Journal Article

Giaveri, S.; Bohra, N.; Diehl, C.; Yang, H. Y.; Ballinger, M.; Paczia, N.; Glatter, T.; Erb, T. J.: Integrated translation and metabolism in a partially self-synthesizing biochemical network. Science 385 (6705), pp. 174 - 178 (2024)

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Journal Article

Schada v. Borzyskowsi, L.; Lucas, H.; Kremer, K.; Barthel, S.; Pommerenke, B.; Glatter, T.; Paczia, N.; Erhard, B.; Erb, T. J.: Multiple levels of transcriptional regulation control glycolate metabolism in Paracoccus denitrificans. mBio 0, e0152424 (2024)

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Journal Article

Sendker, F. L.; Lo, Y. K.; Heimerl, T.; Bohn, S.; Persson, L. J.; Mais, C.-N.; Sadowska, W.; Paczia, N.; Nußbaum, E.; del Carmen Sánchez Olmos, M. et al.; Forchhammer, K.; Schindler, D.; Erb, T. J.; Benesch, J. L. P.; Marklund, E. G.; Bange, G.; Schuller, J. M.; Hochberg, G. K. A.: Emergence of fractal geometries in the evolution of a metabolic enzyme. Nature 628 (8009), pp. 894 - 900 (2024)

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Journal Article

Gomez, A.; Tinzl, M.; Stoffel, G. M. M.; Westedt, H.; Grubmüller, H.; Erb, T. J.; Vöhringer-Martinez, E.; Stripp, S. T.: Infrared spectroscopy reveals metal-independent carbonic anhydrase activity in crotonyl-CoA carboxylase/reductase. Chemical Science 15 (13), pp. 4960 - 4968 (2024)

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Book Chapter

Erb, T. J.: Bringing Photosynthesis 2.0 to Life. In: Curious Future Insight, pp. 49 - 64 (Ed. Betz, U. A.K.). Springer, Cham (2024)

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Journal Article

Schmidt, F. V.; Schulz, L.; Zarzycki, J.; Prinz, S.; Oehlmann, N. N.; Erb, T. J.; Rebelein, J. G.: Structural insights into the iron nitrogenase complex. Nature Structural & Molecular Biology 31 (1), pp. 150 - 158 (2024)

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2023

Journal Article

Gomez, A.; Erb, T. J.; Grubmüller, H.; Vöhringer-Martinez, E.: Conformational dynamics of the most efficient carboxylase contributes to efficient CO₂ fixation. Journal of Chemical Information and Modeling 63 (24), pp. 7807 - 7815 (2023)

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Journal Article

Nattermann, M.; Wenk, S.; Pfister, P.; He, H.; Lee, S.H.; Szymanski, W.; Guntermann, N.; Zhu, F.; Nickel, L.; Wallner, C. et al.; Zarzycki, J.; Paczia, N.; Gaißert, N.; Franciò, G.; Leitner, W.; Gonzalez, R.; Erb, T. J.: Engineering a new-to-nature cascade for phosphate-dependent formate to formaldehyde conversion in vitro and in vivo. Nature Communications 14 (1), 2682 (2023)

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Journal Article

Marchal, D. G.; Schulz, L.; Schuster, I.; Ivanovska, J.; Paczia, N.; Prinz, S.; Zarzycki, J.; Erb, T. J.: Machine learning-supported enzyme engineering toward improved CO₂-fixation of Glycolyl-CoA carboxylase. ACS Synthetic Biology 12 (12), pp. 3521 - 3530 (2023)

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Journal Article

Erb, T. J.: Photosynthesis 2.0: Realizing new-to-nature CO₂-fixation to overcome the limits of natural metabolism. Cold Spring Harbor Perspectives in Biology, a041669 (2023)

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Journal Article

Lee, S. H.; Chou, A.; Nattermann, M.; Zhu, F.; Clomburg, J. M.; Paczia, N.; Erb, T. J.; Gonzalez, R.: Identification of 2-Hydroxyacyl-CoA synthases with high acyloin condensation activity for orthogonal one-carbon bioconversion. ACS Catalysis 13 (18), pp. 12007 - 12020 (2023)

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Journal Article

Pfister, P.; Diehl, C.; Hammarlund, E.; Carillo, M.; Erb, T. J.: Enhancing the substrate specificity of Clostridium Succinyl-CoA reductase for synthetic biology and biocatalysis. Biochemistry 61 (11), pp. 1786 - 1793 (2023)

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Journal Article

Kremer, K.; Meier, D.; Theis, L.; Miller, S.; Rost-Nasshan, A.; Naing, Y. T.; Zarzycki, J.; Paczia, N.; Serrania, J.; Blumenkamp, P. et al.; Goesmann, A.; Becker, A.; Thanbichler, M.; Hochberg, G. K. A.; Carter, M. S.; Erb, T. J.: Functional degeneracy in Paracoccus denitrificans Pd1222 is coordinated via RamB, which links expression of the Glyoxylate cycle to activity of the Ethylmalonyl-CoA pathway. Applied and Environmental Microbiology 89 (7), e0023823 (2023)

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Journal Article

McLean, R.; Schwander, T.; Diehl, C.; Cortina, N. S.; Paczia, N.; Zarzycki, J.; Erb, T. J.: Exploring alternative pathways for the in vitro establishment of the HOPAC cycle for synthetic CO₂ fixation. Science Advances 9 (24), eadh4299 (2023)

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Journal Article

Recabarren, R.; Tinzl, M.; Saez, D. A.; Gomez, A.; Erb, T. J.; Vöhringer-Martinez, E.: Covalent adduct formation as a strategy for efficient CO₂ fixation in Crotonyl-CoA carboxylases/reductases. ACS Catalysis 13 (9), pp. 6230 - 6241 (2023)

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Journal Article

Schada v. Borzyskowsi, L.; Schulz-Mirbach, H.; Troncoso Castellanos, M.; Severi, F.; Gomez Coronado, P. A.; Paczia, N.; Glatter, T.; Bar-Even, A.; Lindner, S. N.; Erb, T. J.: Implementation of the β-hydroxyaspartate cycle increases growth performance of Pseudomonas putida on the PET monomer ethylene glycol. Metabolic Engineering 76, pp. 97 - 109 (2023)

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Journal Article

Diehl, C.; Gerlinger, P.; Paczia, N.; Erb, T. J.: Synthetic anaplerotic modules for the direct synthesis of complex molecules from CO₂. Nature Chemical Biology 19 (2), pp. 168 - 175 (2023)

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Journal Article

Pfister, P.; Zarzycki, J.; Erb, T. J.: Structural basis for a cork-up mechanism of the intra-molecular Mesaconyl-CoA transferase. Biochemistry 62 (1), pp. 75 - 84 (2023)

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Other Publications

2024

Preprint

Küffner, A. M.; Pommerenke, B.; Kley, L.; Ng, J. Z. Y.; Prinz, S.; Tinzl-Zechner, M.; Claus, P.; Paczia, N.; Zarzycki, J.; Hochberg, G. K. A. et al.; Erb, T. J.: Bottom-up reconstruction of minimal pyrenoids provides insights into the evolution and mechanisms of carbon concentration by EPYC1 proteins. bioRxiv: the preprint server for biology, 2024.06.28.601168 (2024)

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Preprint

Inckemann, R.; Chotel, T.; Brinkmann, C. K.; Burgis, M.; Andreas, L.; Baumann, J.; Sharma, P.; Klose, M.; Barret, J.; Ries, F. et al.; Paczia, N.; Glatter, T.; Mackinder, L.; Willmund, F.; Erb, T. J.: Advancing chloroplast synthetic biology through high-throughput plastome engineering of Chlamydomonas reinhardtii. bioRxiv: the preprint server for biology, 2024.05.08.593163 (2024)

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Preprint

Barthel, S.; Brenker, L.; Diehl, C.; Bohra, N.; Giaveri, S.; Paczia, N.; Erb, T. J.: In vitro transcription-based biosensing of glycolate for prototyping of a complex enzyme cascade. bioRxiv: the preprint server for biology, 2024.04.26.591264 (2024)

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Preprint

Joachimiak, A.; Kim, Y.; Lee, S. H.; Gade, P.; Nattermann, M.; Maltseva, N.; Endres, M.; Chen, J.; Wichmann, P.; Hu, Y. et al.; Marchal, D. G.; Yoshikuni, Y.; Erb, T. J.; Gonzalez, R.; Michalska, K.: Revealing reaction intermediates in one-carbon elongation ThDP/CoA dependent enzyme family. Research Square (2024)

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Preprint

Schada v. Borzyskowsi, L.; Hermann, L.; Kremer, K.; Barthel, S.; Pommerenke, B.; Glatter, T.; Paczia, N.; Bremer, E.; Erb, T. J.: Multiple levels of transcriptional regulation control glycolate metabolism in Paracoccus denitrificans. bioRxiv: the preprint server for biology, 2024.03.11.584432 (2024)

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Preprint

Schulz, L.; Zarzycki, J.; Steinchen, W.; Hochberg, G. K. A.; Erb, T. J.: Layered entrenchment maintains essentiality in protein-protein interactions. bioRxiv: the preprint server for biology, 2024.01.18.576253 (2024)

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2023

Preprint

Giaveri, S.; Bohra, N.; Diehl, C.; Ballinger, M.; Paczia, N.; Glatter, T.; Erb, T. J.: An interdependent metabolic and genetic network shows emergent properties in vitro. bioRxiv: the preprint server for biology, 2023.11.26.568713 (2023)

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Preprint

Gomez, A.; Erb, T. J.; Grubmüller, H.; Vöhringer-Martinez, E.: Conformational dynamics of the most efficient carboxylase contributes to efficient CO₂ fixation. ChemRxiv: the Preprint Server for Chemistry, chemrxiv-2023-xt3rv (2023)

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Preprint

Schann, K.; Bakker, J.; Boinot, M.; Kuschel, P.; He, H.; Nattermann, M.; Erb, T. J.; Bar-Even, A.; Wenk, S.: Design, construction and optimization of formaldehyde growth biosensors with broad application in biotechnology. bioRxiv: the preprint server for biology, 2023.06.29.547045 (2023)

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Preprint

Gerlinger, P.; Angelidou, G.; Paczia, N.; Erb, T. J.: Ketosynthase engineering enhances activity and shifts specificity towards non-native extender units in type I linear polyketide synthase. bioRxiv: the preprint server for biology, 2023.02.16.528826 (2023)

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Preprint

Schmidt, F. V.; Schulz, L.; Zarzycki, J.; Oehlmann, N. N.; Prinz, S.; Erb, T. J.; Rebelein, J. G.: Structural insights into the iron nitrogenase complex. bioRxiv: the preprint server for biology, 2023.05.02.539077 (2023)

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2022

Preprint

Pandi, A.; Adam, D.; Zare, A.; Trinh, V. T.; Schaefer, S. L.; Wiegand, M.; Klabunde, B.; Bobkova, E.; Kushwaha, M.; Foroughijabbari, Y. et al.; Braun, P.; Spahn, C. K.; Preußer, C.; von Strandmann, E. P.; Bode, H. B.; Buttlar, H.; Bertrams, W.; Jung, A. L.; Abendroth, F.; Schmeck, B.; Hummer, G.; Vázquez, O.; Erb, T. J.: Cell-free biosynthesis combined with deep learning accelerates de novo-development of antimicrobial peptides. bioRxiv: the preprint server for biology, 2022.11.19.517184 (2022)

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Preprint

Dronsella, B.; Orsi, E.; Benito-Vaquerizo, S.; Glatter, T.; Bar-Even, A.; Erb, T. J.; Claassens, N. J.: Engineered synthetic one-carbon fixation exceeds yield of the Calvin Cycle. bioRxiv: the preprint server for biology, 2022.10.19.512895 (2022)

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Preprint

DeMirci, H.; Rao, Y.; Stoffel, G. M. M.; Vögeli, B.; Schell, K.; Gomez, A.; Batyuk, A.; Gati, C.; Sierra, R. G.; Hunter, M. S. et al.; Dao, E. H.; Ciftci, H. I.; Hayes, B.; Poitevin, F.; Li, P.-N.; Kaur, M.; Tono, K.; Saez, D. A.; Deutsch, S.; Yoshikuni, Y.; Grubmüller, H.; Erb, T. J.; Vöhringer-Martinez, E.; Wakatsuki, S.: Inter-subunit coupling enables fast CO₂-fixation by reductive carboxylases. bioRxiv: the preprint server for biology, 607101 (2022)

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Preprint

Schada v. Borzyskowsi, L.; Schulz-Mirbach, H.; Troncoso Castellanos, M.; Severi, F.; Gomez Coronado, P. A.; Glatter, T.; Bar-Even, A.; Lindner, S. N.; Erb, T. J.: Implementation of the β-hydroxyaspartate cycle increases growth performance of Pseudomonas putida on the PET monomer ethylene glycol. bioRxiv: the preprint server for biology, 2022.08.08.503134 (2022)

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2021

Preprint

Bouzon, M.; Döring, V.; Dubois, I.; Berger, A.; Stoffel, G. M. M.; Ramirez, L. C.; Meyer, S.; Fouré, M.; Roche, D.; Perret, A. et al.; Erb, T. J.; Bar-Even, A.; Lindner, S. N.: Emergence of NADP⁺-reducing enzymes in Escherichia coli central metabolism via adaptive evolution. bioRxiv: the preprint server for biology, 2021.02.08.430375 (2021)

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2020

Preprint

DeMirci, H.; Tolar, B.; Petriceks, A.; Pal, A.; Yoshikuni, Y.; Saez, D. A.; Murillo-Lopez, J. A.; Rabanal-Leon, W. A.; Vohringer-Martinez, E.; Schwander, T. et al.; Erb, T. J.; Francis, C. A.; Wakatsuki, S.: Structural adaptation of oxygen tolerance in 4-hydroxybutyrl-CoA dehydratase, a key enzyme of archaeal carbon fixation. bioRxiv - The Preprint Server for Biology, 2020.02.05.935528 (2020)

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2019

Preprint

Seah, B. K. B.; Antony, C. P.; Huettel, B.; Zarzycki, J.; Schada v. Borzyskowsi, L.; Erb, T. J.; Kouris, A.; Kleiner, M.; Liebeke, M.; Dubilier, N. et al.; Gruber-Vodicka, H. R.: Sulfur-oxidizing symbionts without canonical genes for autotrophic CO₂ fixation. bioRxiv: the preprint server for biology, 540435, p. 540435 (2019)

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Outreach (Press Releases, Interviews)

Hessenschau
Hessen forscht - Fotosynthese, April 2024
[Film 5:29 min]

Städel Museum, Frankfurt
Gastkommentar, June 2020
[Film 03:41 min.]

3sat
nano - "Künstliche Photosynthese: Rohstoff CO₂?", June 2020
[Film 05:08 min.]

SAT.1
Regionalmagazin - "Forscher verbessern Fotosynthese", July 2019
[Film 03:39 min.]

iBiology
"Realizing Synthetic Carbon Dioxide Fixation", September 2017
[Film 29:05 min.]

3sat
nano - "Besser als die Natur", September 2017
[Film 05:59 min.]

Youtube
Designing a More Efficient System for Harnessing Carbon Dioxide, November 2016
[Film 03:59 min.]

Research focus of our group
Global carbon cycling, July 2014
[International Innovation Article]

Enzyme catalysis
An enzyme reaction in slow motion, November 2013
[ETH News feature]

Physiology of GFAJ-1
Extraterrestrial life remain terrestrial, July 2012
[ETH life article]

BBC Science in action, July 2012
[Radio interview]

Swissinfo, July 2012
[Radio interview]

Laborjournal online, July 2012
[Print interview]

Discovery of novel pathways
The salt in the soup of evolution, January 2011
[U of Freiburg Press release]