IMPRS Principles of Microbial Life

Publications

2025

Journal Article

Yilmaz, S.; Kanis, B.; Hogers, R. A.H.; Benito-Vaquerizo, S.; Kahnt, J.; Glatter, T.; Dronsella, B.; Erb, T. J.; Suarez-Diez, M.; Claassens, N. J.: System-level characterization of engineered and evolved formatotrophic E. coli strains. Synthetic and Systems Biotechnology (2025)

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Journal Article

Orsi, E.; Schulz-Mirbach, H.; Cotton, C. A. R.; Satanowski, A.; Petri, H. M.; Arnold, S. L.; Grabarczyk, N.; Verbakel, R.; Jensen, K. S.; Donati, S. et al.; Paczia, N.; Glatter, T.; Küffner, A. M.; Chotel, T.; Schillmüller, F.; De Maria, A.; He, H.; Lindner, S. N.; Noor, E.; Bar-Even, A.; Erb, T. J.; Nikel, P. I.: Computation-aided designs enable developing auxotrophic metabolic sensors for wide-range glyoxylate and glycolate detection. Nature Communications 16 (1), 2168 (2025)

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Journal Article

Dronsella, B.; Orsi, E.; Schulz-Mirbach, H.; Benito-Vaquerizo, S.; Yilmaz, S.; Glatter, T.; Bar-Even, A.; Erb, T. J.; Claassens, N. J.: One-carbon fixation via the synthetic reductive glycine pathway exceeds yield of the Calvin cycle. Nature Microbiology (2025)

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Preprint

Vignale, F. A.; Sánchez-García, L.; Carrizo, D.; Castillejos Sepúlveda, A.; Taubner, H.; Oriolo, S.; Mitchell, A. L.; Turjanski, A. G.; Klatt, J. M.; Finn, R. D. et al.; Garcia-Alai, M. M.; Farías, M. E.: Seasonal biogeochemical variations in a modern microbialite reef under early Earth-like conditions. bioRxiv: the preprint server for biology, 2025.02.22.639630 (2025)

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Journal Article

Bäcker, N.; Ast, J.; Martorana, D.; Renicke, C.; Berger, J.; Mais, C.-N.; Christ, M.; Stehlik, T.; Heimerl, T.; Wernet, V. et al.; Taxis, C.; Pané-Farré, J.; Bölker, M.; Klatt, J. M.; Sandrock, B.; Schink, K. O.; Bange, G.; Freitag, J.: Peroxisomal core structures segregate diverse metabolic pathways. Nature Communications 16, 1802 (2025)

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Journal Article

Christ, M.; Rubio Elizalde, I.; Weiland, P.; Kern, A.; Iwen, T.; Mais, C.-N.; Pané-Farré, J.; Kiontke, S.; Altegoer, F.; Freitag, J. et al.; Bange, G.: Structural and functional analysis of the lectin-like protein Llp1 secreted by Ustilago maydis upon infection of maize. Journal of Fungi 11 (2), 164 (2025)

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Preprint

Jung, J.; Glatter, T.; Herfurth, M.; Søgaard-Andersen, L.: DdiA, an XRE family transcriptional regulator, regulates a LexA-independent DNA damage response in Myxococcus xanthus. bioRxiv: the preprint server for biology, 2025.02.19.639066 (2025)

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Preprint

Lagares, A.; Krol, E.; Müller, T.; Glatter, T.; Becker, A.: A systems-level insight into PHB-driven metabolic adaptation orchestrated by the PHB-binding transcriptional regulator AniA (PhaR). bioRxiv: the preprint server for biology, 2025.02.17.638283 (2025)

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Journal Article

Zegarra, V.; Weiland, P.; Plitzko, P. A.; Thiery, J.; Czech, L.; Willmund, F.; Bedrunka, P.; Bange, G.: Structural and mechanistic basis for the regulation of the chloroplast signal recognition particle by (p)ppGpp. FEBS Letters (2025)

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Review Article

Case, N. T.; Gurr, S. J.; Fisher, M. C.; Blehert, D. S.; Boone, C.; Casadevall, A.; Chowdhary, A.; Cuomo, C. A.; Currie, C. R.; Denning, D. W. et al.; Ene, I. V.; Fritz-Laylin, L. K.; Gerstein, A. C.; Gow, N. A. R.; Gusa, A.; Iliev, I. D.; James, T. Y.; Jin, H.; Kahmann, R.; Klein, B. S.; Kronstad, J. W.; Ost, K. S.; Peay, K. G.; Shapiro, R. S.; Sheppard, D. C.; Shlezinger, N.; Stajich, J. E.; Stukenbrock, E. H.; Taylor, J. W.; Wright, G. D.; Cowen, L. E.; Heitman, J.; Segre, J. A.: Fungal impacts on Earth’s ecosystems. Nature 638 (8049), pp. 49 - 57 (2025)

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Review Article

Rasor, B. J.; Erb, T. J.: Cell-free systems to mimic and expand metabolism. ACS Synthetic Biology (2025)

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Preprint

Iglesias, J. A.; Colla, D.; Serrangeli, J. S.; Lozano, M. J.; Falduti, O.; Brignoli, D.; Medici, I.; Althabegoiti, M. J.; Lodeiro, A.; Abdian, P. et al.; Paczia, N.; Becker, A.; Soler-Bistué, A.; Pérez-Giménez, J.; Mongiardini, E. J.: Role of Tad Pili during the transition from Planktonic to Biofilm State in <em>Bradyrhizobium diazoefficiens</em> USDA 110. bioRxiv: the preprint server for biology, 2025.01.14.633045 (2025)

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Journal Article

Vaidya, S.; Saha, D.; Rode, D. K. H.; Torrens, G.; Hansen, M. F.; Singh, P. K.; Jelli, E.; Nosho, K.; Jeckel, H.; Göttig, S. et al.; Cava, F.; Drescher, K.: Bacteria use exogenous peptidoglycan as a danger signal to trigger biofilm formation. Nature Microbiology (2025)

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Journal Article

Zdimal, A. M.; Di Dio, G.; Liu, W.; Aftab, T.; Collins, T.; Colin, R.; Shrivastava, A.: Swarming bacteria exhibit developmental phase transitions to establish scattered colonies in new regions. The ISME Journal, wrae263 (2025)

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Journal Article

Lubrano, P.; Smollich, F.; Schramm, T.; Lorenz, E.; Alvarado, A.; Eigenmann, S. C.; Stadelmann, A.; Thavapalan, S.; Waffenschmidt, N.; Glatter, T. et al.; Hoffmann, N.; Müller, J.; Peter, S.; Drescher, K.; Link, H.: Metabolic mutations reduce antibiotic susceptibility of E. coli by pathway-specific bottlenecks. Molecular Systems Biology, pp. 1-20 - 20 (2025)

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Journal Article

Schulz, L.; Zarzycki, J.; Steinchen, W.; Hochberg, G. K. A.; Erb, T. J.: Layered entrenchment maintains essentiality in the evolution of Form I Rubisco complexes. The EMBO Journal 44, pp. 269 - 280 (2025)

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Journal Article

He, Z.; Hou, Y.; Li, Y.; Bei, Q.; Li, X.; Zhu, Y.; Liesack, W.; Rillig, M. C.; Peng, J.: Correction: Increased methane production associated with community shifts towards Methanocella in paddy soils with the presence of nanoplastics. Microbiome 13 (1), 7 (2025)

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Journal Article

Xu, P.; Schumacher, D.; Liu, C.; Harms, A.; Dickmanns, M.; Beck, F.; Plitzko, J. M.; Baumeister, W.; Søgaard-Andersen, L.: In situ architecture of a nucleoid-associated biomolecular co-condensate that regulates bacterial cell division. Proceedings of the National Academy of Sciences of the United States of America 122 (1), e2419610121 (2025)

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2024

Journal Article

Ardpairin, J.; Subkrasae, C.; Dumidae, A.; Pansri, S.; Homkaew, C.; Meesil, W.; Kumchantuek, T.; Phoungpetchara, I.; Dillman, A. R.; Pavesi, C. et al.; Bode, H. B.; Tandhavanant, S.; Thanwisai, A.; Vitta, A.: Symbiotic bacteria associated with entomopathogenic nematodes showed molluscicidal activity against Biomphalaria glabrata, an intermediate host of Schistosoma mansoni. Parasites & Vectors 17 (1), 528 (2024)

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Journal Article

He, Z.; Hou, Y.; Li, Y.; Bei, Q.; Li, X.; Zhu, Y.-G.; Liesack, W.; Rillig, M. C.; Peng, J.: Increased methane production associated with community shifts towards Methanocella in paddy soils with the presence of nanoplastics. Microbiome 12 (1), 259 (2024)

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Journal Article

Kaltschnee, L.; Pravdivtsev, A. N.; Gehl, M.; Huang, G.; Stoychev, G. L.; Riplinger, C.; Keitel, M.; Neese, F.; Hövener, J.-B.; Auer, A. A. et al.; Griesinger, C.; Shima, S.; Glöggler, S.: Parahydrogen-enhanced magnetic resonance identification of intermediates in [Fe]-hydrogenase catalysis. Nature Catalysis 7 (12), pp. 1417 - 1429 (2024)

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Journal Article

Daume, M.; Uhl, M.; Backofen, R.; Randau, L.: RIP-Seq Suggests Translational Regulation by L7Ae in Archaea. mBio 8 (4), e00730-17 (2024)

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Journal Article

Abil, Z.; Giaveri, S.; Erb, T. J.; Rothschild, L. J.: Integrating metabolism and evolution towards the realization of synthetic life. Nature Reviews Bioengineering (2024)

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Journal Article

Seifert-Dávila, W.; Chaban, A.; Baudin, F.; Girbig, M.; Hauptmann, L.; Hoffmann, T.; Duss, O.; Eustermann, S.; Müller, C.: Structural and kinetic insights into tRNA promoter engagement by yeast general transcription factor TFIIIC. Nucleic Acids Research, gkae1174 (2024)

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Journal Article

Sendker, F. L.; Schlotthauer, T. J.; Mais, C.-N.; Lo, Y. K.; Girbig, M.; Bohn, S.; Heimerl, T.; Schindler, D.; Weinstein, A.; Metzger, B. P. H. et al.; Thornton, J. W.; Pillai, A.; Bange, G.; Schuller, J. M.; Hochberg, G. K. A.: Frequent transitions in self-assembly across the evolution of a central metabolic enzyme. Nature Communications 15 (1), 10515 (2024)

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Journal Article

Oh, Z. G.; Robison, T. A.; Loh, D. H.; Ang, W. S. L.; Ng, J. Z. Y.; Li, F.-W.; Gunn, L. H.: Unique biogenesis and kinetics of hornwort Rubiscos revealed by synthetic biology systems. Molecular Plant 17 (12), pp. 1833 - 1849 (2024)

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Journal Article

Zhang, X.; Liu, C.; Gao, Y.; Liu, L.; Zhang, H.: The canalization in domesticated yeast: Metabolic traits develop robustness against Hsp90 stress during the evolutionary process. Green Carbon (2024)

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Preprint

Blöcher, L. P.; Schwabe, J.; Glatter, T.; Søgaard-Andersen, L.: Identification of EcpK, a bacterial tyrosine pseudokinase important for exopolysaccharide biosynthesis in Myxococcus xanthus. bioRxiv: the preprint server for biology, 2024.11.26.625375 (2024)

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Journal Article

Schulz-Mirbach, H.; Wichmann, P.; Satanowski, A.; Meusel, H.; Wu, T.; Nattermann, M.; Burgener, S.; Paczia, N.; Bar-Even, A.; Erb, T. J.: New-to-nature CO₂-dependent acetyl-CoA assimilation enabled by an engineered B12-dependent acyl-CoA mutase. Nature Communications 15, 10235 (2024)

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Journal Article

Gao, Y.; Tan, D. S.; Girbig, M.; Hu, H.; Zhou, X.; Xie, Q.; Yeung, S. W.; Lee, K. S.; Ho, S. Y.; Cojocaru, V. et al.; Yan, J.; Hochberg, G. K. A.; de Mendoza, A.; Jauch, R.: The emergence of Sox and POU transcription factors predates the origins of animal stem cells. Nature Communications 15 (1), 9868 (2024)

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Journal Article

de Vries, S. T.; Köbel, T. S.; Sanal, A.; Schindler, D.: In- & Out-Cloning: plasmid toolboxes for scarless transcription unit and modular Golden Gate acceptor plasmid assembly. Synthetic Biology 9 (1), ysae016 (2024)

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Journal Article

Defelipe, L. A.; Veith, K.; Burastero, O.; Kupriianova, T.; Bento, I.; Skruzny, M.; Kölbel, K.; Uetrecht, C.; Thuenauer, R.; García-Alai, M. M.: Subtleties in Clathrin heavy chain binding boxes provide selectivity among adaptor proteins of budding yeast. Nature Communications 15 (1), 9655 (2024)

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Journal Article

Bozhüyük, K. A. J.; Präve, L.; Kegler, C.; Schenk, L.; Kaiser, S.; Schelhas, C. S.; Shi, Y.-N.; Kuttenlochner, W.; Schreiber, M.; Kandler, J. et al.; Alanjary, M.; Mohiuddin, T. M.; Groll, M.; Hochberg, G. K. A.; Bode, H. B.: Evolution-inspired engineering of nonribosomal peptide synthetases. Science 383 (6689), eadg4320 (2024)

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Preprint

Henriques Pereira, D. P.; Xie, X.; Beyazay, T.; Paczia, N.; Subrati, Z.; Belz, J.; Volz, K.; Tüysüz, H.; Preiner, M.: The dinucleotide structure of NAD enables specific reduction on mineral surfaces. bioRxiv: the preprint server for biology, 2024.10.11.617347 (2024)

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Journal Article

Kargeti, M.; Borah, A.: Metabolic state of bacterial cells: Deciphered through a simple mathematical model. IFAC-PapersOnLine 58 (24), pp. 211 - 215 (2024)

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Journal Article

Čepaitė, R.; Klein, N.; Mikšys, A.; Camara-Wilpert, S.; Ragožius, V.; Benz, F.; Skorupskaitė, A.; Becker, H.; Žvejytė, G.; Steube, N. B. et al.; Hochberg, G. K. A.; Randau, L.; Pinilla-Redondo, R.; Malinauskaitė, L.; Pausch, P.: Structural variation of types IV-A1- and IV-A3-mediated CRISPR interference. Nature Communications 15 (1), 9306 (2024)

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Journal Article

Ivanov, B. S.; Bridges, H. R.; Jarman, O. D.; Hirst, J.: Structure of the turnover-ready state of an ancestral respiratory complex I. Nature Communications 15 (1), 9340 (2024)

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Journal Article

Wenk, S.; Rainaldi, V.; Schann, K.; He, H.; Bouzon, M.; Döring, V.; Lindner, S. N.; Bar-Even, A.: Evolution-assisted engineering of E. coli enables growth on formic acid at ambient CO₂ via the Serine Threonine Cycle. Metabolic Engineering 88, pp. 12 - 24 (2024)

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Journal Article

Effert, J.; Westphalen, M.; Calderari, A.; Shi, Y.-M.; Elamri, I.; Najah, S.; Grün, P.; Li, Y.; Gruez, A.; Weissman, K. J. et al.; Bode, H. B.: Pyrrolizwilline, a unique bacterial alkaloid assembled by a nonribosomal peptide synthetase and non-enzymatic dimerization. Angewandte Chemie International Edition 63 (51), e202411258 (2024)

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Journal Article

Lago-Maciel, A.; Soares, J. C.; Zarzycki, J.; Buchanan, C. J.; Reif-Trauttmansdorff, T.; Schmidt, F. V.; Lometto, S.; Paczia, N.; Schuller, J. M.; Hansen, D. F. et al.; Heller, G. T.; Prinz, S.; Hochberg, G. K. A.; Pierik, A. J.; Rebelein, J. G.: Methylthio-alkane reductases use nitrogenase metalloclusters for carbon-sulfur bond cleavage. bioRxiv: the preprint server for biology, 2024.10.19.619033 (2024)

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Preprint

Segura Munoz, R. R.; Sourjik, V.: Collective dynamics of Escherichia coli growth under near-lethal acid stress. bioRxiv: the preprint server for biology, 2024.10.17.618973 (2024)

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Journal Article

Lebon, C.; Grossmann, S.; Mann, G.; Lindner, F.; Koide, A.; Koide, S.; Diepold, A.; Hantschel, O.: Cytosolic delivery of monobodies using the bacterial type III secretion system inhibits oncogenic BCR: ABL1 signaling. Cell Communication and Signaling 22 (1), 500 (2024)

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Journal Article

He, H.; Gómez-Coronado, P. A.; Zarzycki, J.; Barthel, S.; Kahnt, J.; Claus, P.; Klein, M.; Klose, M.; de Crécy-Lagard, V.; Schindler, D. et al.; Paczia, N.; Glatter, T.; Erb, T. J.: Adaptive laboratory evolution recruits the promiscuity of succinate semialdehyde dehydrogenase to repair different metabolic deficiencies. Nature Communications 15 (1), 8898 (2024)

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Journal Article

Moreira Salgado, J. F.; Herve, V.; Vera, M. A. G.; Tokuda, G.; Brune, A.: Unveiling lignocellulolytic potential: a genomic exploration of bacterial lineages within the termite gut. Microbiome 12 (1), 201 (2024)

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Journal Article

Oklitschek, M.; Carreira, L. A. M.; Muratoğlu, M.; Søgaard-Andersen, L.; Treuner-Lange, A.: Combinatorial control of type IVa pili formation by the four polarized regulators MglA, SgmX, FrzS, and SopA. Journal of Bacteriology 206 (11), e00108-24 (2024)

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Journal Article

Lometto, S.; Sparvoli, D.; Malengo, G.; Heimerl, T.; Hochberg, G. K. A.: The mitochondrial citrate synthase from Tetrahymena thermophila does not form an intermediate filament. European Journal of Protistology 96, 126121 (2024)

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Journal Article

Nan, J.; Peng, X.; Plümper, O.; ten Have, I. C.; Lu, J.-G.; Liu, Q.-B.; Li, S.-L.; Hu, Y.; Liu, Y.; Shen, Z. et al.; Yao, W.; Tao, R.; Preiner, M.; Luo, Y.: Unraveling abiotic organic synthesis pathways in the mafic crust of mid-ocean ridges. Proceedings of the National Academy of Sciences of the United States of America 121 (43), e2308684121 (2024)

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Journal Article

Sanchez-Londono, M.; Rust, S.; Hernández-Tamayo, R.; Gomes-Filho, J.; Thanbichler, M.; Randau, L.: Visualization of Type IV-A1 CRISPR-mediated repression of gene expression and plasmid replication. Nucleic Acids Research 52 (20), pp. 12592 - 12603 (2024)

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Journal Article

Xue, S.; Yi, X.; Peng, J.; Bak, F.; Zhang, L.; Duan, G.; Liesack, W.; Zhu, Y.: Fulvic acid enhances nitrogen fixation and retention in paddy soils through microbial-coupled carbon and nitrogen cycling. Environmental Science & Technology 58 (42), pp. 18777 - 18787 (2024)

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Review Article

Menard, J.; Diep, P.; Sheikh, F.; Escobar, A.; Dykstra, C. B.; Sajtovich, V. A.; Ahmadi, A.; Bodyreva, E.; Boucinha, A.; Chandrasekharan, S. et al.; Duan, J.; Emond, C.; Lu, T.; McLean, I.; Morse, L.; Serra, D.; Stancescu, A.; Suresh, S.; Ingalls, B. P.: Synthetic biology education and pedagogy: a review of evolving practices in a growing discipline. Frontiers in Education 9 (2024)

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Journal Article

Jiang, S.; Çelen, G.; Glatter, T.; Niederholtmeyer, H.; Yuan, J.: A cell-free system for functional studies of small membrane proteins. Journal of Biological Chemistry 300 (11), 107850 (2024)

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Review Article

Freitag, J.; Stehlik, T.; Bange, G.: Mitochondria, peroxisomes and beyond—How dual targeting regulates organelle tethering. Contact 7 (2024)

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Journal Article

Bischoff, A.; Ortelt, J.; Dünschede, B.; Zegarra, V.; Bedrunka, P.; Bange, G.; Schünemann, D.: The role of chloroplast SRP54 domains and its C-terminal tail region in post- and co-translational protein transport in vivo. Journal of Experimental Botany 75 (18), pp. 5734 - 5749 (2024)

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Preprint

Zdimal, A. M.; Di Dio, G.; Liu, W.; Aftab, T.; Collins, T.; Colin, R.; Shrivastava, A.: Swarming bacteria exhibit developmental phase transitions to establish scattered colonies in new regions. bioRxiv: the preprint server for biology, 2024.09.24.614802 (2024)

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Preprint

Di Dio, G.; Colin, R.: Active segregation in binary mixtures under flow. bioRxiv: the preprint server for biology, 2024.09.20.614032 (2024)

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Journal Article

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. Synthetic Biology, ysae013 (2024)

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Journal Article

Garg, S.; Hochberg, G. K. A.: A general substitution matrix for structural phylogenetics. bioRxiv: the preprint server for biology, 2024.09.19.613819 (2024)

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Journal Article

Scorza, L. C. T.; Zielinski, T.; Kalita, I.; Lepore, A.; El Karoui, M.; Millar, A. J.: Daily life in the Open Biologist's second job, as a Data Curator. Wellcome Open Research 9 (523) (2024)

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Journal Article

Pozhydaieva, N.; Billau, F. A.; Wolfram-Schauerte, M.; Ramírez Rojas, A. A.; Paczia, N.; Schindler, D.; Höfer, K.: Temporal epigenome modulation enables efficient bacteriophage engineering and functional analysis of phage DNA modifications. PLOS Genetics 20 (9), e1011384 (2024)

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Journal Article

Pöhl, S.; Giacomelli, G.; Meyer, F. M.; Kleeberg, V.; Cohen, E. J.; Biboy, J.; Rosum, J.; Glatter, T.; Vollmer, W.; van Teeseling et al.; F., M. C.; Heider, J.; Bramkamp, M.; Thanbichler, M.: An outer membrane porin-lipoprotein complex modulates elongasome movement to establish cell curvature in Rhodospirillum rubrum. Nature Communications 15 (1), 7616 (2024)

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Journal Article

Novák, J.; Treitli, S. C.; Füssy, Z.; Záhonová, K.; Hamplová, B.; Hrdá, Š.; Hampl, V.: V9 Hypervariable Region Metabarcoding Primers for Euglenozoa and Metamonada. Environmental DNA 6 (5), e70022 (2024)

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Journal Article

Touray, M.; Cimen, H.; Bode, E.; Bode, H. B.; Hazir, S.: Effects of Xenorhabdus and Photorhabdus bacterial metabolites on the ovipositional activity of Aedes albopictus. Journal of Pest Science 97 (4), pp. 2203 - 2215 (2024)

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Preprint

Seifert-Davila, W.; Chaban, A.; Baudin, F.; Girbig, M.; Hauptmann, L.; Hoffmann, T.; Duss, O.; Eustermann, S.; Muller, C. W.: Structural and kinetic insights into tRNA promoter engagement by yeast general transcription factor TFIIIC. bioRxiv: the preprint server for biology, 2024.08.28.610035 (2024)

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Journal Article

Su, L.; Huber, E. M.; Westphalen, M.; Gellner, J.; Bode, E.; Köbel, T.; Grün, P.; Alanjary, M. M.; Glatter, T.; Cirnski, K. et al.; Müller, R.; Schindler, D.; Groll, M.; Bode, H. B.: Isofunctional but structurally different methyltransferases for dithiolopyrrolone diversification. Angewandte Chemie International Edition, e202410799 (2024)

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Review Article

Yilmaz Demirel, N.; Weber, M.; Höfer, K.: Bridging the gap: RNAylation conjugates RNAs to proteins. Biochimica et Biophysica Acta: BBA 1871 (8), 119826 (2024)

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Preprint

Orsi, E.; Schulz-Mirbach, H.; Cotton, C. A.R.; Satanowski, A.; Petri, H.; Arnold, S. L.; Grabarczyk, N.; Verbakel, R.; Jensen, K. S.; Donati, S. et al.; Paczia, N.; Glatter, T.; Küffner, A. M.; Chotel, T.; Schillmueller, F.; De Maria, A.; He, H.; Lindner, S. N.; Noor, E.; Bar-Even, A.; Erb, T. J.; Nikel, P. I.: Expanding the biotechnological scope of metabolic sensors through computation-aided designs. bioRxiv: the preprint server for biology, 2024.08.23.609350 (2024)

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Journal Article

Scarinci, G.; Ariens, J.-L.; Angelidou, G.; Schmidt, S.; Glatter, T.; Paczia, N.; Sourjik, V.: Enhanced metabolic entanglement emerges during the evolution of an interkingdom microbial community. Nature Communications 15 (1), 7238 (2024)

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Preprint

Wang, L.; Malengo, G.; Sanches Medeiros, A.; Chen, X.; Teteneva, N.; Sierra González, S.; Hammond, M.; Sourjik, V.: A toolbox of FRET-based c-di-GMP biosensors and its FRET-To-Sort application for genome-wide mapping of the second messenger regulatory network. bioRxiv: the preprint server for biology, 2024.08.21.609041 (2024)

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Journal Article

Brück, M.; Köbel, T. S.; Dittmar, S.; Ramírez Rojas, A. A.; Georg, J.; Berghoff, B. A.; Schindler, D.: A library-based approach allows systematic and rapid evaluation of seed region length and reveals design rules for synthetic bacterial small RNAs. iScience 27 (9), 110774 (2024)

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Journal Article

Arias-Rojas, A.; Arifah, A. Q.; Angelidou, G.; Alshaar, B.; Schombel, U.; Forest, E.; Frahm, D.; Brinkmann, V.; Paczia, N.; Beisel, C. L. et al.; Gisch, N.; Iatsenko, I.: MprF-mediated immune evasion is necessary for Lactiplantibacillus plantarum resilience in the Drosophila gut during inflammation. PLOS Pathogens 20 (8), e1012462 (2024)

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Journal Article

Präve, L.; Kuttenlochner, W.; Tabak, W. W.A.; Langer, C.; Kaiser, M.; Groll, M.; Bode, H. B.: Bioengineering of syrbactin megasynthetases for immunoproteasome inhibitor production. Chem (2024)

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Journal Article

Oehlmann, N. N.; Schmidt, F. V.; Herzog, M.; Goldman, A. L.; Rebelein, J. G.: The iron nitrogenase reduces carbon dioxide to formate and methane under physiological conditions: A route to feedstock chemicals. Science Advances 10 (33), eado7729 (2024)

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Journal Article

Aydin, E.; Schreiner, S.; Bohme, J.; Keil, B.; Weber, J.; Zunar, B.; Glatter, T.; Kilchert, C.: DEAD-box ATPase Dbp2 is the key enzyme in an mRNP assembly checkpoint at the 3'-end of genes and involved in the recycling of cleavage factors. Nature Communications 15, 6829 (2024)

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Journal Article

Brenzinger, K.; Glatter, T.; Hakobyan, A.; Meima-Franke, M.; Zweers, H.; Liesack, W.; Bodelier, P. L. E.: Exploring modes of microbial interactions with implications for methane cycling. FEMS Microbiology Ecology 100 (9), fiae112 (2024)

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Journal Article

Schulz-Mirbach, H.; Krüsemann, J. L.; Andreadaki, T.; Nerlich, J. N.; Mavrothalassiti, E.; Boecker, S.; Schneider, P.; Weresow, M.; Abdelwahab, O.; Paczia, N. et al.; Dronsella, B.; Erb, T. J.; Bar-Even, A.; Klamt, S.; Lindner, S. N.: Engineering new-to-nature biochemical conversions by combining fermentative metabolism with respiratory modules. Nature Communications 15 (1), 6725 (2024)

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Journal Article

Protasov, E.; Reeh, H.; Liu, P.; Poehlein, A.; Platt, K.; Heimerl, T.; Herve, V.; Daniel, R.; Brune, A.: Genome reduction in novel, obligately methyl-reducing Methanosarcinales isolated from arthropod guts (Methanolapillus gen. nov. and Methanimicrococcus). FEMS Microbiology Ecology 100 (9), fiae111 (2024)

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Journal Article

Cortés-Martín, A.; Buttimer, C.; Pozhydaieva, N.; Hille, F.; Shareefdeen, H.; Bolocan, A. S.; Draper, L. A.; Shkoporov , A. N.; Franz , C. M. A. P.; Höfer, K. et al.; Ross, P. R.; Hill, C.: Isolation and characterization of Septuagintavirus; a novel clade of Escherichia coli phages within the subfamily Vequintavirinae. Microbiology Spectrum 12 (9), e00592-24 (2024)

MPG.PuRe

Preprint

Lebon, C.; Grossmann, S.; Mann, G.; Lindner, F.; Koide, A.; Koide, S.; Diepold, A.; Hantschel, O.: Cytosolic delivery of monobodies using the bacterial type III secretion system inhibits oncogenic BCR::ABL1 signaling. Research Square, https://doi.org/10.21203/rs.3.rs-4705983/v1 (2024)

MPG.PuRe

Journal Article

Salgado, J. F. M.; Premkrishnan, B. N. V.; Oliveira, E. L.; Vettath, V. K.; Goh, F. G.; Hou, X.; Drautz-Moses, D. I.; Cai, Y.; Schuster, S. C.; Junqueira, A. C. M.: The dynamics of the midgut microbiome in aedes aegypti during digestion reveal putative symbionts. PNAS Nexus 3 (8), pgae317 (2024)

MPG.PuRe

Journal Article

Schlimpert, S.; Thanbichler, M.: Editorial overview: Rise of the bacterial nanomachines. Current Opinion in Microbiology 80, 102515 (2024)

MPG.PuRe

Journal Article

Sourjik, V.; Patil, K. R.: Editorial overview: Systems and synthetic biology of microbial cells and communities. Current Opinion in Microbiology 80, 102517 (2024)

MPG.PuRe

Journal Article

Peña-Diaz, P.; Braymer, J. J.; Vacek, V.; Zelená, M.; Lometto, S.; Mais, C.-N.; Hrdý, I.; Treitli, S. C.; Hochberg, G. K. A.; Py, B. et al.; Lill, R.; Hampl, V.: Characterization of the SUF FeS cluster synthesis machinery in the amitochondriate eukaryote Monocercomonoides exilis. Current Biology 34 (17), S0960-9822(24)00921-7, pp. 3855 - 3865.e7 (2024)

MPG.PuRe

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)

MPG.PuRe

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)

MPG.PuRe

Journal Article

Böhm, C. V.; Inckemann, R.; Burgis, M.; Baumann, J.; Brinkmann, C. K.; Lipinska, K. E.; Gilles, S.; Freudigmann, J.; Seiler, V. N.; Clark, L. G. et al.; Jewett, M. C.; Voll, L. M.; Niederholtmeyer, H.: Chloroplast Cell-Free Systems from Different Plant Species as a Rapid Prototyping Platform. ACS Synthetic Biology 13 (8), pp. 2412 - 2424 (2024)

MPG.PuRe

Journal Article

Pérez-Burgos, M.; Herfurth, M.; Kaczmarczyk, A.; Harms, A.; Huber, K.; Jenal, U.; Glatter, T.; Søgaard-Andersen, L.: A deterministic, c-di-GMP-dependent program ensures the generation of phenotypically similar, symmetric daughter cells during cytokinesis. Nature Communications 15 (1), 6014 (2024)

MPG.PuRe

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)

MPG.PuRe

Preprint

Liu, Y.; Karmakar, R.; Steinchen, W.; Mukherjee, S.; Bange, G.; Schafer, L. V.; Thanbichler, M.: Membrane binding properties of the cytoskeletal protein bactofilin. bioRxiv: the preprint server for biology, 2024.06.14.599034 (2024)

MPG.PuRe

Journal Article

Bischoff, A.; Ortelt, J.; Dünschede, B.; Zegarra, V.; Bedrunka, P.; Bange, G.; Schünemann, D.: The role of chloroplast SRP54 domains and its C-terminal tail region in post- and cotranslational protein transport in vivo. Journal of Experimental Botany, erae293 (2024)

MPG.PuRe

Journal Article

Dornes, A.; Schmidt, L. M.; Mais, C.-N.; Hook, J. C.; Pané-Farré, J.; Kressler, D.; Thormann, K.; Bange, G.: Polar confinement of a macromolecular machine by an SRP-type GTPase. Nature Communications 15 (1), 5797 (2024)

MPG.PuRe

Journal Article

Gemmecker, Y.; Winiarska, A.; Hege, D.; Kahnt, J.; Seubert, A.; Szaleniec, M.; Heider, J.: A pH-dependent shift of redox cofactor specificity in a benzyl alcohol dehydrogenase of aromatoleum aromaticum EbN1. Applied Microbiology and Biotechnology 108, 410 (2024)

MPG.PuRe

Journal Article

Szymanski, E. A.; Schindler, D.: A (metaphorical) moment for RNA-based biotechnology?: Current metaphors for RNA limit development of and public communication about RNA-based technologies. EMBO Reports 25, pp. 3182 - 3186 (2024)

MPG.PuRe

Preprint

Sendker, F. L.; Schlotthauer, T. J.; Mais, C.-N.; Lo, Y. K.; Girbig, M.; Bohn, S.; Heimerl, T.; Schindler, D.; Weinstein, A.; Metzger, B. P. et al.; Thornton, J. W.; Pillai, A.; Bange, G.; Schuller, J.; Hochberg, G. K. A.: Frequent transitions in self-assembly across the evolution of a central metabolic enzyme. bioRxiv: the preprint server for biology, 2024.07.05.602260 (2024)

MPG.PuRe

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 15 (8), e0152424 (2024)

MPG.PuRe

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)

MPG.PuRe

Preprint

Ren, M.; Li, D.; Addison, H. G.; Noteborn, W. E. M.; Andeweg, E. H.; Glatter, T.; de Winde, J. H.; Rebelein, J. G.; Lamers, M. H.; Schada von Borzyskowski, L.: Promiscuous NAD-dependent dehydrogenases enable efficient bacterial growth on the PET monomer ethylene glycol. bioRxiv: the preprint server for biology, 2024.06.28.601223 (2024)

MPG.PuRe

Preprint

Ermoli, F.; Spahn, C. K.; Glatter, T.; Diepold, A.: Yersinia actively downregulates type III secretion and adhesion at higher cell densities. bioRxiv, 2024.06.27.601021 (2024)

MPG.PuRe

Preprint

Corrao, M.; He, H.; Liebermeister, W.; Noor, E.: A compact model of Escherichia coli core and biosynthetic metabolism. arXiv, arXiv:2406.16596 (2024)

MPG.PuRe

Preprint

de Vries, S. T.; Koebel, T. S.; Sanal, A.; Schindler, D.: In- & Out-Cloning: Plasmid toolboxes for scarless transcription unit and modular Golden Gate acceptor plasmid assembly. bioRxiv: the preprint server for biology, 2024.06.22.600171 (2024)

MPG.PuRe