Publications of Steffen Klamt

Journal Article (103)

2022
Journal Article
Behrendt, G., Frohwitter, J., Vlachonikolou, M., Klamt, S., & Bettenbrock, K. (2022)Zymo-Parts: A Golden Gate Modular Cloning Toolbox for Heterologous Gene Expression in Zymomonas mobilisACS Synthetic Biology, 11 (11), 3855–3864doi: 10.1021/acssynbio.2c00428.
Journal Article
Boecker, S., Espinel-Rios, S., Bettenbrock, K., & Klamt, S. (2022)Enabling anaerobic growth of Escherichia coli on glycerol in defined minimal medium using acetate as redox sinkMetabolic Engineering, 73, 50–57doi: 10.1016/j.ymben.2022.05.006.
Journal Article
Espinel-Rios, S., Bettenbrock, K., Klamt, S., & Findeisen, R. (2022)Maximizing batch fermentation efficiency by constrained model-based optimization and predictive control of adenosine triphosphate turnoverAIChE-Journal, 68 (4), e17555doi: 10.1002/aic.17555.
Journal Article
Klamt, S. & Kamp von, A. (2022)Analyzing and Resolving Infeasibility in Flux Balance Analysis of Metabolic NetworksMetabolites, 12 (7), 585doi: 10.3390/metabo12070585.
Journal Article
Mahour, R., Lee, J. W., Grimpe, P., Boecker, S., Grote, V., Klamt, S., Seidel-Morgenstern, A., Rexer, T., & Reichl, U. (2022)Cell‐free multi‐enzyme synthesis and purification of uridine diphosphate galactoseChemBioChem, 23 (2), e202100361doi: 10.1002/cbic.202100361.
Journal Article
Schneider, P., Bekiaris, P. S., Kamp von, A., & Klamt, S. (2022)StrainDesign: a Comprehensive Python Package for Computational Design of Metabolic NetworksBioinformatics, 38 (21), 4981–4983doi: 10.1093/bioinformatics/btac632.
Journal Article
Thiele, S., Kamp von, A., Bekiaris, P. S., Schneider, P., & Klamt, S. (2022)CNApy: a CellNetAnalyzer GUI in Python for Analyzing and Designing Metabolic NetworksBioinformatics, 38 (5), 1467–1469doi: 10.1093/bioinformatics/btab828 .
2021
Journal Article
Bekiaris, P. S. & Klamt, S. (2021)Designing microbial communities to maximize the thermodynamic driving force for the production of chemicalsPLoS Computational Biology, 17 (6), e1009093doi: 10.1371/journal.pcbi.1009093 .
Journal Article
Boecker, S., Harder, B.-J., Kutscha, R., Pflügl, S., & Klamt, S. (2021)Increasing ATP turnover boosts productivity of 2,3-butanediol synthesis in Escherichia coliMicrobial Cell Factories, 20, 63doi: 10.1186/s12934-021-01554-x.
Journal Article
Boecker, S., Slaviero, G., Schramm, T., Szymanski, W., Steuer , R., Link, H., & Klamt, S. (2021)Deciphering the physiological response of Escherichia coli under high ATP demandMolecular Systems Biology, 17, e10504doi: 10.15252/msb.202110504.
Journal Article
Novak, K., Neuendorf, C. S., Kofler, I., Kieberger, N., Klamt, S., & Pflügl, S. (2021)Blending industrial blast furnace gas with H 2 enables Acetobacterium woodii to efficiently co-utilize CO, CO2 and H2Bioresource Technology, 323, 124573doi: 10.1016/j.biortech.2020.124573.
Journal Article
Schneider, P., Radhakrishnan, M., & Klamt, S. (2021)Systematizing the different notions of growth-coupled product synthesis and a single framework for computing corresponding strain designsBiotechnology Journal, 16, 2100236doi: 10.1002/biot.202100236.
2020
Journal Article
Bekiaris, P. S. & Klamt, S. (2020)Automatic construction of metabolic models with enzyme constraintsBMC Bioinformatics, 21, 19doi: 10.1186/s12859-019-3329-9.
Journal Article
Kamp von, A. & Klamt, S. (2020)MEMO: A Method for Computing Metabolic Modules for Cell-Free Production SystemsACS Synthetic Biology, 9 (3), 556–566doi: 10.1021/acssynbio.9b00434.
Journal Article
Klamt, S., Mahadevan, R., & Kamp von, A. (2020)Speeding up the core algorithm for the dual calculation of minimal cut sets in large metabolic networksBMC Bioinformatics, (21), 510doi: 10.1186/s12859-020-03837-3.
Journal Article
Lieven, C., Beber, M. E., Olivier, B. G., Bergmann, F. T., Ataman, M., Babaei, P., Bartell, J. A., Blank, L. M., Chauhan, S., Correia, K., Diener, C., Dräger, A., Ebert, B. E., Edirisinghe, J. N., Faria, J. P., Feist, A. M., Fengos, G., Fleming, R. M. T., García-Jiménez, B., Hatzimanikatis, V., van Helvoirt, W., Henry, C. S., Hermjakob, H., Herrgård, M. J., Kaafarani, A., Kim, H. U., King, Z., Klamt, S., Klipp, E., Koehorst, J. J., König, M., Lakshmanan, M., Lee, D.-Y., Lee, S. Y., Lee, S., Lewis, N. E., Liu, F., Ma, H., Machado, D., Mahadevan, R., Maia, P., Mardinoglu, A., Medlock, G. L., Monk, J. M., Nielsen, J., Nielsen, L. K., Nogales, J., Nookaew, I., Palsson, B. O., Papin, J. A., Patil, K. R., Poolman, M., Price, N. D., Resendis-Antonio, O., Richelle, A., Rocha, I., Sánchez, B. J., Schaap, P. J., Malik Sheriff, R. S., Shoaie, S., Sonnenschein, N., Teusink, B., Vilaça, P., Vik, J. O., Wodke, J. A. H., Xavier, J. C., Yuan, Q., Zakhartsev, M., & Zhang, C. (2020)MEMOTE for standardized genome-scale metabolic model testingNature Biotechnology, 38, 272–276doi: 10.1038/s41587-020-0446-y.
Journal Article
Schneider, P., Kamp von, A., & Klamt, S. (2020)An extended and generalized framework for the calculation of metabolic intervention strategies based on minimal cut setsPLoS Computational Biology, 16 (7), e1008110doi: 10.1371/journal.pcbi.1008110.
Journal Article
Zahoor, A., Messerschmidt, K., Boecker, S., & Klamt, S. (2020)ATPase-based implementation of enforced ATP wasting in Saccharomyces cerevisiae for improved ethanol productionBiotechnology for Biofuels, (13), 185doi: 10.1186/s13068-020-01822-9.
2019
Journal Article
Boecker, S., Zahoor, A., Schramm, T., Link, H., & Klamt, S. (2019)Broadening the Scope of Enforced ATP Wasting as a Tool for Metabolic Engineering in Escherichia coli.Biotechnology Journal, 14 (9), 1800438doi: 10.1002/biot.201800438.
Journal Article
Klamt, S., Kamp von, A., & Harder, B.-J. (2019)Computergestütztes Design mikrobieller ZellfabrikenBiospektrum, 25 (2), 156–158doi: 10.1007/s12268-019-1015-0.
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