Publications of Daniel Schindler

Sendker, Franziska Luisa, Schlotthauer, Tabea J., Mais, Christopher-Nils, Lo, Yat Kei, Girbig, Mathias, Bohn, Stefan, Heimerl, Thomas, Schindler, Daniel, Weinstein, Arielle, Metzger, Brian P. H., Thornton, Joseph W., Pillai, Arvind, Bange, Gert, Schuller, Jan M. and Hochberg, Georg K. A.: (2024) Frequent transitions in self-assembly across the evolution of a central metabolic enzyme, Nature Communications, London, Nature Publishing Group, 15 (1).

de Vries, Stijn T., Köbel, Tania S., Sanal, Ahmet and Schindler, Daniel: (2024) In- & Out-Cloning: plasmid toolboxes for scarless transcription unit and modular Golden Gate acceptor plasmid assembly, Synthetic Biology, Oxford, Oxford University Press, 9 (1).

He, Hai, Gómez-Coronado, Paul A., Zarzycki, Jan, Barthel, Sebastian, Kahnt, Jörg, Claus, Peter, Klein, Moritz, Klose, Melanie, de Crécy-Lagard, Valérie, Schindler, Daniel, Paczia, Nicole, Glatter, Timo and Erb, Tobias J.: (2024) Adaptive laboratory evolution recruits the promiscuity of succinate semialdehyde dehydrogenase to repair different metabolic deficiencies, Nature Communications, London, Nature Publishing Group, 15 (1).

Pozhydaieva, Nadiia, Billau, Franziska Anna, Wolfram-Schauerte, Maik, Ramírez Rojas, Adán Andrés, Paczia, Nicole, Schindler, Daniel and Höfer, Katharina: (2024) Temporal epigenome modulation enables efficient bacteriophage engineering and functional analysis of phage DNA modifications, PLOS Genetics, San Francisco, CA, Public Library of Science, 20 (9).

Su, Li, Huber, Eva M., Westphalen, Margaretha, Gellner, Jonas, Bode, Edna, Köbel, Tania, Grün, Peter, Alanjary, Mohammad M., Glatter, Timo, Cirnski, Katarina, Müller, Rolf, Schindler, Daniel, Groll, Michael and Bode, Helge B.: (2024) Isofunctional but structurally different methyltransferases for dithiolopyrrolone diversification, Angewandte Chemie International Edition, Weinheim, Wiley-VCH, August.

Brück, Michel, Köbel, Tania S., Dittmar, Sophie, Ramírez Rojas, Adán Andrés, Georg, Jens, Berghoff, Bork A. and Schindler, Daniel: (2024) A library-based approach allows systematic and rapid evaluation of seed region length and reveals design rules for synthetic bacterial small RNAs, iScience, Amsterdam ; Bosten ; London ; New York ; Oxford ; Paris ; Philadelphia ; San Diego ; St. Louis, Elsevier, 27 (9).

Szymanski, Erika A and Schindler, Daniel: (2024) A (metaphorical) moment for RNA-based biotechnology?: Current metaphors for RNA limit development of and public communication about RNA-based technologies, EMBO Reports, Oxford, UK, Published for EMBO by Oxford University Press, 25, July, pp. 3182–3186.

Ramming, Lea, Stukenberg, Daniel, Sanchez Olmos, Maria del Carmen, Glatter, Timo, Becker, Anke and Schindler, Daniel: (2024) Rationally designed chromosome fusion does not prevent rapid growth of Vibrio natriegens, Communications Biology, London, Springer Nature, 7 (1).

Lindeboom, Timon Alexander, Sanchez Olmos, Maria del Carmen, Schulz, Karina, Brinkmann, Cedric K., Ramírez Rojas, Adán Andrés, Hochrein, Lena and Schindler, Daniel: (2024) An optimized genotyping workflow for identifying highly SCRaMbLEd synthetic yeasts, ACS Synthetic Biology, Washington, D.C., American Chemical Society, 13 (4), pp. 1116–1127.

Sendker, Franziska Luisa, Lo, Yat Kei, Heimerl, Thomas, Bohn, Stefan, Persson, Louise J., Mais, Christopher-Nils, Sadowska, Wiktoria, Paczia, Nicole, Nußbaum, Eva, del Carmen Sánchez Olmos, María, Forchhammer, Karl, Schindler, Daniel, Erb, Tobias J., Benesch, Justin L. P., Marklund, Erik G., Bange, Gert, Schuller, Jan M. and Hochberg, Georg K. A.: (2024) Emergence of fractal geometries in the evolution of a metabolic enzyme, Nature, London, Nature Publishing Group, 628 (8009), pp. 894–900.

Ramírez Rojas, Adán Andrés, Brinkmann, Cedric K., Köbel, Tania S. and Schindler, Daniel: (2024) DuBA.flow─A low-cost, long-read amplicon sequencing workflow for the validation of synthetic DNA constructs, ACS Synthetic Biology, Washington, D.C., American Chemical Society, January.

Cheng, Li, Zhao, Shijun, Li, Tianyi, Hou, Sha, Luo, Zhouqing, Xu, Jinsheng, Yu, Wenfei, Jiang, Shuangying, Monti, Marco, Schindler, Daniel, Zhang, Weimin, Hou, Chunhui, Ma, Yingxin, Cai, Yizhi, Boeke, Jef D. and Dai, Junbiao: (2024) Large-scale genomic rearrangements boost SCRaMbLE in Saccharomyces cerevisiae, Nature Communications, London, Nature Publishing Group, 15 (1).

Schindler, Daniel, Walker, Roy S.K. and Cai, Yizhi: (2024) Methodological advances enabled by the construction of a synthetic yeast genome, Cell Reports Methods, Amsterdam, The Netherlands, Elsevier, 4 (4).

Philipp, N., Brinkmann, C. K., Georg, J., Schindler, D. and Berghoff, B. A.: (2023) DIGGER-Bac: prediction of seed regions for high-fidelity construction of synthetic small RNAs in bacteria, Bioinformatics, Oxford, Oxford University Press, 39 (5).

Abramczyk, Dariusz, Sanchez Olmos, Maria del Carmen, Ramírez Rojas, Adán Andrés, Schindler, Daniel, Robertson, Daniel, McColm, Stephen, Marston, Adele L. and Barlow, Paul N.: (2023) A supernumerary synthetic chromosome in Komagataella phaffii as a repository for extraneous genetic material, Microbial Cell Factories, BioMed Central, 22 (1).

Luo, Shanshan, Diehl, Christoph, He, Hai, Bae, YoungJun, Klose, Melanie, Claus, Peter, Cortina, Nina Socorro, Fernandez, Celia Alvarez, Schulz-Mirbach, Helena Anna Maria, McLean, Richard, Ramírez Rojas, Adán Andrés, Schindler, Daniel, Paczia, Nicole and Erb, Tobias J.: (2023) Construction and modular implementation of the THETA cycle for synthetic CO₂ fixation, Nature Catalysis, New York, Nature Publishing Group, 6 (12), pp. 1228–1240.

Schindler, Daniel, Walker, Roy S.K., Jiang, Shuangying, Brooks, Aaron N., Wang, Yun, Müller, Carolin A., Cockram, Charlotte, Luo, Yisha, García, Alicia, Schraivogel, Daniel, Mozziconacci, Julien, Pena, Noah, Assari, Mahdi, Olmos, Sánchez, Carmen, María del, Zhao, Yu, Ballerini, Alba, Blount, Benjamin A., Cai, Jitong, Ogunlana, Lois, Liu, Wei, Jönsson, Katarina, Abramczyk, Dariusz, Garcia-Ruiz, Eva, Turowski, Tomasz W., Swidah, Reem, Ellis, Tom, Pan, Tao, Antequera, Francisco, Shen, Yue, Nieduszynski, Conrad A., Koszul, Romain, Dai, Junbiao, Steinmetz, Lars M., Boeke, Jef D. and Cai, Yizhi: (2023) Design, construction, and functional characterization of a tRNA neochromosome in yeast, Cell, Cambridge, Mass., Cell Press, 186 (24), pp. 5237–5253.e22.

Shen, Yue, Gao, Feng, Wang, Yun, Wang, Yuerong, Zheng, Ju, Gong, Jianhui, Zhang, Jintao, Luo, Zhouqing, Schindler, Daniel, Deng, Yang, Ding, Weichao, Lin, Tao, Swidah, Reem, Zhao, Hongcui, Jiang, Shuangying, Zeng, Cheng, Chen, Shihong, Chen, Tai, Wang, Yong, Luo, Yisha, Mitchell, Leslie, Bader, Joel S., Zhang, Guojie, Shen, Xia, Wang, Jian, Fu, Xian, Dai, Junbiao, Boeke, Jef D., Yang, Huanming, Xu, Xun and Cai, Yizhi: (2023) Dissecting aneuploidy phenotypes by constructing Sc2.0 chromosome VII and SCRaMbLEing synthetic disomic yeast, Cell genomics, Amsterdam, Elsevier, 3 (11).

Steube, Niklas, Moldenhauer, Marcus, Weiland, Paul, Saman, Dominik, Kilb, Alexandra, Ramírez Rojas, Adán Andrés, Garg, Sriram, Schindler, Daniel, Graumann, Peter L., Benesch, Justin L. P., Bange, Gert, Friedrich, Thomas and Hochberg, Georg K. A.: (2023) Fortuitously compatible protein surfaces primed allosteric control in cyanobacterial photoprotection, Nature Ecology & Evolution, London, Nature Publishing Group, 7, pp. 756–767.

Ramírez Rojas, A. A., Swidah, R. and Schindler, D.: (2022) Microbes of traditional fermentation processes as synthetic biology chassis to tackle future food challenges, Frontiers in Bioengineering and Biotechnology, Lausanne, Frontiers Media, 10, October.