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The results of a long-term collaboration with our former visiting professors Pekka Orponen (Aalto University) and Ibuki Kawamata (Tohoku University), and with Anton Kuzyk (Aalto University) as the experimental lead finally got published! The idea behind the paper is that the spanning tree of a…

Due to the exhaustion of cell-free gene expression systems over time, it is difficult to realize cell-free gene circuits in closed reactors that require extended runtimes for operation. In this work we show that execution of an incoherent feed-forward loop of type 2 (IFFL-2)  - capable of…

We are happy to announce that Lukas Oesinghaus received one of the prestigious Dimitris N. Chorafas prizes for his excellent PhD thesis and related publications. Congratulations! The Dimitris N. Chorafas Foundation awards scientific prizes for outstanding work in selected fields in the engineering…

Work initiated during the iGEM project Phactory (2018) has now resulted in a publication on the cell-free production of bacteriophages against multidrug-resistent bacteria. The work was performed by Quirin and Kilian from the original team and Gil Westmeyer (TUM Chemistry/Helmholtz) led the…

Periodic perturbation or driving of nonlinear oscillators is known to lead to complex dynamics such as period doubling bifurcations or even chaos. In the context of biochemical and biological oscillators, this phenomenon has been predicted, but is difficult to observe experimentally. Here, we…

Combining the switching principle of riboswitches with that of toehold switches, Tianhe (Mark) Wang created a series of novel translational and transcriptional gene regulators, including the first synthetic switch utilizing Rho-dependent termination. Read the full story in Nucleic Acids Research: …

A study of this effect by Elisabeth Falgenhauer, Andrea Mückl and Matthaeus Schwarz-Schilling has just been published: Falgenhauer, E., Mückl, A., Schwarz-Schilling, M. & Simmel, F. C. Transcriptional Interference in Toehold Switch-Based RNA Circuits. ACS Synth Biol (2022)…

now published in ACS Applied Materials & Interfaces:

just accepted in ChemElectroChem: ChemElectroChem2022, e202101696 https://doi.org/10.1002/celc.202101696

Successful PhD Defenses in 2022: Julia Müller (14.01.)

Elisabeth's paper just went online: Falgenhauer, E., von Schönberg, S., Meng, C., Mückl, A., Vogele, K., Emslander, Q., Ludwig, C. and Simmel, F..C. (2021), Evaluation of an E. coli cell extract prepared by lysozyme-assisted sonication via gene expression, phage assembly and proteomics.…

Successful PhD Defenses in 2021: Marisa Götzfried (22.01.) Andrea Meyer (29.01.) John Henningsen (17.12.)

Successful PhD defenses in 2020: Kilian Vogele (15.09.) Ali Aghebat Rafat (13.11.) Daniela Ziegler (17.12.)

Publication: Henningsen, J., Schwarz-Schilling, M., Leibl, A., Gutiérrez, J. N., Sagredo, S., & Simmel, F. C. (2020). Single Cell Characterization of a Synthetic Bacterial Clock with a Hybrid Feedback Loop Containing dCas9-sgRNA. ACS Synthetic Biology, 9(12), 3377–3387 …

Publication: Frank, T., Vogele, K., Dupin, A., Simmel, F. C., & Pirzer, T. (2020). Growth of Giant Peptide Vesicles Driven by Compartmentalized Transcription-Translation Activity. Chemistry Eur. J., 26(72), 17356–17360. http://doi.org/10.1002/chem.202003366

Successful PhD defenses in 2019: Martin Langecker (22.03.) Enzo Kopperger (24.05.) Matthaeus Schwarz-Schilling (16.07.) Aurore Dupin (31.10.)

Publication: M. A. Goetzfried, K. Vogele, A. Mückl, M. Kaiser, N. B. Holland, F. C. Simmel, T. Pirzer, Periodic Operation of a Dynamic DNA Origami Structure Utilizing the Hydrophilic–Hydrophobic Phase-Transition of Stimulus-Sensitive Polypeptides, Small, 1903541 (2019). …

 F. C. Simmel, B. Yurke, H. Singh: Principles and applications of nucleic acid strand displacement reactions, Chemical Reviews, Article ASAP(2019). DOI: 10.1021/acs.chemrev.8b00580 (2019)

Using water-in-oil droplets, we have created two-dimensional networks of artificial cells separated by lipid bilayer interfaces. Within this "micro-tissue" the cells can communicate via the exchange of small molecule signals. Coupling these signals to cell-free genetic feedback and feedforward…

K. Vogele, J. List, F. C. Simmel, T. Pirzer Langmuir (2018). This article is part of the Nucleic Acids Nanoscience at Interfaces special issue. DOI: 10.1021/acs.langmuir.8b01770

L. Aufinger, F. C. Simmel Angew. Chem. Int. Ed. 57, published online (2018) DOI: 10.1002/anie.201809374

In a Chinese-German collaboration with Chunhai Fan, Huajie Liu and coworkers, localized DNA strand displacement cascades were realized that allow exploration of paths in tree-like graphs defined on the origami platforms. Read the full story here: J. Chao, J. Wang, F. Wang, X. Ouyang, E.…

This years iGEM team Munich, hosted by the Simmel lab, wins multiple trophies in the overgraduate section at the iGEM giant jamboree: "Best Manufacturing Project", "Best Presentation", "Best Wiki", "Best Software Tool", "Best Entrepreneurship" and last but not least 1st Runner Up Overgrad (out of…

G. Pardatscher*, M. Schwarz-Schilling*, S. Sagredo, F. C. SimmelJ. Vis. Exp. (140), e58634, (2018)DOI: 10.3791/58634

K. Vogele, T. Frank, L. Gasser, M. A. Goetzfried, M. W. Hackl, S. A. Sieber, F. C. Simmel, and Tobias PirzerNature Communications 9, 3862:1–7 (2018)DOI: 10.1038/s41467-018-06379-8

A. Mückl*, M. Schwarz-Schilling*, K. Fischer, and F. C. SimmelPLOS ONE, 13(9): e0198058 (2018)DOI: 10.1371/journal.pone.0198058

The international Genetically Engineered Machine (iGEM) Competition is the biggest synthetic biology student competition in the world with over 300 teams from 44 countries. Following last year's success, the Simmel lab is again supervising a team of highly motivated students who work on a…

M. Schwarz-Schilling, A. Dupin, F. Chizzolini, S. Krishnan, S. S. Mansy, and F. C. SimmelNano Letters 18, 2650–2657 (2018)DOI: 10.1021/acs.nanolett.8b00526

Perspective article by Björn Högberg: Remote control of nanoscale devices http://science.sciencemag.org/content/359/6373/279 Cover of Science Vol 359, Issue 6373: http://science.sciencemag.org/content/359/6373 Animated video: https://youtu.be/K9fuSVaszyg

After developing their interdisciplinary diagnostics project over the summer in the laboratory of Prof. Dr. Friedrich Simmel, the Munich team (TUM and LMU) was awarded the 1st Runner Up Prize of the "Overgraduate" section. Furthermore, it received special awards in the categories "Best Diagnostics…

Cover of Nature Nanotechnology (December 2016). Link Image of the month by 'Wired UK' (02/17) Ten years in images (Nature Nanotechnology anniversary feature). DOI: 10.1038/nnano.2016.190 Image of the month by 'Spektrum der Wissenschaft' (October 2016). Link Images of the month by 'nature.com'…

K. Vogele, J. List, G. Pardatscher, N. B. Holland, F. C. Simmel, and T. Pirzer DOI: 10.1021/acsnano.6b06635

bpod.mrc.ac.uk/archive/2016/10/29

Swati Krishnan, Daniela Ziegler, Vera Arnaut, Thomas G. Martin, Korbinian Kapsner, Katharina Henneberg, Andreas R. Bausch, Hendrik Dietz & Friedrich C. Simmel DOI:10.1038/ncomms12787

“The DNA Computing Scientist 2016” goes to Friedrich Simmel for his contributions in advancing DNA based networks and self-organization of DNA-based systems. isnsce.org/2016/10/05/award-winners-at-dna22/

Aradhana Chopra, Swati Krishnan, and Friedrich C. Simmel DOI: 10.1021/acs.nanolett.6b03586

Normally, individual molecules of genetic material repel each other. However, when space is limited DNA molecules must be packed together more tightly. This case arises in sperm, cell nuclei and the protein shells of viruses. An international team of physicists has now succeeded in artificially…