Seminar Series Archive

Seminar Series CompuGene – ARCHIVE


July 26, 2017 – B1|01 – 52 (4 p.m.)

iGEM-Team TU Darmstadt

“iGEM 2017: engineering of E.coli for synthesis of ´designed´chitosan oligomers useful in medical applications”

July 26, 2017 – B1|01 – 52 (5 p.m.)

Prof. Bruno Moerschbacher,

Institut für Biologie und Biotechnologie der Pflanzen
Universität Münster, Germany

“Biotechnological production of third generation chitosans”

Homepage Moerschbacher Lab

June 29, 2017 – B1|01 – 52 at 12:30

Priv.-Doz. FH-Prof. Dr. Michael Sauer

University of Natural Resources and Life Sciences

“Synthetic and diverse – microbiology on duty in industry”

In our societies quest to mitigate greenhouse gas emissions and petroleum use, industrial microbiology plays a key-role for the provision of processes for fuel and chemical production from renewable resources. Clearly, the microorganism is in the center of the process and care should be taken for its choice. Industrial production conditions are generally very harsh for the microorganism. Nevertheless, the host cells should be very efficient, which opens a vast area of conflict for the industrial microbiologist. Synthetic biology and metabolic engineering provide optimal tools for the rational design of biocatalysts. However, biodiversity is a major resource which should be tapped first. Nature solved many problems, which we face in industrial context – be it natural stress resistance or efficiency of metabolic pathways. However, all too often the rich source of natural diversity is neglected in favor of “pet” or model organisms. I propose that the fastest and most reliable path to efficient and economically viable microbial production processes uses both – natural diversity and synthetic biology. This concept shall be exemplified with bacterial and yeast host systems for the production of 1,3-propanediol, or sugar alcohols, respectively.

Homepage Sauer Lab


June 7, 2017 – B1|01 – 102 (4 p.m.)

Dr. Kathrin Messerschmidt, Universität Potsdam

Orthogonal, light-inducible protein expression platform in yeast Sacchararomyces cerevisiae

The project Cell2Fab (from cells to fabrication) aims at the generation of a novel cellular regulation system on the basis of circular yeast chromosomes (xYAC) thereby facilitating highly regulated production of small to large cohorts of proteins and peptides in the yeast Saccharomyces cerevisiae. Successfully generated xYACs will enable us to access new areas of synthetic biosystems as for example: production of complex protein machines consisting of several subunits like naturally occurring multi-protein complexes of technical interest, production of entirely novel complexes with technical application areas and metabolic engineering.

Our protein expression system consists of different parts. First part is the AssemblX cloning system that allows easy and fast cloning of multiple protein expression cassettes, artificial operons, and regulatory systems. Second part is a regulation system composed of artificial transcription factors and their corresponding promoters. Furthermore, we establish regulation systems that allow the light-inducible protein expression.Overall, our system is designed as an open and flexible platform that allows customer-oriented adjustments to ensure fast and adequate adaptation to the needs of future users.

Homepage Messerschmidt Lab

June 7, 2017 – B1|01 – 102 (5 p.m.)

Dr. Vahid Shahrezaei, Imperial College London

Cell size and growth rate regulation of stochastic gene expression

Cells adopt their physiology globally in response to different growth conditions. This includes changes in cell division rate, cell size, and also in gene expression. These global physiological changes are expected to affect noise in gene expression in addition to average expression. Gene expression is inherently stochastic and the amount of noise in proteins depend on parameters of gene expression and cell division cycle. Here we use models of stochastic gene expression inside growing and dividing cells to study the effect of cell division rate and cell size on noise in gene expression. In the first part of my talk, I will talk about modelling work inspired by E Coli data on global regulation with division rate. In the second part of the talk, I discuss how the single moleucle RNA Fish data can be used to infer specific form of global regulation of gene expression by cell size in fission yeast.

The work I will talk about is not published by this recent review gives a good overview of the topic:

Homepage Shahrezaei Lab

May 3, 2017 – B1|01 – 102 (5 p.m.)

Dr. Patrick Cai, University of Edinburgh, UK


Homepage CaiLab

March 29, 2017 – B2/03, 109 (5 p.m.)

Prof. Gábor Balázsi, Stony Brook University, NY (USA)

„Gene expression control for biology and medicine”

Homepage Prof. Balazsi

March 8, 2017 – B2/03, 109

Philosophy Winter School

4:00 p.m. Andrea Loettgers

5:00 p.m. Andreas Kaminski / Colin Glass

6:30 p.m. Dinner

Philosophy Winter School Flyer

March 1, 2017 – B1/01, 52 (5 p.m.)

Dr. Stefan Kubick, Fraunhofer-Institut für Zelltherapie und Immunologie IZI, Potsdam

„Cell-free Bioproduction: Engineering Proteins for Therapy, Diagnostics and Biotechnological Applications”

Homepage Dr. Stefan Kubick

February 1, 2017 – B2/03, 109 (5 p.m.)

Prof. Peter Swain, University of Edinburgh

“Multiple input pathways improve perception in a MAP kinase signalling network”

Homepage SwainLab

December 7th, 2016 – B1/01, 52

Prof. Anke Becker, LOEWE-Zentrum für Synthetische Mikrobiologie, Marburg

Cancelled – a new date will be announced soon

Homepage Synmikro, Marburg

November 2nd, 2016 – B1/01, 52 (5 p.m.)

Dr. Gabriele Gramelsberger, TU Darmstadt/FU Berlin

„Temporale Regime der Synthetischen Biologie”


October 12th, 2016 – B1/01, 52

Prof. Victor Sourjik, Max Planck Institute for Terrestrial Microbiology & LOEWE Center for Synthetic Microbiology (SYNMIKRO) (4 p.m.)

“Understanding and engineering signaling specificity of bacterial chemoreceptors.”

Homepage Prof. Dr. Victor Sourjik

Prof. Thorsten Mascher, TU Dresden (5 p.m.)

“Bacillus subtilis as a SynBio host: from whole cell bio-sensors to orthogonal genetic switches“

Homepage Thorsten Mascher, TU Dresden

July 6th, 2016- B1/01, 52 “kleiner Hörsaal”

Dr. Guy-Bart Stan, Imperial College London (4 p.m.)

„Designing smarter synthetic biology systems: de novo biomolecular feedback and shared resources considerations for engineered bacterial cells”

Homepage Dr. Guy-Bart Stan, Imperial College

Dr. Chris Barnes, University College London (5 p.m.)

“Designing robust gene circuits using sequential Monte Carlo”

Homepage Prof. Barnes, London

June 16th, 2016 – B2/16, 102 (5 p.m.)

Prof. Kobi Benenson, ETH Zürich, Switzerland

“Biological computing – from concepts to applications”

Homepage Kobi Benenson, ETH Zürich

June 1st, 2016- B1/01, 52

Dr. Diego Oyarzún, Biomathematical Sciences, Dept of Mathematics, Imperial College London, UK (4 p.m.)

“Gene circuits for self-tuning metabolic pathways”

Homepage Dr. Diego Oyarzun, Imperial College

Prof. Paul Freemont, Imperial College London , UK (5 p.m.)

„Using cell free systems for prototyping synthetic biology designs”

Homepage Prof. Paul Freemont, Imperial College

May 11th, 2016- B1/01, 52

Prof. Dr. Sebastian Maerkl, École polytechnique fédéral de Lausanne (4 p.m.)

“Cell-Free Synthetic Biology”

Homepage Prof. Maerkl, EPFL

Prof. Friedrich Simmel, Technische Universität München, Germany (5 p.m.)

„Communication and computation in engineered cell-free and bacterial systems”

Homepage Friedrich Simmel, TU München

April 6th, 2016 – B1/01, 52

Dr. Christoph Zechner, ETH Zurich (4 p.m.)

Molecular circuits for dynamic noise filtering

Homepage Christoph Zechner, ETH Zurich

Prof. Wilfried Weber, Albert-Ludwigs-Universität Freiburg (5 p.m.)

Designing interactive Cells and Materials

Homepage Prof. W. Weber, Freiburg

March 16th, 2016- B1/01, 52

Dr. Mark Isalan, Imperial College London (4 p.m.)

„Gene circuits for engineering synthetic developmental patterns: how many ways can you make a stripe?”

Homepage Mark Isalan, Imperial College London

Dr. Tom Ellis, Imperial College London (5 p.m.)

“Balancing biology with engineering to produce molecules and materials”

Homepage Tom Ellis, Imperial College, London