Lab robotics for synthetic biology and strain evaluation (RoboSyn)

实验室机器人RoboSyn应该用于斯图加特大学的合成生物学和系统生物学研究，特别是在生物技术研究所（IBVT）。该设备应支持关键研究活动(A)菌株和工艺工程，(B)无细胞蛋白合成和(C) RNA-RNA相互作用。通过建立RoboSyn，目前实验室自动化和mL和mikroL规模平行应变测试的差距将被关闭。RoboSyn的设计使得体外和体内测试都能成功进行。该技术建立在申请人的专业知识和斯图加特建立的知识基础上。RoboSyn通过提供迄今为止缺失的实验室自动化来补充现有的基础设施。关于(A) RoboSyn将用于在多个项目中构建的新菌株的大规模并行评估。此外，从DNA片段生成编码DNA及其在微生物宿主中的整合的现代方法将自动化。研究还将包括通过细胞裂解物测试优化单个基因（例如在生物合成途径中）的表达水平。这个问题与(B)的主题有关，即无细胞蛋白质合成。基于深厚的前期研究专业知识，将针对新的细胞和表达宿主。详细的系统生物学研究将阐明它们的功能和它们在生产药学和医学上有吸引力的化合物方面的适用性。此外，RoboSyn将用于阐明原核和真核细胞中RNA-RNA介导的调控网络(C)。这样的系统生物学研究将受益于在并行读出系统中安装不同扰动然后进行“全局”监测的可能性。与IBVT的主题一致，所有的研究都将使用数学模型来检查实验数据或设计实验。因此，研究将被构建为完整的设计-构建-测试-学习周期。后者是特别重要的，因为它确保了基于知识的应变和工艺优化。

The lab robotic RoboSyn should be used for synthetic biology and systems biology research at the University of Stuttgart, in particular at the ‘Institut für Bioverfahrnstechnik (IBVT). The device should support the key research activities (A) strain- and process engineering, (B) cell-free protein synthesis, and (C) RNA-RNA interaction. By establishing RoboSyn the current gap in lab automation and in parallel strain testing in mL and mikroL scale will be closed. RoboSyn is designed such that in vitro and in vivo tests can be performed successfully. The technology builds on the expertise of the applicants and on the knowhow established in Stuttgart. RoboSyn complements existing infrastructure by giving access to lab automation which is missing so far.Regarding (A) RoboSyn will be used for the massively parallel evaluation of novel strains constructed in multiple projects. Besides, modern approaches of generating coding DNA from DNA fragments and their integration in microbial hosts will be automatized. Studies will comprise the optimization of expression levels of individual genes (e.g. in biosynthetic pathways) via cell lysate tests, too. The question is linked to the topics of (B), the cell free protein synthesis. Based on profound expertise of preliminary studies, novel cells and expression hosts will be targeted. Detailed systems biology studies will elucidate their functioning and their suitability for the production of pharmaceutically and medically attractive compounds. Furthermore, RoboSyn will be used to elucidate RNA-RNA mediated regulatory networks in pro- and eukaryotic cells (C). Such systems biology studies will benefit from the possibility of installing distinct perturbations followed by ‘global’ monitoring in the parallel read-out system.In agreement with the leitmotif of IBVT, all studies will make use of mathematical models either to check experimental data or to design experiments. As such, studies will be structured as complete design-build-test-learn cycles. The latter is of particular importance as it ensures a knowledge-based optimization of strains and processes.