AutoBioTech─A Versatile Biofoundry for Automated Strain Engineering

IF 3.7 2区生物学 Q1 BIOCHEMICAL RESEARCH METHODS ACS Synthetic Biology Pub Date : 2024-07-08 DOI:10.1021/acssynbio.4c00298

Tobias Michael Rosch, Julia Tenhaef, Tim Stoltmann, Till Redeker, Dominic Kösters, Niels Hollmann, Karin Krumbach, Wolfgang Wiechert, Michael Bott, Susana Matamouros, Jan Marienhagen and Stephan Noack*,

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Abstract

The inevitable transition from petrochemical production processes to renewable alternatives has sparked the emergence of biofoundries in recent years. Manual engineering of microbes will not be sufficient to meet the ever-increasing demand for novel producer strains. Here we describe the AutoBioTech platform, a fully automated laboratory system with 14 devices to perform operations for strain construction without human interaction. Using modular workflows, this platform enables automated transformations of Escherichia coli with plasmids assembled via modular cloning. A CRISPR/Cas9 toolbox compatible with existing modular cloning frameworks allows automated and flexible genome editing of E. coli. In addition, novel workflows have been established for the fully automated transformation of the Gram-positive model organism Corynebacterium glutamicum by conjugation and electroporation, with the latter proving to be the more robust technique. Overall, the AutoBioTech platform excels at versatility due to the modularity of workflows and seamless transitions between modules. This will accelerate strain engineering of Gram-negative and Gram-positive bacteria.

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AutoBioTech--用于自动菌株工程的多功能生物设施。

近年来，从石化生产工艺向可再生替代工艺的过渡已不可避免，这引发了生物工厂的兴起。要满足对新型生产菌株日益增长的需求，人工微生物工程是远远不够的。我们在此介绍 AutoBioTech 平台，这是一个全自动实验室系统，配有 14 个设备，可在无需人工操作的情况下执行菌株构建操作。利用模块化工作流程，该平台可实现大肠杆菌与通过模块化克隆组装的质粒的自动转化。与现有模块化克隆框架兼容的 CRISPR/Cas9 工具箱可对大肠杆菌进行自动、灵活的基因组编辑。此外，还建立了新的工作流程，可通过共轭和电穿孔全自动转化革兰氏阳性模式生物谷氨酸棒杆菌，后者被证明是更稳健的技术。总体而言，AutoBioTech 平台因其工作流程的模块化和模块间的无缝转换而在多功能性方面表现出色。这将加速革兰氏阴性菌和革兰氏阳性菌的菌种工程。

本文章由计算机程序翻译，如有差异，请以英文原文为准。

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来源期刊

ACS Synthetic Biology 生物-

CiteScore

8.00

自引率

10.60%

发文量

380

审稿时长

6-12 weeks

期刊介绍： The journal is particularly interested in studies on the design and synthesis of new genetic circuits and gene products; computational methods in the design of systems; and integrative applied approaches to understanding disease and metabolism. Topics may include, but are not limited to: Design and optimization of genetic systems Genetic circuit design and their principles for their organization into programs Computational methods to aid the design of genetic systems Experimental methods to quantify genetic parts, circuits, and metabolic fluxes Genetic parts libraries: their creation, analysis, and ontological representation Protein engineering including computational design Metabolic engineering and cellular manufacturing, including biomass conversion Natural product access, engineering, and production Creative and innovative applications of cellular programming Medical applications, tissue engineering, and the programming of therapeutic cells Minimal cell design and construction Genomics and genome replacement strategies Viral engineering Automated and robotic assembly platforms for synthetic biology DNA synthesis methodologies Metagenomics and synthetic metagenomic analysis Bioinformatics applied to gene discovery, chemoinformatics, and pathway construction Gene optimization Methods for genome-scale measurements of transcription and metabolomics Systems biology and methods to integrate multiple data sources in vitro and cell-free synthetic biology and molecular programming Nucleic acid engineering.