Industrial biotechnology of Pseudomonas putida : advances and prospects
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MINI-REVIEW
Industrial biotechnology of Pseudomonas putida: advances and prospects Anna Weimer 1 & Michael Kohlstedt 1 & Daniel C. Volke 2 & Pablo I. Nikel 2 & Christoph Wittmann 1 Received: 24 June 2020 / Revised: 23 July 2020 / Accepted: 2 August 2020 # The Author(s) 2020
Abstract Pseudomonas putida is a Gram-negative, rod-shaped bacterium that can be encountered in diverse ecological habitats. This ubiquity is traced to its remarkably versatile metabolism, adapted to withstand physicochemical stress, and the capacity to thrive in harsh environments. Owing to these characteristics, there is a growing interest in this microbe for industrial use, and the corresponding research has made rapid progress in recent years. Hereby, strong drivers are the exploitation of cheap renewable feedstocks and waste streams to produce value-added chemicals and the steady progress in genetic strain engineering and systems biology understanding of this bacterium. Here, we summarize the recent advances and prospects in genetic engineering, systems and synthetic biology, and applications of P. putida as a cell factory. Key points • Pseudomonas putida advances to a global industrial cell factory. • Novel tools enable system-wide understanding and streamlined genomic engineering. • Applications of P. putida range from bioeconomy chemicals to biosynthetic drugs. Keywords Pseudomonas putida . Microbial cell factory . KT2440 . EDEMP cycle . Bacterial chassis . Biocatalysis . Biotransformation . Metabolic engineering . Synthetic biology . Bioeconomy . Lignin . PHA
Introduction Pseudomonas putida is a Gram-negative, rod-shaped bacterium, frequently isolated from waters, plants, and soils (in particular, polluted sites) (Fig. 1). The heterogeneity of P. putida’s natural environment is reflected by its opportunistic and undemanding nutritional capabilities, rapid growth, as well as robustness upon challenges with oxidative stress and toxic chemicals. Initiated by the discovery of the potential of P. putida in biodegradation of xenobiotics in the 1960s (Nakazawa 2002), the acquisition of knowledge about the Electronic supplementary material The online version of this article (https://doi.org/10.1007/s00253-020-10811-9) contains supplementary material, which is available to authorized users. * Christoph Wittmann [email protected] 1
Institute of Systems Biotechnology, Saarland University, Campus A1.5, 66123 Saarbrücken, Germany
2
The Novo Nordisk Foundation Center for Biosustainability, Technical University of Denmark, Lyngby, Denmark
genetics, biochemistry, and physiology of this microbe has been continuously progressing over the last five decades. This led, inter alia, to the decryption of the complete genomic repertoire (Belda et al. 2016; Nelson et al. 2002) (Fig. 2) and the construction of genome-scale metabolic models for in silico simulations and data mapping (Nogales et al. 2020; Puchałka et al. 2008). Moreover, an ever growing number of tools for systems-level profiling, targeted genetic and genome manipulations ar
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