Applications and research advance of genome shuffling for industrial microbial strains improvement
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REVIEW
Applications and research advance of genome shuffling for industrial microbial strains improvement Liang Chen1 · Qiu‑Hua Xin1 · Li‑Min Ma1 · Rui‑Fang Li1 · Ke Bian1 Received: 17 August 2020 / Accepted: 15 September 2020 / Published online: 24 September 2020 © Springer Nature B.V. 2020
Abstract Genome shuffling, an efficient and practical strain improvement technology via recursive protoplasts fusion, can break through the limits of species even genus to accelerate the directed evolution of microbial strains, without requiring the comprehensively cognized genetic background and operable genetic system. Hence this technology has been widely used for many important strains to obtain the desirable industrial phenotypes. In this review, we introduce the procedure of genome shuffling, discuss the new aid strategies of genome shuffling, summarize the applications of genome shuffling for increasing metabolite yield, improving strain tolerance, enhancing substrate utilization, and put forward the outlook to the future development of this technology. Keywords Aid strategy · Genome shuffling · High-throughput screening · Protoplast fusion · Strain improvement · Strain tolerance
Introduction So far, microbial strains have been widely used to produce various valuable products related to agricultural, biofuel, chemical, environmental, food and pharmaceutical industries (Zeng et al. 2020). But most of the originally isolated strains cannot be directly used for industrial production because of low productivity and weak stress tolerance, leading to an increasing interest in strain improvement over the last several decades (Zeng et al. 2020). The strategies of strain improvement mainly include random mutagenesis, protoplast fusion, genome shuffling (GS) and rational genetic engineering approaches. Random mutagenesis followed by screening, can lead to desired mutants. As random mutagenesis is easy to operate, and not need the genetic background of microbe strains, it has succeeded in breeding many microbial strains, but it is laborious * Liang Chen [email protected] * Ke Bian [email protected] 1
College of Bioengineering/Collaborative Innovation Center of Grain Storage Security in Henan Province, Henan University of Technology, Zhengzhou 450001, People’s Republic of China
and time-consuming (Gong et al. 2009; Gu et al. 2017). Rational genetic engineering approaches, such as recombinant DNA technology, metabolic engineering, systematic engineering and genome editing, can modify the specific genes of the target strain in a rational manner (Magocha et al. 2018). But these approaches require deep understanding of the genetic background of the target strain and need necessary genetic tools, which have limited the wide application of the rational approaches. GS, first used for strain improvement in 2002, has been applied for phenotypic improvements of many important strains (Magocha et al. 2018; Zhang et al. 2002). This practical technology has been considered as a novel wholegenome improvement method for the rapid imp
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