Genetic Tool Development and Systemic Regulation in Biosynthetic Technology

Overview

Journal Biotechnol Biofuels

Publisher Biomed Central

Specialty Biotechnology

Date 2018 Jun 9

PMID 29881457

Citations 3

Authors

Zhongxue Dai

Shangjie Zhang

Qiao Yang

Wenming Zhang

Xiujuan Qian

Weiliang Dong

Min Jiang

Fengxue Xin

Affiliations

Soon will be listed here.

Abstract

With the increased development in research, innovation, and policy interest in recent years, biosynthetic technology has developed rapidly, which combines engineering, electronics, computer science, mathematics, and other disciplines based on classical genetic engineering and metabolic engineering. It gives a wider perspective and a deeper level to perceive the nature of life via cell mechanism, regulatory networks, or biological evolution. Currently, synthetic biology has made great breakthrough in energy, chemical industry, and medicine industries, particularly in the programmable genetic control at multiple levels of regulation to perform designed goals. In this review, the most advanced and comprehensive developments achieved in biosynthetic technology were represented, including genetic engineering as well as synthetic genomics. In addition, the superiority together with the limitations of the current genome-editing tools were summarized.

Citing Articles

Aspergillus fumigatus AR04 obeys Arrhenius' rule in cultivation temperature shifts from 30 to 40°C.

Nieland S, Barig S, Salzmann J, Gehrau F, Zamani A, Richter A Microb Biotechnol. 2021; 14(4):1422-1432.

PMID: 33421319 PMC: 8313250. DOI: 10.1111/1751-7915.13739.

Recent Advances of CRISPR/Cas9-Based Genetic Engineering and Transcriptional Regulation in Industrial Biology.

Zhang S, Guo F, Yan W, Dai Z, Dong W, Zhou J Front Bioeng Biotechnol. 2020; 7:459.

PMID: 32047743 PMC: 6997136. DOI: 10.3389/fbioe.2019.00459.

Gene Editing and Systems Biology Tools for Pesticide Bioremediation: A Review.

Jaiswal S, Singh D, Shukla P Front Microbiol. 2019; 10:87.

PMID: 30853940 PMC: 6396717. DOI: 10.3389/fmicb.2019.00087.

References

Soma Y, Yamaji T, Matsuda F, Hanai T . Synthetic metabolic bypass for a metabolic toggle switch enhances acetyl-CoA supply for isopropanol production by Escherichia coli. J Biosci Bioeng. 2017; 123(5):625-633. DOI: 10.1016/j.jbiosc.2016.12.009. View

Garg A, Lohmueller J, Silver P, Armel T . Engineering synthetic TAL effectors with orthogonal target sites. Nucleic Acids Res. 2012; 40(15):7584-95. PMC: 3424557. DOI: 10.1093/nar/gks404. View

Driscoll C, Mason R, Chan H, Jacob D, Pirrone N . Mercury as a global pollutant: sources, pathways, and effects. Environ Sci Technol. 2013; 47(10):4967-83. PMC: 3701261. DOI: 10.1021/es305071v. View

Tsai C, Kong I, Lesmana A, Million G, Zhang G, Kim S . Rapid and marker-free refactoring of xylose-fermenting yeast strains with Cas9/CRISPR. Biotechnol Bioeng. 2015; 112(11):2406-11. DOI: 10.1002/bit.25632. View

Xie Z, Li B, Mitchell L, Wu Y, Qi X, Jin Z . "Perfect" designer chromosome V and behavior of a ring derivative. Science. 2017; 355(6329). DOI: 10.1126/science.aaf4704. View

MacDonald I, Deans T . Tools and applications in synthetic biology. Adv Drug Deliv Rev. 2016; 105(Pt A):20-34. DOI: 10.1016/j.addr.2016.08.008. View

Holkers M, Cathomen T, Goncalves M . Construction and characterization of adenoviral vectors for the delivery of TALENs into human cells. Methods. 2014; 69(2):179-87. DOI: 10.1016/j.ymeth.2014.02.017. View

Bao Z, Xiao H, Liang J, Zhang L, Xiong X, Sun N . Homology-integrated CRISPR-Cas (HI-CRISPR) system for one-step multigene disruption in Saccharomyces cerevisiae. ACS Synth Biol. 2014; 4(5):585-94. DOI: 10.1021/sb500255k. View

Zhu L, Zhu Y, Zhang Y, Li Y . Engineering the robustness of industrial microbes through synthetic biology. Trends Microbiol. 2012; 20(2):94-101. DOI: 10.1016/j.tim.2011.12.003. View

10.

Wu Y, Li B, Zhao M, Mitchell L, Xie Z, Lin Q . Bug mapping and fitness testing of chemically synthesized chromosome X. Science. 2017; 355(6329). PMC: 5679077. DOI: 10.1126/science.aaf4706. View

11.

Feng Z, Zhang B, Ding W, Liu X, Yang D, Wei P . Efficient genome editing in plants using a CRISPR/Cas system. Cell Res. 2013; 23(10):1229-32. PMC: 3790235. DOI: 10.1038/cr.2013.114. View

12.

Liu X, Cheng Y . Genome-guided discovery of diverse natural products from Burkholderia sp. J Ind Microbiol Biotechnol. 2013; 41(2):275-84. PMC: 3946939. DOI: 10.1007/s10295-013-1376-1. View

13.

Nissen P, Hansen J, Ban N, Moore P, Steitz T . The structural basis of ribosome activity in peptide bond synthesis. Science. 2000; 289(5481):920-30. DOI: 10.1126/science.289.5481.920. View

14.

Lin Q, Zhang C, Rikihisa Y . Analysis of involvement of the RecF pathway in p44 recombination in Anaplasma phagocytophilum and in Escherichia coli by using a plasmid carrying the p44 expression and p44 donor loci. Infect Immun. 2006; 74(4):2052-62. PMC: 1418890. DOI: 10.1128/IAI.74.4.2052-2062.2006. View

15.

Standage-Beier K, Zhang Q, Wang X . Targeted Large-Scale Deletion of Bacterial Genomes Using CRISPR-Nickases. ACS Synth Biol. 2015; 4(11):1217-25. PMC: 4655420. DOI: 10.1021/acssynbio.5b00132. View

16.

Bowsher C, Swain P . Environmental sensing, information transfer, and cellular decision-making. Curr Opin Biotechnol. 2014; 28:149-55. DOI: 10.1016/j.copbio.2014.04.010. View

17.

Tumpey T, Basler C, Aguilar P, Zeng H, Solorzano A, Swayne D . Characterization of the reconstructed 1918 Spanish influenza pandemic virus. Science. 2005; 310(5745):77-80. DOI: 10.1126/science.1119392. View

18.

Ban N, Nissen P, Hansen J, Moore P, Steitz T . The complete atomic structure of the large ribosomal subunit at 2.4 A resolution. Science. 2000; 289(5481):905-20. DOI: 10.1126/science.289.5481.905. View

19.

Doudna J, Charpentier E . Genome editing. The new frontier of genome engineering with CRISPR-Cas9. Science. 2014; 346(6213):1258096. DOI: 10.1126/science.1258096. View

20.

Currin A, Swainston N, Day P, Kell D . SpeedyGenes: an improved gene synthesis method for the efficient production of error-corrected, synthetic protein libraries for directed evolution. Protein Eng Des Sel. 2014; 27(9):273-80. PMC: 4140418. DOI: 10.1093/protein/gzu029. View