A modified pCas/pTargetF system for CRISPR-Cas9-assisted genome editing in Escherichia coli

Q i Li; Bingbing Sun; Jun Chen; Yiwen Zhang; Y u Jiang; Sheng Yang

doi:10.1093/abbs/gmab036

journal article Mar 01, 2021

A modified pCas/pTargetF system for CRISPR-Cas9-assisted genome editing in Escherichia coli

Q i Li Bingbing Sun

Jun Chen

Yiwen Zhang

Y u Jiang Sheng Yang

Acta Biochimica et Biophysica Sinica Vol. 53 No. 5 pp. 620-627 · China Science Publishing & Media Ltd.

View at Publisher Save 10.1093/abbs/gmab036

Topics

No keywords indexed for this article. Browse by subject →

References

34

[1]

Pontrelli S, Chiu TY, Lan EI, Chen FYH, Chang P, Liao JC. Escherichia coli as a host for metabolic engineering. Metab Eng, 2018, 50: 16-46. 10.1016/j.ymben.2018.04.008

[2]

Wang C, Pfleger BF, Kim SW. Reassessing Escherichia coli as a cell factory for biofuel production. Curr Opin Biotech, 2017, 45: 92-103. 10.1016/j.copbio.2017.02.010

[3]

Garneau JE, Dupuis ME, Villion M, Romero DA, Barrangou R, Boyaval P, Fremaux C. The CRISPR/Cas bacterial immune system cleaves bacteriophage and plasmid DNA. Nature, 2010, 468: 67-71. 10.1038/nature09523

[4]

Horvath P, Barrangou R. CRISPR/Cas, the immune system of bacteria and archaea. Science, 2010, 327: 167-170. 10.1126/science.1179555

[5]

Wiedenheft B, Sternberg SH, Doudna JA. RNA-guided genetic silencing systems in bacteria and archaea. Nature, 2012, 482: 331-338. 10.1038/nature10886

[6]

Ao X, Yao Y, Li T, Yang TT, Dong X, Zheng ZT, Chen GQ. A multiplex genome editing method for Escherichia coli based on CRISPR-Cas12a. Front Microbiol, 2018, 9: 10.3389/fmicb.2018.02307

[7]

Bassalo MC, Garst AD, Halweg-Edwards AL, Grau WC, Domaille DW, Mutalik VK, Arkin AP. Rapid and efficient one-step metabolic pathway integration in E-coli. Acs Synth Biol, 2016, 5: 561-568. 10.1021/acssynbio.5b00187

[8]

Chen W, Li Y, Wu G, Zhao L, Lu L, Wang P, Zhou J. Simple and efficient genome recombineering using kil counter-selection in Escherichia coli. J Biotechnol, 2019, 294: 58-66. 10.1016/j.jbiotec.2019.01.024

[9]

Choudhury A, Fankhauser RG, Freed EF, Oh EJ, Morgenthaler AB, Bassalo MC, Copley SD. Determinants for efficient editing with Cas9-mediated recombineering in Escherichia coli. Acs Synth Biol, 2020, 9: 1083-1099. 10.1021/acssynbio.9b00440

[10]

Feng X, Zhao D, Zhang X, Ding X, Bi C. CRISPR/Cas9 assisted multiplex genome editing technique in Escherichia coli. Biotechnol J, 2018, 13: 10.1002/biot.201700604

[11]

Huang C, Ding T, Wang J, Wang X, Guo L, Wang J, Zhu L. CRISPR-Cas9-assisted native end-joining editing offers a simple strategy for efficient genetic engineering in Escherichia coli. Appl Microbiol Biot, 2019, 103: 8497-8509. 10.1007/s00253-019-10104-w

[12]

Jiang Y, Chen B, Duan C, Sun B, Yang J, Yang S. Multigene editing in the Escherichia coli genome via the CRISPR-Cas9 system. Appl Environ Microb, 2015, 81: 2506-2514. 10.1128/aem.04023-14

[13]

Li Y, Lin Z, Huang C, Zhang Y, Wang Z, Tang YJ, Chen T. Metabolic engineering of Escherichia coli using CRISPR-Cas9 meditated genome editing. Metab Eng, 2015, 31: 13-21. 10.1016/j.ymben.2015.06.006

[14]

Li Y, Yan F, Wu H, Li G, Han Y, Ma Q, Fan X. Multiple-step chromosomal integration of divided segments from a large DNA fragment via CRISPR/Cas9 in Escherichia coli. J Ind Microbiol Biot, 2019, 46: 81-90. 10.1007/s10295-018-2114-5

[15]

Moreb EA, Hoover B, Yaseen A, Valyasevi N, Roecker Z, Menacho-Melgar R, Lynch MD. Managing the SOS response for enhanced CRISPR-Cas-based recombineering in E. coli through transient inhibition of host RecA activity. Acs Synth Biol, 2017, 6: 2209-2218. 10.1021/acssynbio.7b00174

[16]

Pyne ME, Moo-Young M, Chung DA, Chou CP. Coupling the CRISPR/Cas9 system with lambda red recombineering enables simplified chromosomal gene replacement in Escherichia coli. Appl Environ Microb, 2015, 81: 5103-5114. 10.1128/aem.01248-15

[17]

Reisch CR, Prather KLJ. The no-SCAR (Scarless Cas9 Assisted Recombineering) system for genome editing in Escherichia coli. Sci Rep, 2015, 5: 10.1038/srep15096

[18]

Su B, Song D, Zhu H. Homology-dependent recombination of large synthetic pathways into E. coli genome via lambda-Red and CRISPR/Cas9 dependent selection methodology. Microb Cell Fact, 2020, 19: 10.1186/s12934-020-01360-x

[19]

Sung LY, Wu MP, Lin MW, Hsu MN, Vu Anh T, Shen CC, Tu Y. Combining orthogonal CRISPR and CRISPRi systems for genome engineering and metabolic pathway modulation in Escherichia coli. Biotechnol Bioeng, 2019, 116: 1066-1079. 10.1002/bit.26915

[20]

Zerbini F, Zanella I, Fraccascia D, Konig E, Irene C, Frattini LF, Tomasi M. Large scale validation of an efficient CRISPR/Cas-based multi gene editing protocol in Escherichia coli. Microb Cell Fact, 2017, 16: 10.1186/s12934-017-0681-1

[21]

Cha JS, Pujol C, Kado CI. Identification and characterization of a Pantoea citrea gene encoding glucose dehydrogenase that is essential for causing pink disease of pineapple. Appl Environ Microb, 1997, 63: 71-76. 10.1128/aem.63.1.71-76.1997

[22]

Pujol CJ, Kado CI. Genetic and biochemical characterization of the pathway in Pantoea citrea leading to pink disease of pineapple. J Bacteriol, 2000, 182: 2230-2237. 10.1128/jb.182.8.2230-2237.2000

[23]

Sharan SK, Thomason LC, Kuznetsov SG, Court DL. Recombineering: a homologous recombination-based method of genetic engineering. Nat Protoc, 2009, 4: 206-223. 10.1038/nprot.2008.227

[24]

Egan SM, Schleif RF. A regulatory cascade in the induction of rhaBAD. J Mol Biol, 1993, 234: 87-98. 10.1006/jmbi.1993.1565

[25]

Haldimann A, Daniels LL, Wanner BL. Use of new methods for construction of tightly regulated arabinose and rhamnose promoter fusions in studies of the Escherichia coli phosphate regulon. J Bacteriol, 1998, 180: 1277-1286. 10.1128/jb.180.5.1277-1286.1998

[26]

Gay P, Le Coq D, Steinmetz M, Berkelman T, Kado CI. Positive selection procedure for entrapment of insertion sequence elements in gram-negative bacteria. J Bacteriol, 1985, 164: 918-921. 10.1128/jb.164.2.918-921.1985

[27]

Hestrin S, Avineri-Shapiro S. The mechanism of polysaccharide production from sucrose. Biochem J, 1944, 38: 2-10. 10.1042/bj0380002

[28]

Bernard P. Positive selection of recombinant DNA by CcdB. Biotechniques, 1996, 21: 320-323. 10.2144/96212pf01

[29]

Bernard P, Couturier M. Cell killing by the F plasmid CcdB protein involves poisoning of DNA-topoisomerase II complexes. J Mol Biol, 1992, 226: 735-745. 10.1016/0022-2836(92)90629-x

[30]

Sonnenborn U. Escherichia coli strain Nissle 1917-from bench to bedside and back: history of a special Escherichia coli strain with probiotic properties. Fems Microbiol Lett, 2016, 363: 10.1093/femsle/fnw212

[31]

Alterthum F, Ingram LO. Efficient ethanol production from glucose, lactose, and xylose by recombinant Escherichia coli. Appl Environ Microb, 1989, 55: 1943-1948. 10.1128/aem.55.8.1943-1948.1989

[32]

Nagata S. Growth of Escherichia coli ATCC 9637 through the uptake of compatible solutes at high osmolarity. J Biosci Bioeng, 2001, 92: 324-329. 10.1016/s1389-1723(01)80234-6

[33]

Archer CT, Kim JF, Jeong H, Park JH, Vickers CE, Lee SY, Nielsen LK. The genome sequence of E. coli W (ATCC 9637): comparative genome analysis and an improved genome-scale reconstruction of E. coli. BMCGenomics, 2011, 12: 10.1186/1471-2164-12-9

[34]

Cha JS, Pujol C, Ducusin AR, Macion EA, Hubbard CH, Kado CI. Studies on Pantoea citrea, the causal agent of pink disease of pineapple. J Phytopathol, 1997, 145: 313-319. 10.1111/j.1439-0434.1997.tb00407.x

Cited By

194

Combinatorial Metabolic Engineering of Escherichia coli MG1655 Enables Efficient Biosynthesis of Vitamin B6

Xue Xu, Zanwen Chen · 2025

Journal of Agricultural and Food Ch...

Intelligent guide RNA: dual toehold switches for modulating luciferase in the presence of trigger RNA

Mohammad Hashemabadi, Hossein Ali Sasan · 2024

Communications Biology

Advanced and Safe Synthetic Microbial Chassis with Orthogonal Translation System Integration

Hamid Reza Karbalaei-Heidari, Nediljko Budisa · 2024

ACS Synthetic Biology

Engineering Escherichia coli via introduction of the isopentenol utilization pathway to effectively produce geranyllinalool

Jin Chang, Xinduo Wei · 2024

Microbial Cell Factories

Metrics

194

Citations

34

References

Details

Published: Mar 01, 2021
Vol/Issue: 53(5)
Pages: 620-627
License: View

Authors

Northeastern University

Funding

National Natural Science Foundation of China Award: 21825804

’Key New Drug Creation and Manufacturing Program’, China Award: 2018ZX09711002

Cite This Article

Q i Li, Bingbing Sun, Jun Chen, et al. (2021). A modified pCas/pTargetF system for CRISPR-Cas9-assisted genome editing in Escherichia coli. Acta Biochimica et Biophysica Sinica, 53(5), 620-627. https://doi.org/10.1093/abbs/gmab036

A modified pCas/pTargetF system for CRISPR-Cas9-assisted genome editing in Escherichia coli

You May Also Like