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Volumn 43, Issue , 2017, Pages 37-45

The CRISPR/Cas9-facilitated multiplex pathway optimization (CFPO) technique and its application to improve the Escherichia coli xylose utilization pathway

Author keywords

Combinatorial metabolic engineering; CRISPR Cas9; CRISPR Cas9 facilitated multiplex pathway optimization (CFPO); Genome editing

Indexed keywords

CHROMOSOMES; DNA; DNA SEQUENCES; ESCHERICHIA COLI; GENE EXPRESSION; GENES; METABOLIC ENGINEERING; METABOLISM;

EID: 85029106382     PISSN: 10967176     EISSN: 10967184     Source Type: Journal    
DOI: 10.1016/j.ymben.2017.08.003     Document Type: Article
Times cited : (59)

References (44)
  • 1
    • 0034612342 scopus 로고    scopus 로고
    • One-step inactivation of chromosomal genes in Escherichia coli K-12 using PCR products
    • Datsenko, K.A., Wanner, B.L., One-step inactivation of chromosomal genes in Escherichia coli K-12 using PCR products. Proc. Nat. Acad. Sci. USA 97 (2000), 6640–6645.
    • (2000) Proc. Nat. Acad. Sci. USA , vol.97 , pp. 6640-6645
    • Datsenko, K.A.1    Wanner, B.L.2
  • 2
    • 34247892449 scopus 로고    scopus 로고
    • Gene and cell survival: lessons from prokaryotic plasmid R1
    • de la Cueva-Mendez, G., Pimentel, B., Gene and cell survival: lessons from prokaryotic plasmid R1. Embo. Rep. 8 (2007), 458–464.
    • (2007) Embo. Rep. , vol.8 , pp. 458-464
    • de la Cueva-Mendez, G.1    Pimentel, B.2
  • 3
    • 77649205142 scopus 로고    scopus 로고
    • Regulation of arabinose and xylose metabolism in Escherichia coli
    • Desai, T.A., Rao, C.V., Regulation of arabinose and xylose metabolism in Escherichia coli. Appl. Environ. Microbiol. 76 (2010), 1524–1532.
    • (2010) Appl. Environ. Microbiol. , vol.76 , pp. 1524-1532
    • Desai, T.A.1    Rao, C.V.2
  • 4
    • 42049092081 scopus 로고    scopus 로고
    • The mechanisms of carbon catabolite repression in bacteria
    • Deutscher, J., The mechanisms of carbon catabolite repression in bacteria. Curr. Opin. Microbiol. 11 (2008), 87–93.
    • (2008) Curr. Opin. Microbiol. , vol.11 , pp. 87-93
    • Deutscher, J.1
  • 5
    • 56649114274 scopus 로고    scopus 로고
    • A one pot, one step, precision cloning method with high throughput capability
    • Engler, C., Kandzia, R., Marillonnet, S., A one pot, one step, precision cloning method with high throughput capability. PLoS One, 3, 2008, e3647.
    • (2008) PLoS One , vol.3 , pp. e3647
    • Engler, C.1    Kandzia, R.2    Marillonnet, S.3
  • 6
    • 84884962157 scopus 로고    scopus 로고
    • Novel approach to engineer strains for simultaneous sugar utilization
    • Gawand, P., Hyland, P., Ekins, A., Martin, V.J.J., Mahadevan, R., Novel approach to engineer strains for simultaneous sugar utilization. Metab. Eng. 20 (2013), 63–72.
    • (2013) Metab. Eng. , vol.20 , pp. 63-72
    • Gawand, P.1    Hyland, P.2    Ekins, A.3    Martin, V.J.J.4    Mahadevan, R.5
  • 8
    • 0036007984 scopus 로고    scopus 로고
    • Global gene expression differences associated with changes in glycolytic flux and growth rate in Escherichia coli during the fermentation of glucose and xylose
    • Gonzalez, R., Tao, H., Shanmugam, K.T., York, S.W., Ingram, L.O., Global gene expression differences associated with changes in glycolytic flux and growth rate in Escherichia coli during the fermentation of glucose and xylose. Biotechnol. Progress. 18 (2002), 6–20.
    • (2002) Biotechnol. Progress. , vol.18 , pp. 6-20
    • Gonzalez, R.1    Tao, H.2    Shanmugam, K.T.3    York, S.W.4    Ingram, L.O.5
  • 9
    • 0028801765 scopus 로고
    • Metabolic load and heterologous gene expression
    • Glick, B.R., Metabolic load and heterologous gene expression. Biotech. Adv. 13 (1995), 247–261.
    • (1995) Biotech. Adv. , vol.13 , pp. 247-261
    • Glick, B.R.1
  • 10
    • 7744237727 scopus 로고    scopus 로고
    • Pyruvate formate lyase and acetate kinase are essential for anaerobic growth of Escherichia coli on xylose
    • Hasona, A., Kim, Y., Healy, F.G., Ingram, L.O., Shanmugam, K.T., Pyruvate formate lyase and acetate kinase are essential for anaerobic growth of Escherichia coli on xylose. J. Bacteriol. 186 (2004), 7593–7600.
    • (2004) J. Bacteriol. , vol.186 , pp. 7593-7600
    • Hasona, A.1    Kim, Y.2    Healy, F.G.3    Ingram, L.O.4    Shanmugam, K.T.5
  • 12
    • 41249084917 scopus 로고    scopus 로고
    • Combining metabolic engineering and metabolic evolution to develop nonrecombinant strains of Escherichia coli C that produce succinate and malate
    • Jantama, K., Haupt, M.J., Svoronos, S.A., Zhang, X., Moore, J.C., Shanmugam, K.T., Ingram, L.O., Combining metabolic engineering and metabolic evolution to develop nonrecombinant strains of Escherichia coli C that produce succinate and malate. Biotechnol. Bioeng. 99 (2008), 1140–1153.
    • (2008) Biotechnol. Bioeng. , vol.99 , pp. 1140-1153
    • Jantama, K.1    Haupt, M.J.2    Svoronos, S.A.3    Zhang, X.4    Moore, J.C.5    Shanmugam, K.T.6    Ingram, L.O.7
  • 13
    • 56449105588 scopus 로고    scopus 로고
    • Eliminating side products and increasing succinate yields in engineered strains of Escherichia coli C
    • Jantama, K., Zhang, X., Moore, J.C., Shanmugam, K.T., Svoronos, S.A., Ingram, L.O., Eliminating side products and increasing succinate yields in engineered strains of Escherichia coli C. Biotechnol. Bioeng. 101 (2008), 881–893.
    • (2008) Biotechnol. Bioeng. , vol.101 , pp. 881-893
    • Jantama, K.1    Zhang, X.2    Moore, J.C.3    Shanmugam, K.T.4    Svoronos, S.A.5    Ingram, L.O.6
  • 14
    • 0020912407 scopus 로고
    • Utilization of xylose by bacteria, yeasts, and fungi
    • Jeffries, T.W., Utilization of xylose by bacteria, yeasts, and fungi. Adv. Biochem. Eng. Biotechnol. 27 (1983), 1–32.
    • (1983) Adv. Biochem. Eng. Biotechnol. , vol.27 , pp. 1-32
    • Jeffries, T.W.1
  • 15
    • 84874608929 scopus 로고    scopus 로고
    • RNA-guided editing of bacterial genomes using CRISPR-Cas systems
    • Jiang, W.Y., Bikard, D., Cox, D., Zhang, F., Marraffini, L.A., RNA-guided editing of bacterial genomes using CRISPR-Cas systems. Nat. Biotechnol. 31 (2013), 233–239.
    • (2013) Nat. Biotechnol. , vol.31 , pp. 233-239
    • Jiang, W.Y.1    Bikard, D.2    Cox, D.3    Zhang, F.4    Marraffini, L.A.5
  • 16
    • 84925355124 scopus 로고    scopus 로고
    • Multigene editing in the Escherichia coli genome via the CRISPR-Cas9 system
    • 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. Microbiol. 81 (2015), 2506–2514.
    • (2015) Appl. Environ. Microbiol. , vol.81 , pp. 2506-2514
    • Jiang, Y.1    Chen, B.2    Duan, C.3    Sun, B.4    Yang, J.5    Yang, S.6
  • 17
    • 38749148516 scopus 로고    scopus 로고
    • Synthetic biology for synthetic chemistry
    • Keasling, J.D., Synthetic biology for synthetic chemistry. Acs Chem. Biol. 3 (2008), 64–76.
    • (2008) Acs Chem. Biol. , vol.3 , pp. 64-76
    • Keasling, J.D.1
  • 18
    • 84931264120 scopus 로고    scopus 로고
    • Simultaneous utilization of glucose and xylose via novel mechanisms in engineered Escherichia coli
    • Kim, S.M., Choi, B.Y., Ryu, Y.S., Jung, S.H., Park, J.M., Kim, G.H., Lee, S.K., Simultaneous utilization of glucose and xylose via novel mechanisms in engineered Escherichia coli. Metab. Eng. 32 (2015), 141–148.
    • (2015) Metab. Eng. , vol.32 , pp. 141-148
    • Kim, S.M.1    Choi, B.Y.2    Ryu, Y.S.3    Jung, S.H.4    Park, J.M.5    Kim, G.H.6    Lee, S.K.7
  • 19
    • 41549085722 scopus 로고    scopus 로고
    • A novel assay system for the measurement of transketolase activity using xylulokinase from Saccharomyces cerevisiae
    • Lee, J.Y., Cheong, D.E., Kim, G.J., A novel assay system for the measurement of transketolase activity using xylulokinase from Saccharomyces cerevisiae. Biotechnol. Lett. 30 (2008), 899–904.
    • (2008) Biotechnol. Lett. , vol.30 , pp. 899-904
    • Lee, J.Y.1    Cheong, D.E.2    Kim, G.J.3
  • 20
    • 84890395226 scopus 로고    scopus 로고
    • Expression-level optimization of a multi-enzyme pathway in the absence of a high-throughput assay
    • Lee, M.E., Aswani, A., Han, A.S., Tomlin, C.J., Dueber, J.E., Expression-level optimization of a multi-enzyme pathway in the absence of a high-throughput assay. Nucleic Acids Res. 41 (2013), 10668–10678.
    • (2013) Nucleic Acids Res. , vol.41 , pp. 10668-10678
    • Lee, M.E.1    Aswani, A.2    Han, A.S.3    Tomlin, C.J.4    Dueber, J.E.5
  • 21
    • 84937538704 scopus 로고    scopus 로고
    • Metabolic engineering of Escherichia coli using CRISPR-Cas9 meditated genome editing
    • Li, Y.F., Lin, Z.Q., Huang, C., Zhang, Y., Wang, Z.W., Tang, Y.J., Chen, T., Zhao, X.M., Metabolic engineering of Escherichia coli using CRISPR-Cas9 meditated genome editing. Metab. Eng. 31 (2015), 13–21.
    • (2015) Metab. Eng. , vol.31 , pp. 13-21
    • Li, Y.F.1    Lin, Z.Q.2    Huang, C.3    Zhang, Y.4    Wang, Z.W.5    Tang, Y.J.6    Chen, T.7    Zhao, X.M.8
  • 22
    • 84862275341 scopus 로고    scopus 로고
    • Combinatorial modulation of galP and glk gene expression for improved alternative glucose utilization
    • Lu, J., Tang, J., Liu, Y., Zhu, X., Zhang, T., Zhang, X., Combinatorial modulation of galP and glk gene expression for improved alternative glucose utilization. Appl. Microbiol. Biotechnol. 93 (2012), 2455–2462.
    • (2012) Appl. Microbiol. Biotechnol. , vol.93 , pp. 2455-2462
    • Lu, J.1    Tang, J.2    Liu, Y.3    Zhu, X.4    Zhang, T.5    Zhang, X.6
  • 23
    • 84888430450 scopus 로고    scopus 로고
    • Expression of Arabidopsis thaliana xylose isomerase gene and its effect on ethanol production in Flammulina velutipes
    • Maehara, T., Takabatake, K., Kaneko, S., Expression of Arabidopsis thaliana xylose isomerase gene and its effect on ethanol production in Flammulina velutipes. Fungal Biol. 117 (2013), 776–782.
    • (2013) Fungal Biol. , vol.117 , pp. 776-782
    • Maehara, T.1    Takabatake, K.2    Kaneko, S.3
  • 25
    • 17444400486 scopus 로고    scopus 로고
    • New tool for metabolic pathway engineering in Escherichia coli: one-step method to modulate expression of chromosomal genes
    • Meynial-Salles, I., Cervin, M.A., Soucaille, P., New tool for metabolic pathway engineering in Escherichia coli: one-step method to modulate expression of chromosomal genes. Appl. Environ. Microbiol. 71 (2005), 2140–2144.
    • (2005) Appl. Environ. Microbiol. , vol.71 , pp. 2140-2144
    • Meynial-Salles, I.1    Cervin, M.A.2    Soucaille, P.3
  • 27
    • 84925348793 scopus 로고    scopus 로고
    • Rational design of a synthetic Entner-Doudoroff pathway for improved and controllable NADPH regeneration
    • Ng, C.Y., Farasat, I., Maranas, C.D., Salis, H.M., Rational design of a synthetic Entner-Doudoroff pathway for improved and controllable NADPH regeneration. Metab. Eng. 29 (2015), 86–96.
    • (2015) Metab. Eng. , vol.29 , pp. 86-96
    • Ng, C.Y.1    Farasat, I.2    Maranas, C.D.3    Salis, H.M.4
  • 28
    • 0034911540 scopus 로고    scopus 로고
    • Use of catabolite repression mutants for fermentation of sugar mixtures to ethanol
    • Nichols, N.N., Dien, B.S., Bothast, R.J., Use of catabolite repression mutants for fermentation of sugar mixtures to ethanol. Appli. Microbiol. Biotechnol. 56 (2001), 120–125.
    • (2001) Appli. Microbiol. Biotechnol. , vol.56 , pp. 120-125
    • Nichols, N.N.1    Dien, B.S.2    Bothast, R.J.3
  • 29
    • 33847309176 scopus 로고    scopus 로고
    • Balancing a heterologous mevalonate pathway for improved isoprenoid production in Escherichia coli
    • Pitera, D.J., Paddon, C.J., Newman, J.D., Keasling, J.D., Balancing a heterologous mevalonate pathway for improved isoprenoid production in Escherichia coli. Metab. Eng. 9 (2007), 193–207.
    • (2007) Metab. Eng. , vol.9 , pp. 193-207
    • Pitera, D.J.1    Paddon, C.J.2    Newman, J.D.3    Keasling, J.D.4
  • 30
    • 78449268845 scopus 로고    scopus 로고
    • Interdependence of cell growth and gene expression: origins and consequences
    • Scott, M., Gunderson, C.W., Mateescu, E.M., Zhang, Z.G., Hwa, T., Interdependence of cell growth and gene expression: origins and consequences. Science 330 (2010), 1099–1102.
    • (2010) Science , vol.330 , pp. 1099-1102
    • Scott, M.1    Gunderson, C.W.2    Mateescu, E.M.3    Zhang, Z.G.4    Hwa, T.5
  • 31
    • 84872131864 scopus 로고    scopus 로고
    • Activating transhydrogenase and NAD kinase in combination for improving isobutanol production
    • Shi, A., Zhu, X., Lu, J., Zhang, X., Ma, Y., Activating transhydrogenase and NAD kinase in combination for improving isobutanol production. Metab. Eng. 16 (2013), 1–10.
    • (2013) Metab. Eng. , vol.16 , pp. 1-10
    • Shi, A.1    Zhu, X.2    Lu, J.3    Zhang, X.4    Ma, Y.5
  • 32
    • 79953896180 scopus 로고    scopus 로고
    • Iron enzyme ribulose-5-phosphate 3-epimerase in Escherichia coli is rapidly damaged by hydrogen peroxide but can be protected by manganese
    • Sobota, J.M., Imlay, J.A., Iron enzyme ribulose-5-phosphate 3-epimerase in Escherichia coli is rapidly damaged by hydrogen peroxide but can be protected by manganese. Proc. Nat. Acad. Sci. USA 108 (2011), 5402–5407.
    • (2011) Proc. Nat. Acad. Sci. USA , vol.108 , pp. 5402-5407
    • Sobota, J.M.1    Imlay, J.A.2
  • 33
    • 0028862915 scopus 로고
    • Transaldolase B of Escherichia coli K-12 cloning of its gene, talB, and characterization of the enzyme from recombinant strains
    • Sprenger, G.A., Schorken, U., Sprenger, G., Sahm, H., Transaldolase B of Escherichia coli K-12 cloning of its gene, talB, and characterization of the enzyme from recombinant strains. J. Bacteriol. 177 (1995), 5930–5936.
    • (1995) J. Bacteriol. , vol.177 , pp. 5930-5936
    • Sprenger, G.A.1    Schorken, U.2    Sprenger, G.3    Sahm, H.4
  • 34
    • 0029146958 scopus 로고
    • Molecular genetics of a receptor protein for D-xylose, encoded by the gene xylF in Escherichia coli
    • Sumiya, M., Davis, E.O., Packman, L.C., Mcdonald, T.P., Henderson, P.J.F., Molecular genetics of a receptor protein for D-xylose, encoded by the gene xylF in Escherichia coli. Recept. Channels 3 (1995), 117–128.
    • (1995) Recept. Channels , vol.3 , pp. 117-128
    • Sumiya, M.1    Davis, E.O.2    Packman, L.C.3    Mcdonald, T.P.4    Henderson, P.J.F.5
  • 35
    • 84880999979 scopus 로고    scopus 로고
    • Activating phosphoenolpyruvate carboxylase and phosphoenolpyruvate carboxykinase in combination for improvement of succinate production
    • Tan, Z., Zhu, X., Chen, J., Li, Q., Zhang, X., Activating phosphoenolpyruvate carboxylase and phosphoenolpyruvate carboxykinase in combination for improvement of succinate production. Appl. Environ. Microbiol. 79 (2013), 4838–4844.
    • (2013) Appl. Environ. Microbiol. , vol.79 , pp. 4838-4844
    • Tan, Z.1    Zhu, X.2    Chen, J.3    Li, Q.4    Zhang, X.5
  • 36
    • 0035039153 scopus 로고    scopus 로고
    • Engineering a homo-ethanol pathway in Escherichia coli: increased glycolytic flux and levels of expression of glycolytic genes during xylose fermentation
    • Tao, H., Gonzalez, R., Martinez, A., Rodriguez, M., Ingram, L.O., Preston, J.F., Shanmugam, K.T., Engineering a homo-ethanol pathway in Escherichia coli: increased glycolytic flux and levels of expression of glycolytic genes during xylose fermentation. J. Bacteriol. 183 (2001), 2979–2988.
    • (2001) J. Bacteriol. , vol.183 , pp. 2979-2988
    • Tao, H.1    Gonzalez, R.2    Martinez, A.3    Rodriguez, M.4    Ingram, L.O.5    Preston, J.F.6    Shanmugam, K.T.7
  • 37
    • 68949161807 scopus 로고    scopus 로고
    • Programming cells by multiplex genome engineering and accelerated evolution
    • Wang, H.H., Isaacs, F.J., Carr, P.A., Sun, Z.Z., Xu, G., Forest, C.R., Church, G.M., Programming cells by multiplex genome engineering and accelerated evolution. Nature 460 (2009), 894–898.
    • (2009) Nature , vol.460 , pp. 894-898
    • Wang, H.H.1    Isaacs, F.J.2    Carr, P.A.3    Sun, Z.Z.4    Xu, G.5    Forest, C.R.6    Church, G.M.7
  • 38
    • 84896930648 scopus 로고    scopus 로고
    • Enhancing the carbon flux and NADPH supply to increase L-isoleucine production in Corynebacterium glutamicum
    • Yin, L.H., Zhao, J.X., Chen, C., Hu, X.Q., Wang, X.Y., Enhancing the carbon flux and NADPH supply to increase L-isoleucine production in Corynebacterium glutamicum. Biotechnol. Bioproc. Eng. 19 (2014), 132–142.
    • (2014) Biotechnol. Bioproc. Eng. , vol.19 , pp. 132-142
    • Yin, L.H.1    Zhao, J.X.2    Chen, C.3    Hu, X.Q.4    Wang, X.Y.5
  • 39
    • 70349576368 scopus 로고    scopus 로고
    • Deletion of methylglyoxal synthase gene (mgsA) increased sugar co-metabolism in ethanol-producing Escherichia coli
    • Yomano, L.P., York, S.W., Shanmugam, K.T., Ingram, L.O., Deletion of methylglyoxal synthase gene (mgsA) increased sugar co-metabolism in ethanol-producing Escherichia coli. Biotechnol. Lett. 31 (2009), 1389–1398.
    • (2009) Biotechnol. Lett. , vol.31 , pp. 1389-1398
    • Yomano, L.P.1    York, S.W.2    Shanmugam, K.T.3    Ingram, L.O.4
  • 43
    • 84875670791 scopus 로고    scopus 로고
    • Engineering central metabolic modules of Escherichia coli for improving beta-carotene production
    • Zhao, J., Li, Q., Sun, T., Zhu, X., Xu, H., Tang, J., Zhang, X., Ma, Y., Engineering central metabolic modules of Escherichia coli for improving beta-carotene production. Metab. Eng. 17 (2013), 42–50.
    • (2013) Metab. Eng. , vol.17 , pp. 42-50
    • Zhao, J.1    Li, Q.2    Sun, T.3    Zhu, X.4    Xu, H.5    Tang, J.6    Zhang, X.7    Ma, Y.8
  • 44
    • 85000936582 scopus 로고    scopus 로고
    • Development of a fast and easy method for Escherichia coli genome editing with CRISPR/Cas9
    • Zhao, D., Yuan, S., Xiong, B., Sun, H., Ye, L., Li, J., Zhang, X., Bi, C., Development of a fast and easy method for Escherichia coli genome editing with CRISPR/Cas9. Microb. Cell Fact., 15, 2016.
    • (2016) Microb. Cell Fact. , vol.15
    • Zhao, D.1    Yuan, S.2    Xiong, B.3    Sun, H.4    Ye, L.5    Li, J.6    Zhang, X.7    Bi, C.8


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