In silico analysis and experimental improvement of taxadiene heterologous biosynthesis in Escherichia coli

Biotechnology and Bioprocess Engineering

Volumn 16, Issue 2, 2011, Pages 205-215

  Meng, Hailin ^a,b,c   Wang, Yong ^b   Hua, Qiang ^c   Zhang, Siliang ^c   Wang, Xiaoning ^a  

^a SOUTH CHINA UNIVERSITY OF TECHNOLOGY   (China)

^b INSTITUTE OF GEOLOGY AND GEOPHYSICS   (China)

^c EAST CHINA UNIVERSITY OF SCIENCE AND TECHNOLOGY   (China)

Author keywords

heterologous biosynthesis; in silico analysis; isopentenyl pyrophosphate; pathway engineering; taxadiene

Indexed keywords

HETEROLOGOUS BIOSYNTHESIS; IN SILICO ANALYSIS; ISOPENTENYL PYROPHOSPHATE; PATHWAY ENGINEERING; TAXADIENES;

BIOSYNTHESIS; CHROMOSOMES; COMPENSATION (PERSONNEL); ESCHERICHIA COLI; LIPIDS; THERMODYNAMIC PROPERTIES;

BIOCHEMISTRY;

ISOPENTENYL DIPHOSPHATE; MEVALONIC ACID; PLASMID VECTOR; TAXADIENE; TERPENOID DERIVATIVE; UNCLASSIFIED DRUG;

ANALYTIC METHOD; ANALYTICAL PARAMETERS; ARTICLE; BACTERIAL STRAIN; CODON USAGE; COMPUTER ANALYSIS; COMPUTER MODEL; CONCENTRATION (PARAMETERS); CONTROLLED STUDY; DRUG SYNTHESIS; ESCHERICHIA COLI; FLUX BALANCE ANALYSIS; GENE DOSAGE; GENETIC ENGINEERING; HETEROLOGOUS EXPRESSION; MAXIMUM THEORETICAL MOLAR YIELD; NONHUMAN; ORGANISMS BY CARBON SOURCE; PHYSICAL CHEMISTRY; THERMODYNAMICS; VOLUMETRY;

ESCHERICHIA COLI;

EID: 79957858524     PISSN: 12268372     EISSN: 19763816     Source Type: Journal    
DOI: 10.1007/s12257-010-0329-z     Document Type: Article

References (37)

1. M. C. Wani H. L. Taylor M. E. Wall P. Coggon A. T. McPhail 1971 Plant antitumor agents. VI. The isolation and structure of taxol, a novel antileukemic and antitumor agent from Taxus brevifolia J. Am. Chem. Soc. 93 2325 2327 10.1021/ja00738a045 1:CAS:528:DyaE3MXktVKisLc%3D
2. S. B. Horwitz 1994 How to make taxol from scratch Nature 367 593 594 10.1038/367593a0 1:STN:280:DyaK2c7ltVKksg%3D%3D (Pubitemid 24069060)
3. D. Frense 2007 Taxanes: Perspectives for biotechnological production Appl. Microbiol. Biotechnol. 73 1233 1240 10.1007/s00253-006-0711-0 1:CAS:528:DC%2BD2sXjsFKktw%3D%3D (Pubitemid 46089494)
4. S. C. Roberts 2007 Production and engineering of terpenoids in plant cell culture Nature Chem. Biol. 3 387 395 10.1038/nchembio.2007.8 1:CAS:528:DC%2BD2sXms1Srsb0%3D (Pubitemid 46956326)
5. K. C. Nicolaou Z. Yang J. J. Liu H. Ueno P. G. Nantermet R. K. Guy C. F. Claiborne J. Renaud E. A. Couladouros K. Paulvannan 1994 Total synthesis of taxol Nature 367 630 634 10.1038/367630a0 1:CAS:528:DyaK2cXksFOksLc%3D (Pubitemid 24069071)
6. J. Kirby J. D. Keasling 2009 Biosynthesis of plant isoprenoids: Perspectives for microbial engineering Annu. Rev. Plant Biol. 60 335 355 10.1146/annurev.arplant.043008.091955 1:CAS:528:DC%2BD1MXntFGlsL8%3D
7. D. K. Ro E. M. Paradise M. Ouellet K. J. Fisher K. L. Newman J. M. Ndungu K. A. Ho R. A. Eachus T. S. Ham J. Kirby M. C. Chang S. T. Withers Y. Shiba R. Sarpong J. D. Keasling 2006 Production of the antimalarial drug precursor artemisinic acid in engineered yeast Nature 440 940 943 10.1038/nature04640 1:CAS:528:DC%2BD28XjsVWktb0%3D
8. M. C. Chang J. D. Keasling 2006 Production of isoprenoid pharmaceuticals by engineered microbes Nat. Chem. Biol. 2 674 681 10.1038/nchembio836 1:CAS:528:DC%2BD28Xht1SrtLfM (Pubitemid 44764209)
9. V. J. Martin D. J. Pitera S. T. Withers J. D. Newman J. D. Keasling 2003 Engineering a mevalonate pathway in Escherichia coli for production of terpenoids Nat. Biotechnol. 21 796 802 10.1038/nbt833 1:CAS:528: DC%2BD3sXkvFertb4%3D (Pubitemid 36791399)
10. H. Tsuruta C. J. Paddon D. Eng J. R. Lenihan T. Horning L. C. Anthony R. Regentin J. D. Keasling N. S. Renninger J. D. Newman 2009 High-level production of amorpha-4,11-diene, a precursor of the antimalarial agent artemisinin, in Escherichia coli PLoS One. 4 e4489 10.1371/journal.pone.0004489
11. D. Morrone L. Lowry M. K. Determan D. M. Hershey M. Xu R. J. Peters 2010 Increasing diterpene yield with a modular metabolic engineering system in E. coli: Comparison of MEV and MEP isoprenoid precursor pathway engineering Appl. Microbiol. Biotechnol. 85 1893 1906 10.1007/s00253-009-2219-x 1:CAS:528:DC%2BC3cXhtVaqu7o%3D
12. Q. Huang C. A. Roessner R. Croteau A. I. Scott 2001 Engineering Escherichia coli for the synthesis of taxadiene, a key intermediate in the biosynthesis of taxol Bioorg. Med. Chem. 9 2237 2242 10.1016/S0968-0896(01) 00072-4 1:CAS:528:DC%2BD3MXmslartLw%3D (Pubitemid 32834614)
13. O. Besumbes S. Sauret-Gueto M. A. Phillips S. Imperial M. Rodriguez-Concepcion A. Boronat 2004 Metabolic engineering of isoprenoid biosynthesis in Arabidopsis for the production of taxadiene, the first committed precursor of Taxol Biotechnol. Bioeng. 88 168 175 10.1002/bit.20237 1:CAS:528:DC%2BD2cXot1Kisr4%3D (Pubitemid 39422988)
14. J. M. Dejong Y. Liu A. P. Bollon R. M. Long S. Jennewein D. Williams R. B. Croteau 2006 Genetic engineering of taxol biosynthetic genes in Saccharomyces cerevisiae Biotechnol. Bioeng. 93 212 224 10.1002/bit.20694 1:CAS:528:DC%2BD28Xht1Oisbg%3D
15. B. Engels P. Dahm S. Jennewein 2008 Metabolic engineering of taxadiene biosynthesis in yeast as a first step towards Taxol (Paclitaxel) production Metab. Eng. 10 201 206 10.1016/j.ymben.2008.03.001 1:CAS:528: DC%2BD1cXnt1ekur8%3D
16. L. Z. Yuan P. E. Rouviere R. A. Larossa W. Suh 2006 Chromosomal promoter replacement of the isoprenoid pathway for enhancing carotenoid production in E coli. Metab. Eng. 8 79 90 10.1016/j.ymben.2005.08.005 1:CAS:528: DC%2BD28XhsFKktg%3D%3D (Pubitemid 43017842)
17. Y. S. Jin G. Stephanopoulos 2007 Multi-dimensional gene target search for improving lycopene biosynthesis in Escherichia coli Metab. Eng. 9 337 347 10.1016/j.ymben.2007.03.003 1:CAS:528:DC%2BD2sXotlSks7o%3D (Pubitemid 47102684)
18. H. Alper K. Miyaoku G. Stephanopoulos 2005 Construction of lycopene-overproducing E. coli strains by combining systematic and combinatorial gene knockout targets Nat. Biotechnol. 23 612 616 10.1038/nbt1083 1:CAS:528:DC%2BD2MXjvV2ntb0%3D (Pubitemid 41724901)
19. A. M. Feist C. S. Henry J. L. Reed M. Krummenacker A. R. Joyce P. D. Karp L. J. Broadbelt V. Hatzimanikatis B. O. Palsson 2007 A genome-scale metabolic reconstruction for Escherichia coli K-12 MG1655 that accounts for 1260 ORFs and thermodynamic information Mol. Syst. Biol. 3 121 10.1038/msb4100155 (Pubitemid 47013445)
20. M. J. Herrgard N. Swainston P. Dobson W. B. Dunn K. Y. Arga M. Arvas N. Bluthgen S. Borger R. Costenoble M. Heinemann M. Hucka N. L. Novere P. Li W. Liebermeister M. L. Mo A. P. Oliveira D. Petranovic S. Pettifer E. Simeonidis K. Smallbone I. Spasic D. Weichart R. Brent D. S. Broomhead H. V. Westerhoff B. Kirdar M. Penttila E. Klipp B. O. Palsson U. Sauer S. G. Oliver P. Mendes J. Nielsen D. B. Kell 2008 A consensus yeast metabolic network reconstruction obtained from a community approach to systems biology Nat. Biotechnol. 26 1155 1160 10.1038/nbt1492 1:CAS:528:DC%2BD1cXht1aisrvM
21. Y. K. Oh B. O. Palsson S. M. Park C. H. Schilling R. Mahadevan 2007 Genome-scale reconstruction of metabolic network in Bacillus subtilis based on high-throughput phenotyping and gene essentiality data J. Biol. Chem. 282 28791 28799 10.1074/jbc.M703759200 1:CAS:528:DC%2BD2sXhtVOmtbrE (Pubitemid 47606013)
22. S. A. Becker A. M. Feist M. L. Mo G. Hannum B. O. Palsson M. J. Herrgard 2007 Quantitative prediction of cellular metabolism with constraint-based models: The COBRA Toolbox Nat. Protoc. 2 727 738 10.1038/nprot.2007.99 1:CAS:528:DC%2BD2sXhtFGntbfI (Pubitemid 47040034)
23. A. Varma B. O. Palsson 1993 Metabolic capabilities of Escherichia coli: I. Synthesis of biosynthetic precursors and cofactors J. Theor. Biol. 165 477 502 10.1006/jtbi.1993.1202 1:CAS:528:DyaK2cXivFels78%3D (Pubitemid 24044950)
24. A. Varmar B. O. Palsson 1993 Metabolic capabilities of Escherichia-coli: 2. Optimal-growth patterns J. Theor. Biol. 165 503 522 10.1006/jtbi.1993.1203 (Pubitemid 24044951)
25. J. Gonzalez-Lergier L. J. Broadbelt V. Hatzimanikatis 2006 Analysis of the maximum theoretical yield for the synthesis of erythromycin precursors in Escherichia coli Biotechnol. Bioeng. 95 638 644 10.1002/bit.20925 1:CAS:528:DC%2BD28XhtFarsbvI (Pubitemid 44671465)
26. D. Yu H. M. Ellis E. C. Lee N. A. Jenkins N. G. Copeland D. L. Court 2000 An efficient recombination system for chromosome engineering in Escherichia coli Proc. Natl. Acad. Sci. USA. 97 5978 5983 10.1073/pnas.100127597 1:CAS:528:DC%2BD3cXjvFarsrk%3D (Pubitemid 30367509)
27. K. A. Datsenko B. L. Wanner 2000 One-step inactivation of chromosomal genes in Escherichia coli K-12 using PCR products Proc. Natl. Acad. Sci. USA. 97 6640 6645 10.1073/pnas.120163297 1:CAS:528:DC%2BD3cXktFais7c%3D (Pubitemid 30412767)
28. Y. Wang B. A. Pfeifer 2008 6-deoxyerythronolide B production through chromosomal localization of the deoxyerythronolide B synthase genes in E. coli Metab. Eng. 10 33 38 10.1016/j.ymben.2007.09.002 (Pubitemid 350298911)
29. F. X. Cunningham Jr. Z. Sun D. Chamovitz J. Hirschberg E. Gantt 1994 Molecular structure and enzymatic function of lycopene cyclase from the cyanobacterium Synechococcus sp strain PCC7942 Plant Cell. 6 1107 1121 10.1105/tpc.6.8.1107 1:CAS:528:DyaK2MXltlektA%3D%3D (Pubitemid 2137244)
30. Sambrook, J. and D. W. Russell (2001) Molecular cloning: A laboratory manual. 3rd ed., Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY.
31. J. Lau C. Tran P. Licari J. Galazzo 2004 Development of a high cell-density fed-batch bioprocess for the heterologous production of 6-deoxyerythronolide B in Escherichia coli J. Biotechnol. 110 95 103 10.1016/j.jbiotec.2004.02.001 1:CAS:528:DC%2BD2cXjtF2rur8%3D (Pubitemid 38510257)
32. B. Pfeifer Z. Hu P. Licari C. Khosla 2002 Process and metabolic strategies for improved production of Escherichia coliderived 6-deoxyerythronolide B Appl. Env. Microbiol. 68 3287 3292 10.1128/AEM.68.7.3287- 3292.2002 1:CAS:528:DC%2BD38Xlt1Sntro%3D (Pubitemid 34734022)
33. K. L. Jones S. W. Kim J. D. Keasling 2000 Low-copy plasmids can perform as well as or better than high-copy plasmids for metabolic engineering of bacteria Metab. Eng. 2 328 338 10.1006/mben.2000.0161 1:CAS:528: DC%2BD3MXlsFWnsw%3D%3D (Pubitemid 32122506)
34. J. S. Edwards B. O. Palsson 2000 Metabolic flux balance analysis and the in silico analysis of Escherichia coli K-12 gene deletions BMC Bioinformatics 1 1 10.1186/1471-2105-1-1 1:STN:280:DC%2BD3srgsF2nsQ%3D%3D (Pubitemid 38751153)
35. D. Segre D. Vitkup G. M. Church 2002 Analysis of optimality in natural and perturbed metabolic networks Proc. Natl. Acad. Sci. USA. 99 15112 15117 10.1073/pnas.232349399 1:CAS:528:DC%2BD38Xpt1yru7Y%3D (Pubitemid 35334618)
36. H. Alper G. Stephanopoulos 2008 Uncovering the gene knockout landscape for improved lycopene production in E. coli Appl. Microbiol. Biotechnol. 78 801 810 10.1007/s00253-008-1373-x 1:CAS:528:DC%2BD1cXjsFGhtb0%3D
37. J. H. Park K. H. Lee T. Y. Kim S. Y. Lee 2007 Metabolic engineering of Escherichia coli for the production of L-valine based on transcriptome analysis and in silico gene knockout simulation Proc. Natl. Acad. Sci. USA. 104 7797 7802 10.1073/pnas.0702609104 1:CAS:528:DC%2BD2sXmtFCitrc%3D (Pubitemid 47185831)