Bio-based production of C2-C6 platform chemicals

Biotechnology and Bioengineering

Volumn 109, Issue 10, 2012, Pages 2437-2459

  Jang, Yu Sin ^a   Kim, Byoungjin ^a   Shin, Jae Ho ^a   Choi, Yong Jun ^a   Choi, Sol ^a   Song, Chan Woo ^a   Lee, Joungmin ^a   Park, Hye Gwon ^a   Lee, Sang Yup ^a  

^a Korea Advanced Institute of Science and Technology (KAIST)   (South Korea)

Author keywords

Biomass; Building block chemical; Metabolic engineering; Platform chemical; Polymer; Systems metabolic engineering

Indexed keywords

BUILDING BLOCKES; CHEMICAL INTERMEDIATES; CURRENT STATUS; FOSSIL RESOURCES; MICROBIAL PRODUCTION; MICROBIAL STRAIN; RENEWABLE RESOURCE; SUSTAINABLE TECHNOLOGY;

BIOMASS; CHEMICAL COMPOUNDS; CHEMICAL CONTAMINATION; METABOLIC ENGINEERING; ODORS; POLYMERS; SUSTAINABLE DEVELOPMENT;

INDICATORS (CHEMICAL);

1,4 BUTANEDIOL; 2,3 BUTANEDIOL; ACETIC ACID; ALCOHOL; ANTHRANILIC ACID; BUTANOL; BUTYRIC ACID; CADAVERINE; CARBOXYLIC ACID; CATECHOL; CHEMICAL AGENT; ETHYLENE; ETHYLENE GLYCOL; FUMARIC ACID; GLYCOL; HYDRACRYLIC ACID; ISOPENTYL ALCOHOL; ITACONIC ACID; LACTIC ACID; MALIC ACID; PENTANOL; PHENOL; POLYMER; PROPANOL; PROPIONIC ACID; PROPYLENE; PROPYLENE GLYCOL; SUCCINIC ACID; UNINDEXED DRUG; XYLITOL;

BIOFUEL PRODUCTION; BIOMASS PRODUCTION; BIOTECHNOLOGICAL PRODUCTION; FEASIBILITY STUDY; FED BATCH FERMENTATION; FOSSIL; INDUSTRY; METABOLIC ENGINEERING; MICROORGANISM; NONHUMAN; POLYMERIZATION; REVIEW;

BACTERIA; BIOTECHNOLOGY; METABOLIC NETWORKS AND PATHWAYS; ORGANIC CHEMICALS;

EID: 84865362287     PISSN: 00063592     EISSN: 10970290     Source Type: Journal    
DOI: 10.1002/bit.24599     Document Type: Review

References (199)

1. Andres-Barrao C, Falquet L, Calderon-Copete SP, Descombes P, Ortega Perez R, Barja F. 2011. Genome sequences of the high-acetic acid-resistant bacteria Gluconacetobacter europaeus LMG 18890T and G. europaeus LMG 18494 (reference strains), G. europaeus 5P3, and Gluconacetobacter oboediens 174Bp2 (isolated from vinegar). J Bacteriol 193: 2670-2671.
2. Ashok S, Raj SM, Rathnasingh C, Park S. 2011. Development of recombinant Klebsiella pneumoniae dhaT strain for the co-production of 3-hydroxypropionic acid and 1, 3-propanediol from glycerol. Appl Microbiol Biotechnol 90: 1253-1265.
3. Atsumi S, Liao JC. 2008. Directed evolution of Methanococcus jannaschii citramalate synthase for biosynthesis of 1-propanol and 1-butanol by Escherichia coli. Appl Environ Microbiol 74: 7802-7808.
4. Atsumi S, Cann AF, Connor MR, Shen CR, Smith KM, Brynildsen MP, Chou KJ, Hanai T, Liao JC. 2008a. Metabolic engineering of Escherichia coli for 1-butanol production. Metab Eng 10: 305-311.
5. Atsumi S, Hanai T, Liao JC. 2008b. Non-fermentative pathways for synthesis of branched-chain higher alcohols as biofuels. Nature 451: 86-89.
6. Axcell BC, Geary PJ. 1973. The metabolism of benzene by bacteria. Purification and some properties of the enzyme cis-1, 2-dihydroxycyclohexa-3, 5-diene (nicotinamide adenine dinucleotide) oxidoreductase (cis-benzene glycol dehydrogenase). Biochem J 136: 927-934.
7. Azuma Y, Hosoyama A, Matsutani M, Furuya N, Horikawa H, Harada T, Hirakawa H, Kuhara S, Matsushita K, Fujita N, et al. 2009. Whole-genome analyses reveal genetic instability of Acetobacter pasteurianus. Nucleic Acids Res 37: 5768-5783.
8. Balderas-Hernandez VE, Sabido-Ramos A, Silva P, Cabrera-Valladares N, Hernandez-Chavez G, Baez-Viveros JL, Martinez A, Bolivar F, Gosset G. 2009. Metabolic engineering for improving anthranilate synthesis from glucose in Escherichia coli. Microb Cell Fact 8: 19.
9. Bandounas L, Ballerstedt H, de Winde JH, Ruijssenaars HJ. 2011. Redundancy in putrescine catabolism in solvent tolerant Pseudomonas putida S12. J Biotechnol 154: 1-10.
10. Battat E, Peleg Y, Bercovitz A, Rokem JS, Goldberg I. 1991. Optimization of L-malic acid production by Aspergillus flavus in a stirred fermentor. Biotechnol Bioeng 37: 1108-1116.
11. Becker J, Wittmann C. 2012. Systems and synthetic metabolic engineering for amino acid production-The heartbeat of industrial strain development. Curr Opin Biotechnol. DOI: 10.1016/j.copbio.2011.12.025.
12. Blombach B, Riester T, Wieschalka S, Ziert C, Youn JW, Wendisch VF, Eikmanns BJ. 2011a. Corynebacterium glutamicum tailored for efficient isobutanol production. Appl Environ Microbiol 77: 3300-3310.
13. Blombach B, Riester T, Wieschalka S, Ziert C, Youn JW, Wendisch VF, Eikmanns BJ. 2011b. Corynebacterium glutamicum tailored for efficient isobutanol production. Appl Environ Microbiol 77: 3300-3310.
14. Boussie TR, Dias EL, Fresco ZM, Murphy VJ, Shoemaker J, Archer R, Jiang H, Rennovia, Inc, Assignee. 2010. Production of adipic acid and derivatives from carbohydrate-containing materials. United States patent US 2010/0317823 A1.
15. Boyaval P, Corre C. 1995. Production of propionic acid. Lait 75: 453-461.
16. Bruggeman JP, Bettinger CJ, Nijst CLE, Kohane DS, Langer R. 2008. Biodegradable xylitol-based polymers. Adv Mater 20: 1922-1927.
17. Bryant MP, Small N. 1956. The anaerobic monotrichous butyric acid-producing curved rod-shaped bacteria of the rumen. J Bacteriol 72: 16-21.
18. Burgard AP, Pharkya P, Osterhout RE, Genomatica, Assignee. 2010. Microorganisms for the production of adipic acid and other compounds. United States patent US 7799545 B2.
19. Burk MJ, Burgard AP, Sun J, Osterhout RE, Pharkya P. 2011. Microorganisms and methods for the biosynthesis of butadiene. United States patent US 2011/0300597 A1.
20. Buschke N, Schroder H, Wittmann C. 2011. Metabolic engineering of Corynebacterium glutamicum for production of 1, 5-diaminopentane from hemicellulose. Biotechnol J 6: 306-317.
21. Cann AF, Liao JC. 2008. Production of 2-methyl-1-butanol in engineered Escherichia coli. Appl Microbiol Biotechnol 81: 89-98.
22. Cao NJ, Du JX, Gong CS, Tsao GT. 1996. Simultaneous production and recovery of fumaric acid from immobilized Rhizopus oryzae with a rotary biofilm contactor and an adsorption column. Appl Environ Microbiol 62: 2926-2931.
23. Carbonell P, Fichera D, Pandit SB, Faulon JL. 2012. Enumerating metabolic pathways for the production of heterologous target chemicals in chassis organisms. BMC Syst Biol 6: 10.
24. Celinska E, Grajek W. 2009. Biotechnological production of 2, 3-butanediol-Current state and prospects. Biotechnol Adv 27: 715-725.
25. Centeno JA, Menendez S, Hermida M, Rodriguez-Otero JL. 1999. Effects of the addition of Enterococcus faecalis in Cebreiro cheese manufacture. Int J Food Microbiol 48: 97-111.
26. Chen Y. 2011. Development and application of co-culture for ethanol production by co-fermentation of glucose and xylose: A systematic review. J Ind Microbiol Biotechnol 38: 581-597.
27. Chu BC, Lee H. 2007. Genetic improvement of Saccharomyces cerevisiae for xylose fermentation. Biotechnol Adv 25: 425-441.
28. Cirino PC, Chin JW, Ingram LO. 2006. Engineering Escherichia coli for xylitol production from glucose-xylose mixtures. Biotechnol Bioeng 95: 1167-1176.
29. Clomburg JM, Gonzalez R. 2011. Metabolic engineering of Escherichia coli for the production of 1, 2-propanediol from glycerol. Biotechnol Bioeng 108: 867-879.
30. Connor MR, Liao JC. 2008. Engineering of an Escherichia coli strain for the production of 3-methyl-1-butanol. Appl Environ Microbiol 74: 5769-5775.
31. Coral J, Karp SG, Porto de Souza Vandenberghe L, Parada JL, Pandey A, Soccol CR. 2008. Batch fermentation model of propionic acid production by Propionibacterium acidipropionici in different carbon sources. Appl Biochem Biotechnol 151: 333-341.
32. Corma A, Iborra S, Velty A. 2007. Chemical routes for the transformation of biomass into chemicals. Chem Rev 107: 2411-2502.
33. Cukalovic A, Stevens CV. 2008. Feasibility of production methods for succinic acid derivatives: A marriage of renewable resources and chemical technology. Biofuel Bioprod Bior 2: 505-529.
34. Curran KA, Alper HS. 2012. Expanding the chemical palate of cells by combining systems biology and metabolic engineering. Metab Eng 14: 289-297.
35. Deanda K, Zhang M, Eddy C, Picataggio S. 1996. Development of an arabinose-fermenting Zymomonas mobilis strain by metabolic pathway engineering. Appl Environ Microbiol 62: 4465-4470.
36. Dellomonaco C, Clomburg JM, Miller EN, Gonzalez R. 2011. Engineered reversal of the beta-oxidation cycle for the synthesis of fuels and chemicals. Nature 476: 355-359.
37. Djurdjevic I, Zelder O, Buckel W. 2011. Production of glutaconic acid in a recombinant Escherichia coli strain. Appl Environ Microbiol 77: 320-322.
38. Draths KM, Frost JW. 1995. Environmentally compatible synthesis of catechol from D-glucose. J Am Chem Soc 117: 2395-2400.
39. Dueber JE, Wu GC, Malmirchegini GR, Moon TS, Petzold CJ, Ullal AV, Prather KL, Keasling JD. 2009. Synthetic protein scaffolds provide modular control over metabolic flux. Nat Biotechnol 27: 753-759.
40. Erickson B, Nelson JE, Winters P. 2012. Perspective on opportunities in industrial biotechnology in renewable chemicals. Biotechnol J 7: 176-185.
41. Feng XH, Chen F, Xu H, Wu B, Yao J, Ying HJ, Ouyang PK. 2010. Propionic acid fermentation by Propionibacterium freudenreichii CCTCC M207015 in a multi-point fibrous-bed bioreactor. Bioprocess Biosyst Eng 33: 1077-1085.
42. Fukaya M, Park YS, Toda K. 1992. Improvement of acetic acid fermentation by molecular breeding and process development. J Appl Bacteriol 73: 447-454.
43. Geddes CC, Nieves IU, Ingram LO. 2011. Advances in ethanol production. Curr Opin Biotechnol 22: 312-319.
44. George HA, Johnson JL, Moore WE, Holdeman LV, Chen JS. 1983. Acetone, isopropanol, and butanol production by Clostridium beijerinckii (syn. Clostridium butylicum) and Clostridium aurantibutyricum. Appl Environ Microbiol 45: 1160-1163.
45. Gonzalez-Pajuelo M, Meynial-Salles I, Mendes F, Andrade JC, Vasconcelos I, Soucaille P. 2005. Metabolic engineering of Clostridium acetobutylicum for the industrial production of 1, 3-propanediol from glycerol. Metab Eng 7: 329-336.
46. Granstrom TB, Izumori K, Leisola M. 2007. A rare sugar xylitol. Part II: Biotechnological production and future applications of xylitol. Appl Microbiol Biotechnol 74: 273-276.
47. Gray KA, Zhao L, Emptage M. 2006. Bioethanol. Curr Opin Chem Biol 10: 141-146.
48. Green EM, Bennett GN. 1998. Genetic manipulation of acid and solvent formation in Clostridium acetobutylicum ATCC 824. Biotechnol Bioeng 58: 215-221.
49. Green EM, Boynton ZL, Harris LM, Rudolph FB, Papoutsakis ET, Bennett GN. 1996. Genetic manipulation of acid formation pathways by gene inactivation in Clostridium acetobutylicum ATCC 824. Microbiology 142: 2079-2086.
50. Guettler MV, Jain MK, Rumler D. 1996. Method for making succinic acid, bacterial variants for use in the process, and methods for obtaining variants. United States patent US 5573931.
51. Guettler MV, Rumler D, Jain MK. 1999. Actinobacillus succinogenes sp. nov., a novel succinic-acid-producing strain from the bovine rumen. Int J Syst Bacteriol 49: 207-216.
52. Gungormusler M, Gonen C, Ozdemir G, Azbar N. 2010. 1, 3-Propanediol production potential of Clostridium saccharobutylicum NRRL B-643. N Biotechnol 27: 782-788.
53. Ha SJ, Galazka JM, Kim SR, Choi JH, Yang X, Seo JH, Glass NL, Cate JH, Jin YS. 2011. Engineered Saccharomyces cerevisiae capable of simultaneous cellobiose and xylose fermentation. Proc Natl Acad Sci USA 108: 504-509.
54. Hahn-Hagerdal B, Karhumaa K, Fonseca C, Spencer-Martins I, Gorwa-Grauslund MF. 2007. Towards industrial pentose-fermenting yeast strains. Appl Microbiol Biotechnol 74: 937-953.
55. Hanai T, Atsumi S, Liao JC. 2007. Engineered synthetic pathway for isopropanol production in Escherichia coli. Appl Environ Microbiol 73: 7814-7818.
56. Harris LM, Desai RP, Welker NE, Papoutsakis ET. 2000. Characterization of recombinant strains of the Clostridium acetobutylicum butyrate kinase inactivation mutant: Need for new phenomenological models for solventogenesis and butanol inhibition? Biotechnol Bioeng 67: 1-11.
57. Hatti-Kaul R, Tornvall U, Gustafsson L, Borjesson P. 2007. Industrial biotechnology for the production of bio-based chemicals-A cradle-to-grave perspective. Trends Biotechnol 25: 119-124.
58. Hayakawa K, Kimura M, Kasaha K, Matsumoto K, Sansawa H, Yamori Y. 2004. Effect of a gamma-aminobutyric acid-enriched dairy product on the blood pressure of spontaneously hypertensive and normotensive Wistar-Kyoto rats. Brit J Nutr 92: 411-417.
59. Higashide W, Li Y, Yang Y, Liao JC. 2011. Metabolic engineering of Clostridium cellulolyticum for production of isobutanol from cellulose. Appl Environ Microbiol 77: 2727-2733.
60. Hohenschutz H, Franz D, Buelow H, Dinkhauser G. 1974. Production of propionic acid. United States patent US 3835185.
61. Hong KK, Nielsen J. 2012. Metabolic engineering of Saccharomyces cerevisiae: A key cell factory platform for future biorefineries. Cell Mol Life Sci. DOI: 10.1007/s00018-012-0945-1.
62. Huang J, Cai J, Wang J, Zhu X, Huang L, Yang ST, Xu Z. 2011. Efficient production of butyric acid from Jerusalem artichoke by immobilized Clostridium tyrobutyricum in a fibrous-bed bioreactor. Bioresour Technol 102: 3923-3926.
63. Inoue K, Shirai T, Ochiai H, Kasao M, Hayakawa K, Kimura M, Sansawa H. 2003. Blood-pressure-lowering effect of a novel fermented milk containing gamma-aminobutyric acid (GABA) in mild hypertensives. Eur J Clin Nutr 57: 490-495.
64. Inui M, Suda M, Kimura S, Yasuda K, Suzuki H, Toda H, Yamamoto S, Okino S, Suzuki N, Yukawa H. 2008. Expression of Clostridium acetobutylicum butanol synthetic genes in Escherichia coli. Appl Microbiol Biotechnol 77: 1305-1316.
65. Jain R, Yan Y. 2011. Dehydratase mediated 1-propanol production in metabolically engineered Escherichia coli. Microb Cell Fact 10: 97.
66. Jakobs C, Jaeken J, Gibson KM. 1993. Inherited disorders of gaba-metabolism. J Inherit Metab Dis 16: 704-715.
67. Jang YS, Lee J, Malaviya A, Seung DY, Cho JH, Lee SY. 2012a. Butanol production from renewable biomass: Rediscovery of metabolic pathways and metabolic engineering. Biotechnol J 7: 186-198.
68. Jang YS, Park JM, Choi S, Choi YJ, Seung DY, Cho JH, Lee SY. 2012b. Engineering of microorganisms for the production of biofuels and perspectives based on systems metabolic engineering approaches. Biotechnol Adv. DOI: 10.1016/j.biotechadv.2011.08.015.
69. Jantama K, Haupt MJ, Svoronos SA, Zhang XL, Moore JC, Shanmugam KT, Ingram LO. 2008a. Combining metabolic engineering and metabolic evolution to develop nonrecombinant strains of Escherichia coli C that produce succinate and malate. Biotechnol Bioeng 99: 1140-1153.
70. Jantama K, Zhang X, Moore JC, Shanmugam KT, Svoronos SA, Ingram LO. 2008b. Eliminating side products and increasing succinate yields in engineered strains of Escherichia coli C. Biotechnol Bioeng 101: 881-893.
71. Jarboe LR, Grabar TB, Yomano LP, Shanmugan KT, Ingram LO. 2007. Development of ethanologenic bacteria. Adv Biochem Eng Biotechnol 108: 237-261.
72. Jeffries TW. 2006. Engineering yeasts for xylose metabolism. Curr Opin Biotechnol 17: 320-326.
73. Jeffries TW, Jin YS. 2004. Metabolic engineering for improved fermentation of pentoses by yeasts. Appl Microbiol Biotechnol 63: 495-509.
74. Jiang L, Wang J, Liang S, Wang X, Cen P, Xu Z. 2009. Butyric acid fermentation in a fibrous bed bioreactor with immobilized Clostridium tyrobutyricum from cane molasses. Bioresour Technol 100: 3403-3409.
75. Jiang L, Wang J, Liang S, Wang X, Cen P, Xu Z. 2010. Production of butyric acid from glucose and xylose with immobilized cells of Clostridium tyrobutyricum in a fibrous-bed bioreactor. Appl Biochem Biotechnol 160: 350-359.
76. Jiang L, Wang J, Liang S, Cai J, Xu Z, Cen P, Yang S, Li S. 2011. Enhanced butyric acid tolerance and bioproduction by Clostridium tyrobutyricum immobilized in a fibrous bed bioreactor. Biotechnol Bioeng 108: 31-40.
77. Jo JH, Lee DS, Park JM. 2008. The effects of pH on carbon material and energy balances in hydrogen-producing Clostridium tyrobutyricum JM1. Bioresour Technol 99: 8485-8491.
78. Jo JH, Lee DS, Kim J, Park JM. 2009. Effect of initial glucose concentrations on carbon material and energy balances in hydrogen-producing Clostridium tyrobutyricum JM1. J Microbiol Biotechnol 19: 291-298.
79. Joachimsthal E, Haggett K, Rogers P. 1999. Evaluation of recombinant strains of Zymomonas mobilis for ethanol production from glucose/xylose media. Appl Biochem Biotechnol 77: 147-157.
80. Jojima T, Inui M, Yukawa H. 2008. Production of isopropanol by metabolically engineered Escherichia coli. Appl Microbiol Biotechnol 77: 1219-1224.
81. Jones DT, Woods DR. 1986. Acetone-butanol fermentation revisited. Microbiol Rev 50: 484-524.
82. Jung YK, Kim TY, Park SJ, Lee SY. 2010. Metabolic engineering of Escherichia coli for the production of polylactic acid and its copolymers. Biotechnol Bioeng 105: 161-171.
83. Kamm B. 2007. Production of platform chemicals and synthesis gas from biomass. Angew Chem Int Ed Engl 46: 5056-5058.
84. Kenealy W, Zaady E, du Preez JC, Stieglitz B, Goldberg I. 1986. Biochemical aspects of fumaric acid accumulation by Rhizopus arrhizus. Appl Environ Microbiol 52: 128-133.
85. Kim Y, Ingram LO, Shanmugam KT. 2007. Construction of an Escherichia coli K-12 mutant for homoethanologenic fermentation of glucose or xylose without foreign genes. Appl Environ Microbiol 73: 1766-1771.
86. Kim TY, Sohn SB, Kim HU, Lee SY. 2008. Strategies for systems-level metabolic engineering. Biotechnol J 3: 612-623.
87. Kim JY, Lee MY, Ji GE, Lee YS, Hwang KT. 2009. Production of gamma-aminobutyric acid in black raspberry juice during fermentation by Lactobacillus brevis GABA100. Int J Food Microbiol 130: 12-16.
88. Kind S, Jeong WK, Schröder H, Wittmann C. 2010. Systems-wide metabolic pathway engineering in Corynebacterium glutamicum for bio-based production of diaminopentane. Metab Eng 12: 341-351.
89. Kirschner M. 2006. n-Butanol. Chemical market reporter January 30-February 5. ABI/INFORM Global.
90. Krivoruchko A, Siewers V, Nielsen J. 2011. Opportunities for yeast metabolic engineering: Lessons from synthetic biology. Biotechnol J 6: 262-276.
91. Kroschwitz JI, Howe-Grant M. 1993. Encyclopedia of chemical technology. New York: John Wiley and Sons.
92. Lah SL. 2003. Encyclopaedia of petroleum science and engineering. India: Gyan Publishing House.
93. Lau MW, Dale BE. 2009. Cellulosic ethanol production from AFEX-treated corn stover using Saccharomyces cerevisiae 424A(LNH-ST). Proc Natl Acad Sci USA 106: 1368-1373.
94. Le Vo TD, Kim TW, Hong SH. 2011. Effects of glutamate decarboxylase and gamma-aminobutyric acid (GABA) transporter on the bioconversion of GABA in engineered Escherichia coli. Bioprocess Biosyst Eng 35: 645-650.
95. Lee W, Dasilva NA. 2006. Application of sequential integration for metabolic engineering of 1, 2-propanediol production in yeast. Metab Eng 8: 58-65.
96. Lee PC, Lee SY, Hong SH, Chang HN. 2002. Isolation and characterization of a new succinic acid-producing bacterium, Mannheimia succiniciproducens MBEL55E, from bovine rumen. Appl Microbiol Biotechnol 58: 663-668.
97. Lee SJ, Song H, Lee SY. 2006. Genome-based metabolic engineering of Mannheimia succiniciproducens for succinic acid production. Appl Environ Microbiol 72: 1939-1948.
98. Lee KH, Park JH, Kim TY, Kim HU, Lee SY. 2007. Systems metabolic engineering of Escherichia coli for L-threonine production. Mol Sys Biol 3: 149.
99. Lee SY, Park JH, Jang SH, Nielsen LK, Kim J, Jung KS. 2008. Fermentative butanol production by Clostridia. Biotechnol Bioeng 101: 209-228.
100. Lee JW, Kim HU, Choi S, Yi J, Lee SY. 2011a. Microbial production of building block chemicals and polymers. Curr Opin Biotechnol 22: 758-767.
101. Lee JW, Kim TY, Jang YS, Choi S, Lee SY. 2011b. Systems metabolic engineering for chemicals and materials. Trends Biotechnol 29: 370-378.
102. Lee J, Jang YS, Choi SJ, Im JA, Song H, Cho JH, Seung do Y, Papoutsakis ET, Bennett GN, Lee SY. 2012a. Metabolic engineering of Clostridium acetobutylicum ATCC 824 for isopropanol-butanol-ethanol fermentation. Appl Environ Microbiol 78: 1416-1423.
103. Lee JW, Na D, Park JM, Lee J, Choi S, Lee SY. 2012b. Systems metabolic engineering of microorganisms for natural and non-natural chemicals. Nat Chem Biol 8: 536-546.
104. Li WS, Xie DM, Frost JW. 2005. Benzene-free synthesis of catechol: Interfacing microbial and chemical catalysis. J Am Chem Soc 127: 2874-2882.
105. Li HX, Qiu T, Huang GD, Cao YS. 2010. Production of gamma-aminobutyric acid by Lactobacillus brevis NCL912 using fed-batch fermentation. Microb Cell Fact 9: 85.
106. Li S, Wen J, Jia X. 2011. Engineering Bacillus subtilis for isobutanol production by heterologous Ehrlich pathway construction and the biosynthetic 2-ketoisovalerate precursor pathway overexpression. Appl Microbiol Biotechnol 91: 577-589.
107. Liao JC, Chang P, Industrial Technology Research Institute, Assignee. 2010. Genetically modified microorganisms for producing itaconic acid with high yields. United States patent US 2010/0285546 A1.
108. Lin Y, Tanaka S. 2006. Ethanol fermentation from biomass resources: Current state and prospects. Appl Microbiol Biotechnol 69: 627-642.
109. Litsanov B, Brocker M, Bott M. 2012a. Towards homosuccinate fermentation: metabolic engineering of Corynebacterium glutamicum for anaerobic succinate production from glucose and formate. Appl Environ Microbiol 78: 3327-3337.
110. Litsanov B, Kabus A, Brocker M, Bott M. 2012b. Efficient aerobic succinate production from glucose in minimal medium with Corynebacterium glutamicum. Microbial Biotechnol 5: 116-128.
111. Liu X, Zhu Y, Yang ST. 2006. Construction and characterization of ack deleted mutant of Clostridium tyrobutyricum for enhanced butyric acid and hydrogen production. Biotechnol Prog 22: 1265-1275.
112. Liu L, Zhu Y, Li J, Wang M, Lee P, Du G, Chen J. 2012. Microbial production of propionic acid from propionibacteria: Current state, challenges and perspectives. Crit Rev Biotechnol. DOI: 10.3109/07388551.2011.651428.
113. Ma C, Wang A, Qin J, Li L, Ai X, Jiang T, Tang H, Xu P. 2009. Enhanced 2, 3-butanediol production by Klebsiella pneumoniae SDM. Appl Microbiol Biotechnol 82: 49-57.
114. Magee RJ, Kosaric N. 1987. The microbial-production of 2, 3-butanediol. Adv Appl Microbiol 32: 89-161.
115. Martin CH, Prather KLJ. 2009. High-titer production of monomeric hydroxyvalerates from levulinic acid in Pseudomonas putida. J Biotechnol 139: 61-67.
116. McKenna R, Nielsen DR. 2011. Styrene biosynthesis from glucose by engineered E. coli. Metab Eng 13: 544-554.
117. McKinlay JB, Vieille C, Zeikus JG. 2007. Prospects for a bio-based succinate industry. Appl Microbiol Biotechnol 76: 727-740.
118. Meynial-Salles I, Dorotyn S, Soucaille P. 2008. A new process for the continuous production of succinic acid from glucose at high yield, titer, and productivity. Biotechnol Bioeng 99: 129-135.
119. Mielenz JR. 2001. Ethanol production from biomass: Technology and commercialization status. Curr Opin Microbiol 4: 324-329.
120. Mitchell RJ, Kim JS, Jeon BS, Sang BI. 2009. Continuous hydrogen and butyric acid fermentation by immobilized Clostridium tyrobutyricum ATCC 25755: Effects of the glucose concentration and hydraulic retention time. Bioresour Technol 100: 5352-5355.
121. Moon TS, Yoon SH, Lanza AM, Roy-Mayhew JD, Prather KL. 2009. Production of glucaric acid from a synthetic pathway in recombinant Escherichia coli. Appl Environ Microbiol 75: 589-595.
122. Moon TS, Dueber JE, Shiue E, Prather KL. 2010. Use of modular, synthetic scaffolds for improved production of glucaric acid in engineered E. coli. Metab Eng 12: 298-305.
123. Murphy AC. 2011. Metabolic engineering is key to a sustainable chemical industry. Nat Prod Rep 28: 1406-1425.
124. Nakamura CE, Whited GM. 2003. Metabolic engineering for the microbial production of 1, 3-propanediol. Curr Opin Biotechnol 14: 454-459.
125. Nakano S, Fukaya M, Horinouchi S. 2006. Putative ABC transporter responsible for acetic acid resistance in Acetobacter aceti. Appl Environ Microbiol 72: 497-505.
126. Nielsen J, Pronk JT. 2012. Metabolic engineering, synthetic biology and systems biology. FEMS Yeast Res 12: 103.
127. Nielsen DR, Leonard E, Yoon SH, Tseng HC, Yuan C, Prather KL. 2009. Engineering alternative butanol production platforms in heterologous bacteria. Metab Eng 11: 262-273.
128. Niu W, Draths KM, Frost JW. 2002. Benzene-free synthesis of adipic acid. Biotechnol Prog 18: 201-211.
129. Odian G. 2004. Principle of polymerization. Hoboken, NJ: John Wiley & Sons, Inc.
130. Oh BR, Seo JW, Heo SY, Hong WK, Luo LH, Son JH, Park DH, Kim CH. 2012. Fermentation strategies for 1, 3-propanediol production from glycerol using a genetically engineered Klebsiella pneumoniae strain to eliminate by-product formation. Bioproc Biosyst Eng 35: 159-165.
131. Okabe M, Lies D, Kanamasa S, Park EY. 2009. Biotechnological production of itaconic acid and its biosynthesis in Aspergillus terreus. Appl Microbiol Biotechnol 84: 597-606.
132. Okada T, Sugishita T, Murakami T, Murai H, Saikusa T, Horino T, Onoda A, Kajimoto O, Takahashi R, Takahashi T. 2000. Effect of the defatted rice germ enriched with GABA for sleeplessness, depression, autonomic disorder by oral administration. J Jpn Soc Food Sci 47: 596-603.
133. Okino S, Noburyu R, Suda M, Jojima T, Inui M, Yukawa H. 2008a. An efficient succinic acid production process in a metabolically engineered Corynebacterium glutamicum strain. Appl Microbiol Biotechnol 81: 459-464.
134. Okino S, Suda M, Fujikura K, Inui M, Yukawa H. 2008b. Production of D-lactic acid by Corynebacterium glutamicum under oxygen deprivation. Appl Microbiol Biotechnol 78: 449-454.
135. Papagianni M. 2012. Recent advances in engineering the central carbon metabolism of industrially important bacteria. Microb Cell Fact 11: 50.
136. Park JH, Lee SY. 2008. Towards systems metabolic engineering of microorganisms for amino acid production. Curr Opin Biotechnol 19: 454-460.
137. Park SJ, Lee SY, Kim TW, Jung YK, Yang TH. 2012. Biosynthesis of lactate-containing polyesters by metabolically engineered bacteria. Biotechnol J 7: 199-212.
138. Picataggio S, Beardslee T, Verdezyne, Assignee. 2012. Biological methods for preparing adipic acid. United States patent US 2012/0021474 A1.
139. Prakasham RS, Rao RS, Hobbs PJ. 2009. Current trends in biotechnological production of xylitol and future prospects. Curr Trends Biotechnol Pharm 3: 8-36.
140. Prather KL, Martin CH. 2008. De novo biosynthetic pathways: Rational design of microbial chemical factories. Curr Opin Biotechnol 19: 468-474.
141. Prust C, Hoffmeister M, Liesegang H, Wiezer A, Fricke WF, Ehrenreich A, Gottschalk G, Deppenmeier U. 2005. Complete genome sequence of the acetic acid bacterium Gluconobacter oxydans. Nat Biotechnol 23: 195-200.
142. Qian ZG, Xia XX, Lee SY. 2009. Metabolic engineering of Escherichia coli for the production of putrescine: A four carbon diamine. Biotechnol Bioeng 104: 651-662.
143. Qian ZG, Xia XX, Lee SY. 2011. Metabolic engineering of Escherichia coli for the production of cadaverine: A five carbon diamine. Biotechnol Bioeng 108: 93-103.
144. Ramos JL, Duque E, Gallegos MT, Godoy P, Ramos-Gonzalez MI, Rojas A, Teran W, Segura A. 2002. Mechanisms of solvent tolerance in Gram-negative bacteria. Ann Rev Microbiol 56: 743-768.
145. Raspor P, Goranovic D. 2008. Biotechnological applications of acetic acid bacteria. Crit Rev Biotechnol 28: 101-124.
146. Rathnasingh C, Raj SM, Jo JE, Park S. 2009. Development and evaluation of efficient recombinant Escherichia coli strains for the production of 3-hydroxypropionic acid from glycerol. Biotechnol Bioeng 104: 729-739.
147. Revelles O, Espinosa-Urgel M, Molin S, Ramos JL. 2004. The davDT operon of Pseudomonas putida, involved in lysine catabolism, is induced in response to the pathway intermediate delta-aminovaleric acid. J Bacteriol 186: 3439-3446.
148. Revelles O, Espinosa-Urgel M, Fuhrer T, Sauer U, Ramos JL. 2005. Multiple and interconnected pathways for L-lysine catabolism in Pseudomonas putida KT2440. J Bacteriol 187: 7500-7510.
149. 3-levels and pH on growth, succinate production, and enzyme activities of Anaerobiospirillum succiniciproducens. Appl Environ Microbiol 57: 3013-3019.
150. Sánchez-Riera F, Cameron DC, Cooney CL. 1987. Influence of environmental factors in the production of R(-)-1, 2-propandiol by Clostridium thermosaccharolyticum. Biotechnol Lett 9: 449-545.
151. Sauer M, Porro D, Mattanovich D, Branduardi P. 2008. Microbial production of organic acids: Expanding the markets. Trends Biotechnol 26: 100-108.
152. Schmidt RJ. 2005. Industrial catalytic processes-Phenol production. Appl Catal A 280: 89-103.
153. Schneider J, Wendisch VF. 2010. Putrescine production by engineered Corynebacterium glutamicum. Appl Microbiol Biotechnol 88: 859-868.
154. Scott E, Peter F, Sanders J. 2007. Biomass in the manufacture of industrial products-The use of proteins and amino acids. Appl Microbiol Biotechnol 75: 751-762.
155. Seddon D. 2010. Petrochemical economics: Technology selection in a carbon constrained world. In: Hutchings GJ editor. Catalytic science series. Vol 8. London, UK: Imperial College Press. p 1.
156. Service RF. 2007. Cellulosic ethanol. Biofuel researchers prepare to reap a new harvest. Science 315: 1488-1491.
157. Shelp BJ, Bown AW, McLean MD. 1999. Metabolism and functions of gamma-aminobutyric acid. Trends Plant Sci 4: 446-452.
158. Shen CR, Lan EI, Dekishima Y, Baez A, Cho KM, Liao JC. 2011. Driving forces enable high-titer anaerobic 1-butanol synthesis in Escherichia coli. Appl Environ Microbiol 77: 2905-2915.
159. Shi F, Li Y. 2011. Synthesis of gamma-aminobutyric acid by expressing Lactobacillus brevis-derived glutamate decarboxylase in the Corynebacterium glutamicum strain ATCC 13032. Biotechnol Lett 33: 2469-2474.
160. Smith KM, Cho KM, Liao JC. 2010. Engineering Corynebacterium glutamicum for isobutanol production. Appl Microbiol Biotechnol 87: 1045-1055.
161. Steen EJ, Chan R, Prasad N, Myers S, Petzold CJ, Redding A, Ouellet M, Keasling JD. 2008. Metabolic engineering of Saccharomyces cerevisiae for the production of n-butanol. Microb Cell Fact 7: 36.
162. Tan Y, Liao JC. 2012. Metabolic ensemble modeling for strain engineers. Biotechnol J 7: 343-353.
163. Tateno T, Okada Y, Tsuchidate T, Tanaka T, Fukuda H, Kondo A. 2009. Direct production of cadaverine from soluble starch using Corynebacterium glutamicum coexpressing alpha-amylase and lysine decarboxylase. Appl Microbiol Biotechnol 82: 115-121.
164. Thakker C, Martinez I, San KY, Bennett GN. 2012. Succinate production in Escherichia coli. Biotechnol J 7: 213-224.
165. Tsao GT, Cao NJ, Du J, Gong CS. 1999. Production of multifunctional organic acids from renewable resources. Adv Biochem Eng Biotechnol 65: 243-280.
166. Tseng HC, Harwell CL, Martin CH, Prather KL. 2010. Biosynthesis of chiral 3-hydroxyvalerate from single propionate-unrelated carbon sources in metabolically engineered E. coli. Microb Cell Fact 9: 96.
167. van Andel J, Zoutberg G, Crabbendam P, Breure A. 1985. Glucose fermentation by Clostridium butyricum grown under a self generated gas atmosphere in chemostat culture. Appl Microbiol Biotechnol 23: 21-26.
168. Verhoef S, Ruijssenaars HJ, de Bont JAM, Wery J. 2007. Bioproduction of p-hydroxybenzoate from renewable feedstock by solvent-tolerant Pseudomonas putida S12. J Biotechnol 132: 49-56.
169. Verhoef S, Wierckx N, Westerhof RGM, de Winde JH, Ruijssenaars HJ. 2008. Bioproduction of p-hydroxystyrene from glucose by the solvent-tolerant bacterium Pseudomonas putida S12 in a two-phase water-decanol fermentation. Appl Environ Microbiol 75: 931-936.
170. Wahrheit J, Nicolae A, Heinzle E. 2011. Eukaryotic metabolism: Measuring compartment fluxes. Biotechnol J 6: 1071-1085.
171. Wang CL, Takenaka S, Murakami S, Aoki K. 2001. Isolation of a benzoate-utilizing Pseudomonas strain from soil and production of catechol from benzoate by transpositional mutants. Microbiol Res 156: 151-158.
172. Wang L, Zhao B, Li F, Xu K, Ma C, Tao F, Li Q, Xu P. 2011a. Highly efficient production of D-lactate by Sporolactobacillus sp. CASD with simultaneous enzymatic hydrolysis of peanut meal. Appl Microbiol Biotechnol 89: 1009-1017.
173. Wang Y, Manow R, Finan C, Wang J, Garza E, Zhou S. 2011b. Adaptive evolution of nontransgenic Escherichia coli KC01 for improved ethanol tolerance and homoethanol fermentation from xylose. J Ind Microbiol Biotechnol 38: 1371-1377.
174. White WC. 2007. Butadiene production process overview. Chem Biol Inter 166: 10-14.
175. Wierckx NJ, Ballerstedt H, de Bont JA, Wery J. 2005. Engineering of solvent-tolerant Pseudomonas putida S12 for bioproduction of phenol from glucose. Appl Environ Microbiol 71: 8221-8227.
176. Wijte D, van Baar BLM, Heck AJR, Altelaar AFM. 2011. Probing the proteome response to toluene exposure in the solvent tolerant Pseudomonas putida S12. J Proteome Res 10: 394-403.
177. Wilkens E, Ringel AK, Hortig D, Willke T, Vorlop KD. 2012. High-level production of 1, 3-propanediol from crude glycerol by Clostridium butyricum AKR102a. Appl Microbiol Biotechnol 93: 1057-1063.
178. Wu Z, Yang ST. 2003. Extractive fermentation for butyric acid production from glucose by Clostridium tyrobutyricum. Biotechnol Bioeng 82: 93-102.
179. Wu X, Jiang S, Liu M, Pan L, Zheng Z, Luo S. 2011. Production of L-lactic acid by Rhizopus oryzae using semicontinuous fermentation in bioreactor. J Ind Microbiol Biotechnol 38: 565-571.
180. Yahiro K, Takahama T, Park YS, Okabe M. 1995. Breeding of Aspergillus terreus mutant Tn-484 for itaconic acid production with high-yield. J Ferment Bioeng 79: 506-508.
181. Yamada Y, Yukphan P. 2008. Genera and species in acetic acid bacteria. Int J Food Microbiol 125: 15-24.
182. Yang TH, Kim TW, Kang HO, Lee SH, Lee EJ, Lim SC, Oh SO, Song AJ, Park SJ, Lee SY. 2010. Biosynthesis of polylactic acid and its copolymers using evolved propionate CoA transferase and PHA synthase. Biotechnol Bioeng 105: 150-160.
183. Yanofsky C, Horn V, Bonner M, Stasiowski S. 1971. Polarity and enzyme functions in mutants of the first three genes of the tryptophan operon of Escherichia coli. Genetics 69: 409-433.
184. Ye VM, Bhatia SK. 2012. Metabolic engineering for the production of clinically important molecules: Omega-3 fatty acids, artemisinin, and taxol. Biotechnol J 7: 20-33.
185. Yim H, Haselbeck R, Niu W, Pujol-Baxley C, Burgard A, Boldt J, Khandurina J, Trawick JD, Osterhout RE, Stephen R, et al. 2011. Metabolic engineering of Escherichia coli for direct production of 1, 4-butanediol. Nat Chem Biol 7: 445-452.
186. Zeikus JG, Jain MK, Elankovan P. 1999. Biotechnology of succinic acid production and markets for derived industrial products. Appl Microbiol Biotechnol 51: 545-552.
187. Zelle RM, de Hulster E, van Winden WA, de Waard P, Dijkema C, Winkler AA, Geertman JMA, van Dijken JP, Pronk JT, van Maris AJA. 2008. Malic acid production by Saccharomyces cerevisiae: Engineering of pyruvate carboxylation, oxaloacetate reduction, and malate export. Appl Environ Microbiol 74: 2766-2777.
188. Zeng AP, Sabra W. 2011. Microbial production of diols as platform chemicals: Recent progresses. Curr Opin Biotechnol 22: 749-757.
189. Zhang A, Yang ST. 2009. Engineering Propionibacterium acidipropionici for enhanced propionic acid tolerance and fermentation. Biotechnol Bioeng 104: 766-773.
190. Zhang M, Eddy C, Deanda K, Finkelstein M, Picataggio S. 1995. Metabolic engineering of a pentose metabolism pathway in ethanologenic Zymomonas mobilis. Science 267: 240-243.
191. Zhang K, Sawaya MR, Eisenberg DS, Liao JC. 2008. Expanding metabolism for biosynthesis of nonnatural alcohols. Proc Natl Acad Sci USA 105: 20653-20658.
192. Zhang LY, Sun JA, Hao YL, Zhu JW, Chu J, Wei DZ, Shen YL. 2010. Microbial production of 2, 3-butanediol by a surfactant (serrawettin)-deficient mutant of Serratia marcescens H30. J Ind Microbiol Biotechnol 37: 857-862.
193. Zhang X, Wang X, Shanmugam KT, Ingram LO. 2011. L-Malate production by metabolically engineered Escherichia coli. Appl Environ Microbiol 77: 427-434.
194. Zhou S, Yomano LP, Shanmugam KT, Ingram LO. 2005. Fermentation of 10% (w/v) sugar to D(-)-lactate by engineered Escherichia coli B. Biotechnol Lett 27: 1891-1896.
195. Zhou S, Iverson AG, Grayburn WS. 2008. Engineering a native homoethanol pathway in Escherichia coli B for ethanol production. Biotechnol Lett 30: 335-342.
196. Zhu Y, Yang ST. 2003. Adaptation of Clostridium tyrobutyricum for enhanced tolerance to butyric acid in a fibrous-bed bioreactor. Biotechnol Prog 19: 365-372.
197. Zhu Y, Yang ST. 2004. Effect of pH on metabolic pathway shift in fermentation of xylose by Clostridium tyrobutyricum. J Biotechnol 110: 143-157.
198. Zhu Y, Eiteman MA, DeWitt K, Altman E. 2007. Homolactate fermentation by metabolically engineered Escherichia coli strains. Appl Environ Microbiol 73: 456-464.
199. Zhu Y, Li J, Tan M, Liu L, Jiang L, Sun J, Lee P, Du G, Chen J. 2010. Optimization and scale-up of propionic acid production by propionic acid-tolerant Propionibacterium acidipropionici with glycerol as the carbon source. Bioresour Technol 101: 8902-8906.