Recent advances in the microbial production of isopentanol (3-Methyl-1-butanol).
Biofuels
Isopentanol production
Metabolic Engineering
Journal
World journal of microbiology & biotechnology
ISSN: 1573-0972
Titre abrégé: World J Microbiol Biotechnol
Pays: Germany
ID NLM: 9012472
Informations de publication
Date de publication:
27 May 2021
27 May 2021
Historique:
received:
20
01
2021
accepted:
17
05
2021
entrez:
27
5
2021
pubmed:
28
5
2021
medline:
21
9
2021
Statut:
epublish
Résumé
As the effects of climate change become increasingly severe, metabolic engineers and synthetic biologists are looking towards greener sources for transportation fuels. The design and optimization of microorganisms to produce gasoline, diesel, and jet fuel compounds from renewable feedstocks can significantly reduce dependence on fossil fuels and thereby produce fewer emissions. Over the past two decades, a tremendous amount of research has contributed to the development of microbial strains to produce advanced fuel compounds, including branched-chain higher alcohols (BCHAs) such as isopentanol (3-methyl-1-butanol; 3M1B) and isobutanol (2-methyl-1-propanol). In this review, we provide an overview of recent advances in the development of microbial strains for the production of isopentanol in both conventional and non-conventional hosts. We also highlight metabolic engineering strategies that may be employed to enhance product titers, reduce end-product toxicity, and broaden the substrate range to non-sugar carbon sources. Finally, we offer glimpses into some promising future directions in the development of isopentanol producing microbial strains.
Identifiants
pubmed: 34043086
doi: 10.1007/s11274-021-03074-7
pii: 10.1007/s11274-021-03074-7
doi:
Substances chimiques
Biofuels
0
Pentanols
0
isopentyl alcohol
DEM9NIT1J4
Types de publication
Journal Article
Review
Langues
eng
Sous-ensembles de citation
IM
Pagination
107Subventions
Organisme : Thailand Research Fund
ID : TRG6180006
Organisme : National Center for Genetic Engineering and Biotechnology
ID : P-19-52252
Références
Atsumi S, Hanai T, Liao JC (2008) Non-fermentative pathways for synthesis of branched-chain higher alcohols as biofuels. Nature 451:86–89. https://doi.org/10.1038/nature06450
doi: 10.1038/nature06450
pubmed: 18172501
Avalos JL, Fink GR, Stephanopoulos G (2013) Compartmentalization of metabolic pathways in yeast mitochondria improves the production of branched-chain alcohols. Nat Biotechnol 31:335–341. https://doi.org/10.1038/nbt.2509
doi: 10.1038/nbt.2509
pubmed: 23417095
pmcid: 3659820
Bai W, Geng W, Wang S, Zhang F (2019) Biosynthesis, regulation, and engineering of microbially produced branched biofuels. Biotechnol Biofuels 12:84. https://doi.org/10.1186/s13068-019-1424-9
doi: 10.1186/s13068-019-1424-9
pubmed: 31011367
pmcid: 6461809
Basler G, Thompson M, Tullman-Ercek D, Keasling J (2018) A Pseudomonas putida efflux pump acts on short-chain alcohols. Biotechnol Biofuels 11:136. https://doi.org/10.1186/s13068-018-1133-9
doi: 10.1186/s13068-018-1133-9
pubmed: 29760777
pmcid: 5946390
Becker J, Wittmann C (2012) Bio-based production of chemicals, materials and fuels - Corynebacterium glutamicum as versatile cell factory. Curr Opin Biotechnol 23:631–640. https://doi.org/10.1016/j.copbio.2011.11.012
doi: 10.1016/j.copbio.2011.11.012
pubmed: 22138494
Boock JT, Freedman AJE, Tompsett GA et al (2019) Engineered microbial biofuel production and recovery under supercritical carbon dioxide. Nat Commun 10:587. https://doi.org/10.1038/s41467-019-08486-6
doi: 10.1038/s41467-019-08486-6
pubmed: 30718495
pmcid: 6361901
Chandran SS, Kealey JT, Reeves CD (2011) Microbial production of isoprenoids. Process Biochem 46:1703–1710. https://doi.org/10.1016/j.procbio.2011.05.012
doi: 10.1016/j.procbio.2011.05.012
Chen H, Bjerknes M, Kumar R et al (1994) Determination of the optimal aligned spacing between the Shine-Dalgarno sequence and the translation initiation codon of Escherichia coli mRNAs. Nucleic Acids Res 22:4953–4957. https://doi.org/10.1093/nar/22.23.4953
doi: 10.1093/nar/22.23.4953
pubmed: 7528374
pmcid: 523762
Choi YJ, Lee J, Jang YS, Lee SY (2014) Metabolic engineering of microorganisms for the production of higher alcohols. MBio 5:01524–01514. https://doi.org/10.1128/mBio.01524-14
doi: 10.1128/mBio.01524-14
Chou HH, Keasling JD (2012) Synthetic pathway for production of five-carbon alcohols from isopentenyl diphosphate. Appl Environ Microbiol 78:7849–7855. https://doi.org/10.1128/AEM.01175-12
doi: 10.1128/AEM.01175-12
pubmed: 22941086
pmcid: 3485928
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. https://doi.org/10.1128/AEM.00468-08
doi: 10.1128/AEM.00468-08
pubmed: 18676713
pmcid: 2547049
Connor MR, Cann AF, Liao JC (2010) 3-Methyl-1-butanol production in Escherichia coli: random mutagenesis and two-phase fermentation. Appl Microbiol Biotechnol 86:1155–1164. https://doi.org/10.1007/s00253-009-2401-1
doi: 10.1007/s00253-009-2401-1
pubmed: 20072783
pmcid: 2844964
Dunlop MJ (2011) Engineering microbes for tolerance to next-generation biofuels. Biotechnol Biofuels 4:32. https://doi.org/10.1186/1754-6834-4-32
doi: 10.1186/1754-6834-4-32
pubmed: 21936941
pmcid: 3189103
Eiben CB, Tian T, Thompson MG et al (2020) Adenosine triphosphate and carbon efficient route to second generation biofuel isopentanol. ACS Synth Biol 9:468–474. https://doi.org/10.1021/acssynbio.9b00402
doi: 10.1021/acssynbio.9b00402
pubmed: 32149502
Eisenstein M (2020) Active machine learning helps drug hunters tackle biology. Nat Biotechnol 38:512–514. https://doi.org/10.1038/s41587-020-0521-4
doi: 10.1038/s41587-020-0521-4
pubmed: 32393920
Foo JL, Jensen HM, Dahl RH et al (2014) Improving microbial biogasoline production in Escherichia coli using tolerance engineering. MBio 5:e01932. https://doi.org/10.1128/mBio.01932-14
doi: 10.1128/mBio.01932-14
pubmed: 25370492
pmcid: 4222104
Fortman JL, Chhabra S, Mukhopadhyay A et al (2008) Biofuel alternatives to ethanol: pumping the microbial well. Trends Biotechnol 26:375–381. https://doi.org/10.1016/j.tibtech.2008.03.008
doi: 10.1016/j.tibtech.2008.03.008
pubmed: 18471913
Geleynse S, Brandt K, Garcia-Perez M et al (2018) The Alcohol-to‐Jet Conversion Pathway for Drop‐In Biofuels: Techno‐Economic Evaluation. ChemSusChem 11:3728–3741. https://doi.org/10.1002/cssc.201801690
doi: 10.1002/cssc.201801690
pubmed: 30212605
George KW, Thompson MG, Kang A et al (2015) Metabolic engineering for the high-yield production of isoprenoid-based C5 alcohols in E. coli. Sci Rep 5:11128. https://doi.org/10.1038/srep11128
doi: 10.1038/srep11128
pubmed: 26052683
pmcid: 4459108
Hammer SK, Zhang Y, Avalos JL (2020) Mitochondrial compartmentalization confers specificity to the 2-ketoacid recursive pathway: increasing isopentanol production in Saccharomyces cerevisiae. ACS Synth Biol 9:546–555. https://doi.org/10.1021/acssynbio.9b00420
doi: 10.1021/acssynbio.9b00420
pubmed: 32049515
Hazelwood LA, Daran J, Van AJA et al (2008) The Ehrlich pathway for fusel alcohol production: a century of research on Saccharomyces cerevisiae metabolism. Appl Environ Microbiol 74:2259–2266. https://doi.org/10.1128/AEM.02625-07
doi: 10.1128/AEM.02625-07
pubmed: 18281432
pmcid: 2293160
Huffer S, Clark ME, Ning JC et al (2011) Role of alcohols in growth, lipid composition, and membrane fluidity of yeasts, bacteria, and archaea. Appl Environ Microbiol 77:6400–6408. https://doi.org/10.1128/AEM.00694-11
doi: 10.1128/AEM.00694-11
pubmed: 21784917
pmcid: 3187150
Jinek M, Chylinski K, Fonfara I et al (2012) A programmable dual-RNA-guided DNA endonuclease in adaptive bacterial immunity. Science 337:816–821. https://doi.org/10.1126/science.1225829
doi: 10.1126/science.1225829
pubmed: 22745249
pmcid: 6286148
Kirby J, Keasling JD (2009) Biosynthesis of plant isoprenoids: perspectives for microbial engineering. Annu Rev Plant Biol 60:335–355. https://doi.org/10.1146/annurev.arplant.043008.091955
doi: 10.1146/annurev.arplant.043008.091955
pubmed: 19575586
Knott GJ, Doudna JA (2018) CRISPR-Cas guides the future of genetic engineering. Science 361:866–869. https://doi.org/10.1126/science.aat5011
doi: 10.1126/science.aat5011
pubmed: 30166482
pmcid: 6455913
Kung Y, Runguphan W, Keasling JD (2012) From fields to fuels: Recent advances in the microbial production of biofuels. ACS Synth Biol 1:498–513. https://doi.org/10.1021/sb300074k
doi: 10.1021/sb300074k
pubmed: 23656227
Li H, Opgenorth PH, Wernick DG et al (2012) Integrated electromicrobial conversion of CO
doi: 10.1126/science.1217643
pubmed: 22461604
Liao JC, Mi L, Pontrelli S, Luo S (2016) Fuelling the future: Microbial engineering for the production of sustainable biofuels. Nat Rev Microbiol 14:288–304. https://doi.org/10.1038/nrmicro.2016.32
doi: 10.1038/nrmicro.2016.32
pubmed: 27026253
Lynd L (2017) The grand challenge of cellulosic biofuels. Nat Biotechnol 35:912–915. https://doi.org/10.1038/nbt.3976
doi: 10.1038/nbt.3976
pubmed: 29019992
Mack JH, Rapp VH, Broeckelmann M et al (2014) Investigation of biofuels from microorganism metabolism for use as anti-knock additives. Fuel 117:939–943. https://doi.org/10.1016/j.fuel.2013.10.024
doi: 10.1016/j.fuel.2013.10.024
Miao R, Liu X, Englund E et al (2017) Isobutanol production in Synechocystis PCC 6803 using heterologous and endogenous alcohol dehydrogenases. Metab Eng Commun 5:45–53. https://doi.org/10.1016/j.meteno.2017.07.003
doi: 10.1016/j.meteno.2017.07.003
pubmed: 29188183
pmcid: 5699533
Mukhopadhyay A (2015) Tolerance engineering in bacteria for the production of advanced biofuels and chemicals. Trends Microbiol 23:498–508. https://doi.org/10.1016/j.tim.2015.04.008
doi: 10.1016/j.tim.2015.04.008
pubmed: 26024777
Nielsen J, Larsson C, van Maris A, Pronk J (2013) Metabolic engineering of yeast for production of fuels and chemicals. Curr Opin Biotechnol 24:398–404. https://doi.org/10.1016/j.copbio.2013.03.023
doi: 10.1016/j.copbio.2013.03.023
pubmed: 23611565
Park SH, Kim S, Hahn JS (2014) Metabolic engineering of Saccharomyces cerevisiae for the production of isobutanol and 3-methyl-1-butanol. Appl Microbiol Biotechnol 98:9139–9147. https://doi.org/10.1007/s00253-014-6081-0
doi: 10.1007/s00253-014-6081-0
pubmed: 25280745
Peralta-Yahya PP, Zhang F, Del Cardayre SB, Keasling JD (2012) Microbial engineering for the production of advanced biofuels. Nature 488:320–328. https://doi.org/10.1038/nature11478
doi: 10.1038/nature11478
pubmed: 22895337
Peters MW, Taylor JD (2013) Renewable jet fuel blendstock from isobutanol. U.S. Patent No. 8,373,012. U.S. Patent and Trademark Office, Washington, DC
Peters MW, Taylor JD, Taylor TJ et al (2012) Renewable Xylenes Produced from Bological C4 and C5 Molecules. U.S. Patent Application No. 20120171741A1. U.S. Patent and Trademark Office, Washington, DC
Radivojević T, Costello Z, Workman K, Garcia Martin H (2020) A machine learning Automated Recommendation Tool for synthetic biology. Nat Commun 11:4879. https://doi.org/10.1038/s41467-020-18008-4
doi: 10.1038/s41467-020-18008-4
pubmed: 32978379
pmcid: 7519645
Romero MD, Calvo L, Alba C et al (2005) Enzymatic synthesis of isoamyl acetate with immobilized Candida antarctica lipase in supercritical carbon dioxide. J of Supercritical Fluids 33:77–84. https://doi.org/10.1016/j.supflu.2004.05.004
doi: 10.1016/j.supflu.2004.05.004
Rutherford BJ, Dahl RH, Price RE et al (2010) Functional genomic study of exogenous n-butanol stress in Escherichia coli. Appl Environ Microbiol 76:1935–1945. https://doi.org/10.1128/AEM.02323-09
doi: 10.1128/AEM.02323-09
pubmed: 20118358
pmcid: 2838030
Salis H, Mirsky E, Voigt C (2009) Automated design of synthetic ribosome binding sites to control protein expression. Nat Biotechnol 27:946–950. https://doi.org/10.1038/nbt.1568
doi: 10.1038/nbt.1568
pubmed: 19801975
pmcid: 2782888
Sandberg TE, Salazar MJ, Weng LL et al (2019) The emergence of adaptive laboratory evolution as an efficient tool for biological discovery and industrial biotechnology. Metab Eng 56:1–16. https://doi.org/10.1016/j.ymben.2019.08.004
doi: 10.1016/j.ymben.2019.08.004
pubmed: 31401242
pmcid: 6944292
Schirmer A, Rude MA, Li X et al (2010) Microbial biosynthesis of alkanes. Science 329:559–562. https://doi.org/10.1126/science.1187936
doi: 10.1126/science.1187936
pubmed: 20671186
pmcid: 20671186
Singhvi MS, Gokhale DV (2019) Lignocellulosic biomass: Hurdles and challenges in its valorization. Appl Microbiol Biotechnol 103:9305–9320. https://doi.org/10.1007/s00253-019-10212-7
doi: 10.1007/s00253-019-10212-7
pubmed: 31707441
Siripong W, Angela C, Tanapongpipat S, Runguphan W (2020) Metabolic engineering of Pichia pastoris for production of isopentanol (3-methyl-1-butanol). Enzyme Microb Technol 138:109557. https://doi.org/10.1016/j.enzmictec.2020.109557
doi: 10.1016/j.enzmictec.2020.109557
pubmed: 32527534
Spilimbergo S, Elvassore N, Bertucco A (2002) Microbial inactivation by high-pressure. J Supercrit Fluids 22:55–63. https://doi.org/10.1016/S0896-8446(01)00106-1
doi: 10.1016/S0896-8446(01)00106-1
Su HF, Lin JF, Wang YH et al (2017) Engineering Brevibacterium flavum for the production of renewable bioenergy: C4–C5 advanced alcohols. Biotechnol Bioeng 114:1946–1958. https://doi.org/10.1002/bit.26324
doi: 10.1002/bit.26324
pubmed: 28464284
Sun L, Alper HS (2020) Non-conventional hosts for the production of fuels and chemicals. Curr Opin Chem Biol 59:15–22. https://doi.org/10.1016/j.cbpa.2020.03.004
doi: 10.1016/j.cbpa.2020.03.004
pubmed: 32348879
Tompsett GA, Boock JT, DiSpirito C et al (2018) Extraction rate and energy efficiency of supercritical carbon dioxide recovery of higher alcohols from dilute aqueous solution. Energy Technol 6:683–693. https://doi.org/10.1002/ente.201700626
doi: 10.1002/ente.201700626
UNESCO World Water Assessment Programme (2020) The United Nations world water development report 2020. Water and Climate Change, Paris, UNESCO
Vogt M, Brüsseler C, Ooyen J van et al (2016) Production of 2-methyl-1-butanol and 3-methyl-1-butanol in engineered Corynebacterium glutamicum. Metab Eng 38:436–445. https://doi.org/10.1016/j.ymben.2016.10.007
doi: 10.1016/j.ymben.2016.10.007
pubmed: 27746323
Volk MJ, Lourentzou I, Mishra S et al (2020) Biosystems design by machine learning. ACS Synth Biol 9:1514–1533. https://doi.org/10.1021/acssynbio.0c00129
doi: 10.1021/acssynbio.0c00129
pubmed: 32485108
Wang C, Pfleger BF, Kim SW (2017) Reassessing Escherichia coli as a cell factory for biofuel production. Curr Opin Biotechnol 45:92–103. https://doi.org/10.1016/j.copbio.2017.02.010
doi: 10.1016/j.copbio.2017.02.010
pubmed: 28292659
Wang B, Guo Y, Xu Z et al (2020) Genomic, transcriptomic, and metabolic characterizations of Escherichia coli adapted to branched-chain higher alcohol tolerance. Appl Microbiol Biotechnol 104:4171–4184. https://doi.org/10.1007/s00253-020-10507-0
doi: 10.1007/s00253-020-10507-0
pubmed: 32189046
Ward VCA, Chatzivasileiou AO, Stephanopoulos G (2018) Metabolic engineering of Escherichia coli for the production of isoprenoids. FEMS Microbiol Lett 365:fny079. https://doi.org/10.1093/femsle/fny079
doi: 10.1093/femsle/fny079
Withers ST, Gottlieb SS, Lieu B et al (2007) Identification of isopentenol biosynthetic genes from Bacillus subtilis by a screening method based on isoprenoid precursor toxicity. Appl Environ Microbiol 73:6277–6283. https://doi.org/10.1128/AEM.00861-07
doi: 10.1128/AEM.00861-07
pubmed: 17693564
pmcid: 2075014
Yang Y, Dec J, Dronniou N, Simmons B (2010) Characteristics of isopentanol as a fuel for HCCI engines. SAE Int J Fuels Lubr 3:725–741. https://doi.org/10.4271/2010-01-2164
Yuan J, Chen X, Mishra P, Ching CB (2017a) Metabolically engineered Saccharomyces cerevisiae for enhanced isoamyl alcohol production. Appl Microbiol Biotechnol 101:465–474. https://doi.org/10.1007/s00253-016-7970-1
doi: 10.1007/s00253-016-7970-1
pubmed: 27847988
Yuan J, Mishra P, Ching CB (2017b) Engineering the leucine biosynthetic pathway for isoamyl alcohol overproduction in Saccharomyces cerevisiae. J Ind Microbiol Biotechnol 44:101–117. https://doi.org/10.1007/s10295-016-1855-2
doi: 10.1007/s10295-016-1855-2
Zhang J, Petersen SD, Radivojevic T et al (2020) Combining mechanistic and machine learning models for predictive engineering and optimization of tryptophan metabolism. Nat Commun 11:4880. https://doi.org/10.1038/s41467-020-17910-1
doi: 10.1038/s41467-020-17910-1
pubmed: 32978375
pmcid: 7519671