Microbial production of fuels, commodity chemicals, and materials from sustainable sources of carbon and energy

Levi, 2018, Mapping global flows of chemicals: from fossil fuel feedstocks to chemical products, Environ Sci Technol, 52, 1725, 10.1021/acs.est.7b04573 Mankar, 2021, Pretreatment of lignocellulosic biomass: a review on recent advances, Bioresour Technol, 334, 10.1016/j.biortech.2021.125235 Lin, 2022, Review on development of ionic liquids in lignocellulosic biomass refining, J Mol Liq, 359, 10.1016/j.molliq.2022.119326 Lynd, 2022, Toward low-cost biological and hybrid biological/catalytic conversion of cellulosic biomass to fuels, Energy Environ Sci, 15, 938, 10.1039/D1EE02540F Zhuo, 2022, Developmental changes in lignin composition are driven by both monolignol supply and laccase specificity, Sci Adv, 8, 10.1126/sciadv.abm8145 Yang, 2020, Accumulation of high-value bioproducts in planta can improve the economics of advanced biofuels, Proc Natl Acad Sci USA, 117, 8639, 10.1073/pnas.2000053117 Yoshida, 2016, A bacterium that degrades and assimilates poly(ethylene terephthalate), Science, 351, 1196, 10.1126/science.aad6359 Nicholson, 2021, Manufacturing energy and greenhouse gas emissions associated with plastics consumption, Joule, 5, 673, 10.1016/j.joule.2020.12.027 Han, 2017, Structural insight into catalytic mechanism of PET hydrolase, Nat Commun, 8, 2106, 10.1038/s41467-017-02255-z Erickson, 2022, Sourcing thermotolerant poly(ethylene terephthalate) hydrolase scaffolds from natural diversity, Nat Commun, 13, 7850, 10.1038/s41467-022-35237-x Tournier, 2020, An engineered PET depolymerase to break down and recycle plastic bottles, Nature, 580, 216, 10.1038/s41586-020-2149-4 Bell, 2022, Directed evolution of an efficient and thermostable PET depolymerase, Nat Catal, 5, 673, 10.1038/s41929-022-00821-3 Shi, 2023, Complete depolymerization of PET wastes by an evolved PET hydrolase from directed evolution, Angew Chem Int Ed, 62, 10.1002/anie.202218390 Lu, 2022, Machine learning-aided engineering of hydrolases for PET depolymerization, Nature, 604, 662, 10.1038/s41586-022-04599-z Jeon, 2015, Functional analysis of alkane hydroxylase system derived from Pseudomonas aeruginosa E7 for low molecular weight polyethylene biodegradation, Int Biodeterior Biodegrad, 103, 141, 10.1016/j.ibiod.2015.04.024 Santo, 2013, The role of the copper-binding enzyme – laccase – in the biodegradation of polyethylene by the actinomycete Rhodococcus ruber, Int Biodeterior Biodegrad, 84, 204, 10.1016/j.ibiod.2012.03.001 Chen, 2020, Enzymatic degradation of plant biomass and synthetic polymers, Nat Rev Chem, 4, 114, 10.1038/s41570-020-0163-6 Zhang, 2022, Biodegradation of polyethylene and polystyrene: from microbial deterioration to enzyme discovery, Biotechnol Adv, 60, 10.1016/j.biotechadv.2022.107991 Werner, 2021, Tandem chemical deconstruction and biological upcycling of poly(ethylene terephthalate) to β-ketoadipic acid by Pseudomonas putida KT2440, Metab Eng, 67, 250, 10.1016/j.ymben.2021.07.005 Tiso, 2021, Towards bio-upcycling of polyethylene terephthalate, Metab Eng, 66, 167, 10.1016/j.ymben.2021.03.011 Singh, 2021, Techno-economic, life-cycle, and socioeconomic impact analysis of enzymatic recycling of poly(ethylene terephthalate), Joule, 5, 2479, 10.1016/j.joule.2021.06.015 Ellis, 2021, Chemical and biological catalysis for plastics recycling and upcycling, Nat Catal, 4, 539, 10.1038/s41929-021-00648-4 Jiang, 2021, Metabolic engineering strategies to enable microbial utilization of C1 feedstocks, Nat Chem Biol, 17, 845, 10.1038/s41589-021-00836-0 De Luna, 2019, What would it take for renewably powered electrosynthesis to displace petrochemical processes?, Science, 364, 10.1126/science.aav3506 Marcellin, 2016, Low carbon fuels and commodity chemicals from waste gases – systematic approach to understand energy metabolism in a model acetogen, Green Chem, 18, 3020, 10.1039/C5GC02708J Liew, 2022, Carbon-negative production of acetone and isopropanol by gas fermentation at industrial pilot scale, Nat Biotechnol, 40, 335, 10.1038/s41587-021-01195-w Marcellin, 2016, Low carbon fuels and commodity chemicals from waste gases – systematic approach to understand energy metabolism in a model acetogen, Green Chem, 18, 3020, 10.1039/C5GC02708J Panich, 2021, Metabolic engineering of Cupriavidus necator H16 for sustainable biofuels from CO2, Trends Biotechnol, 39, 412, 10.1016/j.tibtech.2021.01.001 Grenz, 2019, Exploiting Hydrogenophaga pseudoflava for aerobic syngas-based production of chemicals, Metab Eng, 55, 220, 10.1016/j.ymben.2019.07.006 Gleizer, 2019, Conversion of Escherichia coli to generate all biomass carbon from CO2, Cell, 179, 1255, 10.1016/j.cell.2019.11.009 Kim, 2020, Growth of E. coli on formate and methanol via the reductive glycine pathway, Nat Chem Biol, 16, 538, 10.1038/s41589-020-0473-5 Kim, 2023, Coli as a formatotrophic platform for bioproduction via the reductive glycine pathway, Front Bioeng Biotechnol, 11, 10.3389/fbioe.2023.1091899 Chou, 2021, An orthogonal metabolic framework for one-carbon utilization, Nat Metab, 3, 1385, 10.1038/s42255-021-00453-0 Henard, 2015, Phosphoketolase pathway engineering for carbon-efficient biocatalysis, Curr Opin Biotechnol, 36, 183, 10.1016/j.copbio.2015.08.018 Lynch, 2021, The bioprocess TEA calculator: an online technoeconomic analysis tool to evaluate the commercial competitiveness of potential bioprocesses, Metab Eng, 65, 42, 10.1016/j.ymben.2021.03.004 Curran, 2013, Life Cycle Assessment: a review of the methodology and its application to sustainability, Curr. Opin. Chem. Eng., 2, 273, 10.1016/j.coche.2013.02.002 Liu, 2021, Biofuels for a sustainable future, Cell, 184, 1636, 10.1016/j.cell.2021.01.052 Keasling, 2021, Microbial production of advanced biofuels, Nat Rev Microbiol, 19, 701, 10.1038/s41579-021-00577-w Eagan, 2019, Chemistries and processes for the conversion of ethanol into middle-distillate fuels, Nat Rev Chem, 3, 223, 10.1038/s41570-019-0084-4 Baral, 2021, Production cost and carbon footprint of biomass-derived dimethylcyclooctane as a high-performance jet fuel blendstock, ACS Sustainable Chem Eng, 9, 11872, 10.1021/acssuschemeng.1c03772 Cruz-Morales, 2022, Biosynthesis of polycyclopropanated high energy biofuels, Joule, 6, 1590, 10.1016/j.joule.2022.05.011 Woodroffe, 2021, Synthesis and fuel properties of high-energy density cyclopropanated monoterpenes, Fuel Process Technol, 222, 10.1016/j.fuproc.2021.106952 Chung, 2015, Bio-based production of monomers and polymers by metabolically engineered microorganisms, Curr Opin Biotechnol, 36, 73, 10.1016/j.copbio.2015.07.003 Hayes, 2023, Polymers without petrochemicals: sustainable routes to conventional monomers, Chem Rev, 123, 2609, 10.1021/acs.chemrev.2c00354 Cheong, 2016, Energy- and carbon-efficient synthesis of functionalized small molecules in bacteria using non-decarboxylative Claisen condensation reactions, Nat Biotechnol, 34, 556, 10.1038/nbt.3505 Kang, 2016, Isopentenyl diphosphate (IPP)-bypass mevalonate pathways for isopentenol production, Metab Eng, 34, 25, 10.1016/j.ymben.2015.12.002 Liu, 2022, Biosynthesizing structurally diverse diols via a general route combining oxidative and reductive formations of OH-groups, Nat Commun, 13, 1595, 10.1038/s41467-022-29216-5 Marella, 2020, A single-host fermentation process for the production of flavor lactones from non-hydroxylated fatty acids, Metab Eng, 61, 427, 10.1016/j.ymben.2019.08.009 Zhao, 2023, Dynamic upregulation of the rate-limiting enzyme for valerolactam biosynthesis in Corynebacterium glutamicum, Metab Eng, 77, 89, 10.1016/j.ymben.2023.02.005 Chae, 2017, Metabolic engineering of Escherichia coli for the production of four-, five- and six-carbon lactams, Metab Eng, 41, 82, 10.1016/j.ymben.2017.04.001 Rodriguez, 2014, Expanding ester biosynthesis in Escherichia coli, Nat Chem Biol, 10, 259, 10.1038/nchembio.1476 Kim, 2021, Microbial production of multiple short-chain primary amines via retrobiosynthesis, Nat Commun, 12, 173, 10.1038/s41467-020-20423-6 Werpy, 2004 Della Pina, 2011, A green approach to chemical building blocks. The case of 3-hydroxypropanoic acid, Green Chem, 13, 1624, 10.1039/c1gc15052a Jiang, 2021, Hyperproduction of 3-hydroxypropionate by Halomonas bluephagenesis, Nat Commun, 12, 1513, 10.1038/s41467-021-21632-3 Son, 2023, Recent advances in microbial production of diamines, aminocarboxylic acids, and diacids as potential platform chemicals and bio-based polyamides monomers, Biotechnol Adv, 62, 10.1016/j.biotechadv.2022.108070 Kruyer, 2020, Fully biological production of adipic acid analogs from branched catechols, Sci Rep, 10, 1, 10.1038/s41598-020-70158-z Zhao, 2018, Metabolic engineering of Escherichia coli for producing adipic acid through the reverse adipate-degradation pathway, Metab Eng, 47, 254, 10.1016/j.ymben.2018.04.002 Geyer, 2017, Production, use, and fate of all plastics ever made, Sci Adv, 3, 10.1126/sciadv.1700782 Moradali, 2020, Bacterial biopolymers: from pathogenesis to advanced materials, Nat Rev Microbiol, 18, 195, 10.1038/s41579-019-0313-3 Zheng, 2020, Engineering biosynthesis of polyhydroxyalkanoates (PHA) for diversity and cost reduction, Metab Eng, 58, 82, 10.1016/j.ymben.2019.07.004 Choi, 2019, Biocatalytic synthesis of polylactate and its copolymers by engineered microorganisms, 125, 10.1016/bs.mie.2019.04.032 Nduko, 2021, Microbial production of biodegradable lactate-based polymers and oligomeric building blocks from renewable and waste resources, Front Bioeng Biotechnol, 8, 10.3389/fbioe.2020.618077 Tao, 2022, Hyper production of polyhydroxyalkanoates by a novel bacterium Salinivibrio sp. TGB11, Biochem Eng J, 185, 10.1016/j.bej.2022.108538 Zhou, 2022, Polymer chemistry in living cells, Acc Chem Res, 55, 2998, 10.1021/acs.accounts.2c00420 Geng, 2019, Radical polymerization inside living cells, Nat Chem, 11, 578, 10.1038/s41557-019-0240-y Naser, 2021, Poly (lactic acid)(PLA) and polyhydroxyalkanoates (PHAs), green alternatives to petroleum-based plastics: a review, RSC Adv, 11, 17151, 10.1039/D1RA02390J