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Liu J, Lin M, Han P, Yao G, Jiang H. Biosynthesis Progress of High-Energy-Density Liquid Fuels Derived from Terpenes. Microorganisms 2024; 12:706. [PMID: 38674649 PMCID: PMC11052473 DOI: 10.3390/microorganisms12040706] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/07/2024] [Revised: 03/25/2024] [Accepted: 03/26/2024] [Indexed: 04/28/2024] Open
Abstract
High-energy-density liquid fuels (HED fuels) are essential for volume-limited aerospace vehicles and could serve as energetic additives for conventional fuels. Terpene-derived HED biofuel is an important research field for green fuel synthesis. The direct extraction of terpenes from natural plants is environmentally unfriendly and costly. Designing efficient synthetic pathways in microorganisms to achieve high yields of terpenes shows great potential for the application of terpene-derived fuels. This review provides an overview of the current research progress of terpene-derived HED fuels, surveying terpene fuel properties and the current status of biosynthesis. Additionally, we systematically summarize the engineering strategies for biosynthesizing terpenes, including mining and engineering terpene synthases, optimizing metabolic pathways and cell-level optimization, such as the subcellular localization of terpene synthesis and adaptive evolution. This article will be helpful in providing insight into better developing terpene-derived HED fuels.
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Affiliation(s)
- Jiajia Liu
- State Key Laboratory of NBC Protection for Civilian, Beijing 102205, China; (J.L.)
| | - Man Lin
- College of Biological Engineering, Sichuan University of Science and Engineering, Yibin 644005, China
| | - Penggang Han
- State Key Laboratory of NBC Protection for Civilian, Beijing 102205, China; (J.L.)
| | - Ge Yao
- State Key Laboratory of NBC Protection for Civilian, Beijing 102205, China; (J.L.)
| | - Hui Jiang
- State Key Laboratory of NBC Protection for Civilian, Beijing 102205, China; (J.L.)
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2
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Li T, Liu X, Xiang H, Zhu H, Lu X, Feng B. Two-Phase Fermentation Systems for Microbial Production of Plant-Derived Terpenes. Molecules 2024; 29:1127. [PMID: 38474639 DOI: 10.3390/molecules29051127] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/13/2024] [Revised: 02/28/2024] [Accepted: 02/29/2024] [Indexed: 03/14/2024] Open
Abstract
Microbial cell factories, renowned for their economic and environmental benefits, have emerged as a key trend in academic and industrial areas, particularly in the fermentation of natural compounds. Among these, plant-derived terpenes stand out as a significant class of bioactive natural products. The large-scale production of such terpenes, exemplified by artemisinic acid-a crucial precursor to artemisinin-is now feasible through microbial cell factories. In the fermentation of terpenes, two-phase fermentation technology has been widely applied due to its unique advantages. It facilitates in situ product extraction or adsorption, effectively mitigating the detrimental impact of product accumulation on microbial cells, thereby significantly bolstering the efficiency of microbial production of plant-derived terpenes. This paper reviews the latest developments in two-phase fermentation system applications, focusing on microbial fermentation of plant-derived terpenes. It also discusses the mechanisms influencing microbial biosynthesis of terpenes. Moreover, we introduce some new two-phase fermentation techniques, currently unexplored in terpene fermentation, with the aim of providing more thoughts and explorations on the future applications of two-phase fermentation technology. Lastly, we discuss several challenges in the industrial application of two-phase fermentation systems, especially in downstream processing.
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Affiliation(s)
- Tuo Li
- College of Life and Health, Dalian University, Dalian 116622, China
| | - Ximeng Liu
- College of Life and Health, Dalian University, Dalian 116622, China
| | - Haoyu Xiang
- College of Life and Health, Dalian University, Dalian 116622, China
| | - Hehua Zhu
- College of Life and Health, Dalian University, Dalian 116622, China
| | - Xuan Lu
- College of Life and Health, Dalian University, Dalian 116622, China
| | - Baomin Feng
- College of Life and Health, Dalian University, Dalian 116622, China
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3
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Banerjee D, Yunus IS, Wang X, Kim J, Srinivasan A, Menchavez R, Chen Y, Gin JW, Petzold CJ, Martin HG, Magnuson JK, Adams PD, Simmons BA, Mukhopadhyay A, Kim J, Lee TS. Genome-scale and pathway engineering for the sustainable aviation fuel precursor isoprenol production in Pseudomonas putida. Metab Eng 2024; 82:157-170. [PMID: 38369052 DOI: 10.1016/j.ymben.2024.02.004] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/28/2023] [Revised: 01/10/2024] [Accepted: 02/10/2024] [Indexed: 02/20/2024]
Abstract
Sustainable aviation fuel (SAF) will significantly impact global warming in the aviation sector, and important SAF targets are emerging. Isoprenol is a precursor for a promising SAF compound DMCO (1,4-dimethylcyclooctane) and has been produced in several engineered microorganisms. Recently, Pseudomonas putida has gained interest as a future host for isoprenol bioproduction as it can utilize carbon sources from inexpensive plant biomass. Here, we engineer metabolically versatile host P. putida for isoprenol production. We employ two computational modeling approaches (Bilevel optimization and Constrained Minimal Cut Sets) to predict gene knockout targets and optimize the "IPP-bypass" pathway in P. putida to maximize isoprenol production. Altogether, the highest isoprenol production titer from P. putida was achieved at 3.5 g/L under fed-batch conditions. This combination of computational modeling and strain engineering on P. putida for an advanced biofuels production has vital significance in enabling a bioproduction process that can use renewable carbon streams.
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Affiliation(s)
- Deepanwita Banerjee
- Joint BioEnergy Institute, 5885 Hollis St., Emeryville, CA, 94608, USA; Biological Systems & Engineering Division, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA
| | - Ian S Yunus
- Joint BioEnergy Institute, 5885 Hollis St., Emeryville, CA, 94608, USA; Biological Systems & Engineering Division, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA
| | - Xi Wang
- Joint BioEnergy Institute, 5885 Hollis St., Emeryville, CA, 94608, USA; Biological Systems & Engineering Division, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA
| | - Jinho Kim
- Joint BioEnergy Institute, 5885 Hollis St., Emeryville, CA, 94608, USA; Biological Systems & Engineering Division, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA
| | - Aparajitha Srinivasan
- Joint BioEnergy Institute, 5885 Hollis St., Emeryville, CA, 94608, USA; Biological Systems & Engineering Division, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA
| | - Russel Menchavez
- Joint BioEnergy Institute, 5885 Hollis St., Emeryville, CA, 94608, USA; Biological Systems & Engineering Division, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA
| | - Yan Chen
- Joint BioEnergy Institute, 5885 Hollis St., Emeryville, CA, 94608, USA; Biological Systems & Engineering Division, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA
| | - Jennifer W Gin
- Joint BioEnergy Institute, 5885 Hollis St., Emeryville, CA, 94608, USA; Biological Systems & Engineering Division, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA
| | - Christopher J Petzold
- Joint BioEnergy Institute, 5885 Hollis St., Emeryville, CA, 94608, USA; Biological Systems & Engineering Division, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA
| | - Hector Garcia Martin
- Joint BioEnergy Institute, 5885 Hollis St., Emeryville, CA, 94608, USA; Biological Systems & Engineering Division, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA
| | - Jon K Magnuson
- Joint BioEnergy Institute, 5885 Hollis St., Emeryville, CA, 94608, USA; Energy Processes & Materials Division, Pacific Northwest National Laboratory, Richland, WA, 99354, USA
| | - Paul D Adams
- Joint BioEnergy Institute, 5885 Hollis St., Emeryville, CA, 94608, USA; Molecular Biophysics & Integrated Bioimaging Division, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA
| | - Blake A Simmons
- Joint BioEnergy Institute, 5885 Hollis St., Emeryville, CA, 94608, USA; Biological Systems & Engineering Division, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA
| | - Aindrila Mukhopadhyay
- Joint BioEnergy Institute, 5885 Hollis St., Emeryville, CA, 94608, USA; Biological Systems & Engineering Division, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA; Environmental Genomics and Systems Biology Division, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA
| | - Joonhoon Kim
- Joint BioEnergy Institute, 5885 Hollis St., Emeryville, CA, 94608, USA; Energy Processes & Materials Division, Pacific Northwest National Laboratory, Richland, WA, 99354, USA.
| | - Taek Soon Lee
- Joint BioEnergy Institute, 5885 Hollis St., Emeryville, CA, 94608, USA; Biological Systems & Engineering Division, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA.
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4
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Coradetti ST, Adamczyk PA, Liu D, Gao Y, Otoupal PB, Geiselman GM, Webb-Robertson BJM, Burnet MC, Kim YM, Burnum-Johnson KE, Magnuson J, Gladden JM. Engineering transcriptional regulation of pentose metabolism in Rhodosporidium toruloides for improved conversion of xylose to bioproducts. Microb Cell Fact 2023; 22:144. [PMID: 37537586 PMCID: PMC10398944 DOI: 10.1186/s12934-023-02148-5] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/30/2022] [Accepted: 07/13/2023] [Indexed: 08/05/2023] Open
Abstract
Efficient conversion of pentose sugars remains a significant barrier to the replacement of petroleum-derived chemicals with plant biomass-derived bioproducts. While the oleaginous yeast Rhodosporidium toruloides (also known as Rhodotorula toruloides) has a relatively robust native metabolism of pentose sugars compared to other wild yeasts, faster assimilation of those sugars will be required for industrial utilization of pentoses. To increase the rate of pentose assimilation in R. toruloides, we leveraged previously reported high-throughput fitness data to identify potential regulators of pentose catabolism. Two genes were selected for further investigation, a putative transcription factor (RTO4_12978, Pnt1) and a homolog of a glucose transceptor involved in carbon catabolite repression (RTO4_11990). Overexpression of Pnt1 increased the specific growth rate approximately twofold early in cultures on xylose and increased the maximum specific growth by 18% while decreasing accumulation of arabitol and xylitol in fast-growing cultures. Improved growth dynamics on xylose translated to a 120% increase in the overall rate of xylose conversion to fatty alcohols in batch culture. Proteomic analysis confirmed that Pnt1 is a major regulator of pentose catabolism in R. toruloides. Deletion of RTO4_11990 increased the growth rate on xylose, but did not relieve carbon catabolite repression in the presence of glucose. Carbon catabolite repression signaling networks remain poorly characterized in R. toruloides and likely comprise a different set of proteins than those mainly characterized in ascomycete fungi.
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Affiliation(s)
- Samuel T. Coradetti
- DOE Agile Biofoundry, 5885 Hollis Street, Fourth Floor, Emeryville, CA 94608 USA
- Sandia National Laboratories, Livermore, CA USA
- Present Address: Agricultural Research Service, United States Department of Agriculture, Ithaca, NY USA
| | - Paul A. Adamczyk
- DOE Agile Biofoundry, 5885 Hollis Street, Fourth Floor, Emeryville, CA 94608 USA
- Sandia National Laboratories, Livermore, CA USA
| | - Di Liu
- DOE Agile Biofoundry, 5885 Hollis Street, Fourth Floor, Emeryville, CA 94608 USA
- Sandia National Laboratories, Livermore, CA USA
| | - Yuqian Gao
- DOE Agile Biofoundry, 5885 Hollis Street, Fourth Floor, Emeryville, CA 94608 USA
- Pacific Northwest National Laboratory, Richland, WA USA
| | - Peter B. Otoupal
- DOE Agile Biofoundry, 5885 Hollis Street, Fourth Floor, Emeryville, CA 94608 USA
- Sandia National Laboratories, Livermore, CA USA
| | - Gina M. Geiselman
- DOE Agile Biofoundry, 5885 Hollis Street, Fourth Floor, Emeryville, CA 94608 USA
- Sandia National Laboratories, Livermore, CA USA
| | | | | | - Young-Mo Kim
- DOE Agile Biofoundry, 5885 Hollis Street, Fourth Floor, Emeryville, CA 94608 USA
- Pacific Northwest National Laboratory, Richland, WA USA
| | - Kristin E. Burnum-Johnson
- DOE Agile Biofoundry, 5885 Hollis Street, Fourth Floor, Emeryville, CA 94608 USA
- Pacific Northwest National Laboratory, Richland, WA USA
| | - Jon Magnuson
- DOE Agile Biofoundry, 5885 Hollis Street, Fourth Floor, Emeryville, CA 94608 USA
- Pacific Northwest National Laboratory, Richland, WA USA
| | - John M. Gladden
- DOE Agile Biofoundry, 5885 Hollis Street, Fourth Floor, Emeryville, CA 94608 USA
- Sandia National Laboratories, Livermore, CA USA
- Joint BioEnergy Institute, Emeryville, CA USA
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5
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Huang Y, Ye Z, Wan X, Yao G, Duan J, Liu J, Yao M, Sun X, Deng Z, Shen K, Jiang H, Liu T. Systematic Mining and Evaluation of the Sesquiterpene Skeletons as High Energy Aviation Fuel Molecules. ADVANCED SCIENCE (WEINHEIM, BADEN-WURTTEMBERG, GERMANY) 2023; 10:e2300889. [PMID: 37271925 PMCID: PMC10427387 DOI: 10.1002/advs.202300889] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/08/2023] [Revised: 04/26/2023] [Indexed: 06/06/2023]
Abstract
Sesquiterpenes have been identified as promising ingredients for aviation fuels due to their high energy density and combustion heat properties. Despite the characterization of numerous sesquiterpene structures, studies testing their performance properties and feasibility as fuels are scarce. In this study, 122 sesquiterpenoid skeleton compounds, obtained from existing literature reports, are tested using group contribution and gaussian quantum chemistry methods to assess their potential as high-energy aviation fuels. Seventeen sesquiterpene compounds exhibit good predictive performance and nine compounds are further selected for overproduction in yeast. Through fed-batch fermentation, all compounds achieve the highest reported titers to date. Subsequently, three representative products, pentalenene, presilphiperfol-1-ene, and α-farnesene, are selected, produced, purified in large quantities, and tested for use as potential fuels. The performance of pentalenene, presilphiperfol-1-ene, and their derivatives reveals favorable prospects as high-energy aviation fuels.
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Affiliation(s)
- Yanglei Huang
- Key Laboratory of Combinatorial Biosynthesis and Drug DiscoveryMinistry of Education and School of Pharmaceutical SciencesWuhan UniversityWuhan430071China
| | - Ziling Ye
- Key Laboratory of Combinatorial Biosynthesis and Drug DiscoveryMinistry of Education and School of Pharmaceutical SciencesWuhan UniversityWuhan430071China
| | - Xiukun Wan
- State Key Laboratory of NBC Protection for CivilianBeijing102205China
| | - Ge Yao
- State Key Laboratory of NBC Protection for CivilianBeijing102205China
| | - Jingyu Duan
- Key Laboratory of Combinatorial Biosynthesis and Drug DiscoveryMinistry of Education and School of Pharmaceutical SciencesWuhan UniversityWuhan430071China
| | - Jiajia Liu
- State Key Laboratory of NBC Protection for CivilianBeijing102205China
| | - Mingdong Yao
- Frontier Science Center for Synthetic Biology and Key Laboratory of Systems Bioengineering (Ministry of Education)School of Chemical Engineering and TechnologyTianjin UniversityTianjin300072China
- Frontier Technology Research InstituteTianjin UniversityTianjin301700China
| | - Xiang Sun
- Key Laboratory of Combinatorial Biosynthesis and Drug DiscoveryMinistry of Education and School of Pharmaceutical SciencesWuhan UniversityWuhan430071China
| | - Zixin Deng
- Key Laboratory of Combinatorial Biosynthesis and Drug DiscoveryMinistry of Education and School of Pharmaceutical SciencesWuhan UniversityWuhan430071China
- State Key Laboratory of Microbial MetabolismSchool of Life Sciences and BiotechnologyShanghai Jiao Tong UniversityShanghai200030China
| | - Kun Shen
- Key Laboratory of Combinatorial Biosynthesis and Drug DiscoveryMinistry of Education and School of Pharmaceutical SciencesWuhan UniversityWuhan430071China
| | - Hui Jiang
- State Key Laboratory of NBC Protection for CivilianBeijing102205China
| | - Tiangang Liu
- Key Laboratory of Combinatorial Biosynthesis and Drug DiscoveryMinistry of Education and School of Pharmaceutical SciencesWuhan UniversityWuhan430071China
- Hubei Engineering Laboratory for Synthetic MicrobiologyWuhan Institute of BiotechnologyWuhan430075China
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6
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Liu D, Hwang HJ, Otoupal PB, Geiselman GM, Kim J, Pomraning KR, Kim YM, Munoz N, Nicora CD, Gao Y, Burnum-Johnson KE, Jacobson O, Coradetti S, Kim J, Deng S, Dai Z, Prahl JP, Tanjore D, Lee TS, Magnuson JK, Gladden JM. Engineering Rhodosporidium toruloides for production of 3-hydroxypropionic acid from lignocellulosic hydrolysate. Metab Eng 2023; 78:72-83. [PMID: 37201565 DOI: 10.1016/j.ymben.2023.05.001] [Citation(s) in RCA: 4] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/15/2022] [Revised: 04/28/2023] [Accepted: 05/10/2023] [Indexed: 05/20/2023]
Abstract
Microbial production of valuable bioproducts is a promising route towards green and sustainable manufacturing. The oleaginous yeast, Rhodosporidium toruloides, has emerged as an attractive host for the production of biofuels and bioproducts from lignocellulosic hydrolysates. 3-hydroxypropionic acid (3HP) is an attractive platform molecule that can be used to produce a wide range of commodity chemicals. This study focuses on establishing and optimizing the production of 3HP in R. toruloides. As R. toruloides naturally has a high metabolic flux towards malonyl-CoA, we exploited this pathway to produce 3HP. Upon finding the yeast capable of catabolizing 3HP, we then implemented functional genomics and metabolomic analysis to identify the catabolic pathways. Deletion of a putative malonate semialdehyde dehydrogenase gene encoding an oxidative 3HP pathway was found to significantly reduce 3HP degradation. We further explored monocarboxylate transporters to promote 3HP transport and identified a novel 3HP transporter in Aspergillus pseudoterreus by RNA-seq and proteomics. Combining these engineering efforts with media optimization in a fed-batch fermentation resulted in 45.4 g/L 3HP production. This represents one of the highest 3HP titers reported in yeast from lignocellulosic feedstocks. This work establishes R. toruloides as a host for 3HP production from lignocellulosic hydrolysate at high titers, and paves the way for further strain and process optimization towards enabling industrial production of 3HP in the future.
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Affiliation(s)
- Di Liu
- Biomanufacturing and Biomaterials Department, Sandia National Laboratories, Livermore, CA, USA; Agile BioFoundry, Department of Energy, Emeryville, CA, USA.
| | - Hee Jin Hwang
- Biomanufacturing and Biomaterials Department, Sandia National Laboratories, Livermore, CA, USA; Agile BioFoundry, Department of Energy, Emeryville, CA, USA
| | - Peter B Otoupal
- Biomanufacturing and Biomaterials Department, Sandia National Laboratories, Livermore, CA, USA; Agile BioFoundry, Department of Energy, Emeryville, CA, USA; DOE Joint BioEnergy Institute, Lawrence Berkeley National Laboratory, Emeryville, CA, USA
| | - Gina M Geiselman
- Biomanufacturing and Biomaterials Department, Sandia National Laboratories, Livermore, CA, USA; Agile BioFoundry, Department of Energy, Emeryville, CA, USA; DOE Joint BioEnergy Institute, Lawrence Berkeley National Laboratory, Emeryville, CA, USA
| | - Joonhoon Kim
- Agile BioFoundry, Department of Energy, Emeryville, CA, USA; Energy and Environment Directorate, Pacific Northwest National Laboratory, Richland, WA, USA
| | - Kyle R Pomraning
- Agile BioFoundry, Department of Energy, Emeryville, CA, USA; Energy and Environment Directorate, Pacific Northwest National Laboratory, Richland, WA, USA
| | - Young-Mo Kim
- Agile BioFoundry, Department of Energy, Emeryville, CA, USA; Earth and Biological Sciences Directorate, Pacific Northwest National Laboratory, Richland, WA, USA
| | - Nathalie Munoz
- Agile BioFoundry, Department of Energy, Emeryville, CA, USA; Earth and Biological Sciences Directorate, Pacific Northwest National Laboratory, Richland, WA, USA
| | - Carrie D Nicora
- Earth and Biological Sciences Directorate, Pacific Northwest National Laboratory, Richland, WA, USA
| | - Yuqian Gao
- Agile BioFoundry, Department of Energy, Emeryville, CA, USA; Earth and Biological Sciences Directorate, Pacific Northwest National Laboratory, Richland, WA, USA
| | - Kristin E Burnum-Johnson
- Agile BioFoundry, Department of Energy, Emeryville, CA, USA; Earth and Biological Sciences Directorate, Pacific Northwest National Laboratory, Richland, WA, USA
| | - Oslo Jacobson
- Agile BioFoundry, Department of Energy, Emeryville, CA, USA; Advanced Biofuels and Bioproducts Process Development Unit, Lawrence Berkeley National Laboratory, Emeryville, CA, USA; Biological Systems and Engineering, Lawrence Berkeley National Laboratory, Berkeley, CA, USA
| | - Samuel Coradetti
- Biomanufacturing and Biomaterials Department, Sandia National Laboratories, Livermore, CA, USA; Agile BioFoundry, Department of Energy, Emeryville, CA, USA
| | - Jinho Kim
- DOE Joint BioEnergy Institute, Lawrence Berkeley National Laboratory, Emeryville, CA, USA; Biological Systems and Engineering, Lawrence Berkeley National Laboratory, Berkeley, CA, USA
| | - Shuang Deng
- Agile BioFoundry, Department of Energy, Emeryville, CA, USA; Energy and Environment Directorate, Pacific Northwest National Laboratory, Richland, WA, USA
| | - Ziyu Dai
- Agile BioFoundry, Department of Energy, Emeryville, CA, USA; Energy and Environment Directorate, Pacific Northwest National Laboratory, Richland, WA, USA
| | - Jan-Philip Prahl
- Agile BioFoundry, Department of Energy, Emeryville, CA, USA; Advanced Biofuels and Bioproducts Process Development Unit, Lawrence Berkeley National Laboratory, Emeryville, CA, USA; Biological Systems and Engineering, Lawrence Berkeley National Laboratory, Berkeley, CA, USA
| | - Deepti Tanjore
- Agile BioFoundry, Department of Energy, Emeryville, CA, USA; Advanced Biofuels and Bioproducts Process Development Unit, Lawrence Berkeley National Laboratory, Emeryville, CA, USA; Biological Systems and Engineering, Lawrence Berkeley National Laboratory, Berkeley, CA, USA
| | - Taek Soon Lee
- DOE Joint BioEnergy Institute, Lawrence Berkeley National Laboratory, Emeryville, CA, USA; Biological Systems and Engineering, Lawrence Berkeley National Laboratory, Berkeley, CA, USA
| | - Jon K Magnuson
- Agile BioFoundry, Department of Energy, Emeryville, CA, USA; DOE Joint BioEnergy Institute, Lawrence Berkeley National Laboratory, Emeryville, CA, USA; Energy and Environment Directorate, Pacific Northwest National Laboratory, Richland, WA, USA
| | - John M Gladden
- Biomanufacturing and Biomaterials Department, Sandia National Laboratories, Livermore, CA, USA; Agile BioFoundry, Department of Energy, Emeryville, CA, USA; DOE Joint BioEnergy Institute, Lawrence Berkeley National Laboratory, Emeryville, CA, USA.
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7
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Walls LE, Otoupal P, Ledesma-Amaro R, Velasquez-Orta SB, Gladden JM, Rios-Solis L. Bioconversion of cellulose into bisabolene using Ruminococcus flavefaciens and Rhodosporidium toruloides. BIORESOURCE TECHNOLOGY 2023; 368:128216. [PMID: 36347482 DOI: 10.1016/j.biortech.2022.128216] [Citation(s) in RCA: 7] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/07/2022] [Revised: 10/24/2022] [Accepted: 10/25/2022] [Indexed: 06/16/2023]
Abstract
In this study, organic acids were demonstrated as a promising carbon source for bisabolene production by the non-conventional yeast, Rhodosporidium toruloides, at microscale with a maximum titre of 1055 ± 7 mg/L. A 125-fold scale-up of the optimal process, enhanced bisabolene titres 2.5-fold to 2606 mg/L. Implementation of a pH controlled organic acid feeding strategy at this scale lead to a further threefold improvement in bisabolene titre to 7758 mg/L, the highest reported microbial titre. Finally, a proof-of-concept sequential bioreactor approach was investigated. Firstly, the cellulolytic bacterium Ruminococcus flavefaciens was employed to ferment cellulose, yielding 4.2 g/L of organic acids. R. toruloides was subsequently cultivated in the resulting supernatant, producing 318 ± 22 mg/L of bisabolene. This highlights the feasibility of a sequential bioprocess for the bioconversion of cellulose, into biojet fuel candidates. Future work will focus on enhancing organic acid yields and the use of real lignocellulosic feedstocks to further enhance bisabolene production.
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Affiliation(s)
- Laura E Walls
- Institute for Bioengineering, School of Engineering, University of Edinburgh, Edinburgh EH9 3BF, UK; Centre for Synthetic and Systems Biology (SynthSys), University of Edinburgh, Edinburgh EH9 3BF, UK
| | - Peter Otoupal
- Joint BioEnergy Institute, Lawrence Berkeley National Laboratory, Emeryville, CA 94608, USA; Agile BioFoundry, Department of Energy, Emeryville, CA 94608, USA; Biomaterials and Biomanufacturing Department, Sandia National Laboratories, Livermore, CA 94551, USA
| | - Rodrigo Ledesma-Amaro
- Department of Bioengineering and Imperial College Centre for Synthetic Biology, Imperial College London, London SW7 2AZ, UK
| | | | - John M Gladden
- Joint BioEnergy Institute, Lawrence Berkeley National Laboratory, Emeryville, CA 94608, USA; Agile BioFoundry, Department of Energy, Emeryville, CA 94608, USA; Biomaterials and Biomanufacturing Department, Sandia National Laboratories, Livermore, CA 94551, USA
| | - Leonardo Rios-Solis
- Institute for Bioengineering, School of Engineering, University of Edinburgh, Edinburgh EH9 3BF, UK; Centre for Synthetic and Systems Biology (SynthSys), University of Edinburgh, Edinburgh EH9 3BF, UK; School of Natural and Environmental Sciences, Molecular Biology and Biotechnology Division, Newcastle University, Newcastle Upon Tyne NE1 7RU, UK.
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8
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Lin CY, Geiselman GM, Liu D, Magurudeniya HD, Rodriguez A, Chen YC, Pidatala V, Unda F, Amer B, Baidoo EEK, Mansfield SD, Simmons BA, Singh S, Scheller HV, Gladden JM, Eudes A. Evaluation of engineered low-lignin poplar for conversion into advanced bioproducts. BIOTECHNOLOGY FOR BIOFUELS AND BIOPRODUCTS 2022; 15:145. [PMID: 36567331 PMCID: PMC9790118 DOI: 10.1186/s13068-022-02245-4] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 05/23/2022] [Accepted: 12/10/2022] [Indexed: 12/26/2022]
Abstract
BACKGROUND Lignocellulosic resources are promising feedstocks for the manufacture of bio-based products and bioenergy. However, the inherent recalcitrance of biomass to conversion into simple sugars currently hinders the deployment of advanced bioproducts at large scale. Lignin is a primary contributor to biomass recalcitrance as it protects cell wall polysaccharides from degradation and can inhibit hydrolytic enzymes via non-productive adsorption. Several engineering strategies have been designed to reduce lignin or modify its monomeric composition. For example, expression of bacterial 3-dehydroshikimate dehydratase (QsuB) in poplar trees resulted in a reduction in lignin due to redirection of metabolic flux toward 3,4-dihydroxybenzoate at the expense of lignin. This reduction was accompanied with remarkable changes in the pools of aromatic compounds that accumulate in the biomass. RESULTS The impact of these modifications on downstream biomass deconstruction and conversion into advanced bioproducts was evaluated in the current study. Using ionic liquid pretreatment followed by enzymatic saccharification, biomass from engineered trees released more glucose and xylose compared to wild-type control trees under optimum conditions. Fermentation of the resulting hydrolysates using Rhodosporidium toruloides strains engineered to produce α-bisabolene, epi-isozizaene, and fatty alcohols showed no negative impact on cell growth and yielded higher titers of bioproducts (as much as + 58%) in the case of QsuB transgenics trees. CONCLUSION Our data show that low-recalcitrant poplar biomass obtained with the QsuB technology has the potential to improve the production of advanced bioproducts.
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Affiliation(s)
- Chien-Yuan Lin
- grid.451372.60000 0004 0407 8980DOE Joint BioEnergy Institute, Emeryville, CA 94608 USA ,grid.184769.50000 0001 2231 4551Environmental Genomics and Systems Biology Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720 USA
| | - Gina M. Geiselman
- grid.451372.60000 0004 0407 8980DOE Joint BioEnergy Institute, Emeryville, CA 94608 USA ,grid.474523.30000000403888279Department of Biomaterials and Biomanufacturing, Sandia National Laboratories, Livermore, CA 94550 USA ,DOE, Agile BioFoundry, Emeryville, CA 94608 USA
| | - Di Liu
- grid.474523.30000000403888279Department of Biomaterials and Biomanufacturing, Sandia National Laboratories, Livermore, CA 94550 USA ,DOE, Agile BioFoundry, Emeryville, CA 94608 USA
| | - Harsha D. Magurudeniya
- grid.451372.60000 0004 0407 8980DOE Joint BioEnergy Institute, Emeryville, CA 94608 USA ,grid.474523.30000000403888279Department of Biomaterials and Biomanufacturing, Sandia National Laboratories, Livermore, CA 94550 USA
| | - Alberto Rodriguez
- grid.451372.60000 0004 0407 8980DOE Joint BioEnergy Institute, Emeryville, CA 94608 USA ,grid.474523.30000000403888279Department of Biomaterials and Biomanufacturing, Sandia National Laboratories, Livermore, CA 94550 USA ,DOE, Agile BioFoundry, Emeryville, CA 94608 USA
| | - Yi-Chun Chen
- grid.451372.60000 0004 0407 8980DOE Joint BioEnergy Institute, Emeryville, CA 94608 USA ,grid.184769.50000 0001 2231 4551Environmental Genomics and Systems Biology Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720 USA
| | - Venkataramana Pidatala
- grid.451372.60000 0004 0407 8980DOE Joint BioEnergy Institute, Emeryville, CA 94608 USA ,grid.184769.50000 0001 2231 4551Biological Systems and Engineering Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720 USA
| | - Faride Unda
- grid.17091.3e0000 0001 2288 9830Department of Wood Science, University of British Columbia, Vancouver, BC Canada
| | - Bashar Amer
- grid.451372.60000 0004 0407 8980DOE Joint BioEnergy Institute, Emeryville, CA 94608 USA ,grid.184769.50000 0001 2231 4551Biological Systems and Engineering Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720 USA
| | - Edward E. K. Baidoo
- grid.451372.60000 0004 0407 8980DOE Joint BioEnergy Institute, Emeryville, CA 94608 USA ,grid.184769.50000 0001 2231 4551Biological Systems and Engineering Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720 USA
| | - Shawn D. Mansfield
- grid.17091.3e0000 0001 2288 9830Department of Wood Science, University of British Columbia, Vancouver, BC Canada ,grid.454753.40000 0004 0520 2998DOE Great Lakes Bioenergy Research Center, Wisconsin Energy Institute, Madison, WI 53726 USA
| | - Blake A. Simmons
- grid.451372.60000 0004 0407 8980DOE Joint BioEnergy Institute, Emeryville, CA 94608 USA ,grid.184769.50000 0001 2231 4551Biological Systems and Engineering Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720 USA
| | - Seema Singh
- grid.451372.60000 0004 0407 8980DOE Joint BioEnergy Institute, Emeryville, CA 94608 USA ,grid.474523.30000000403888279Department of Bioresources and Environmental Security, Sandia National Laboratories, Livermore, CA 94550 USA
| | - Henrik V. Scheller
- grid.451372.60000 0004 0407 8980DOE Joint BioEnergy Institute, Emeryville, CA 94608 USA ,grid.184769.50000 0001 2231 4551Environmental Genomics and Systems Biology Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720 USA ,grid.47840.3f0000 0001 2181 7878Department of Plant and Microbial Biology, University of California, Berkeley, CA 94720 USA
| | - John M. Gladden
- grid.451372.60000 0004 0407 8980DOE Joint BioEnergy Institute, Emeryville, CA 94608 USA ,grid.474523.30000000403888279Department of Biomaterials and Biomanufacturing, Sandia National Laboratories, Livermore, CA 94550 USA ,DOE, Agile BioFoundry, Emeryville, CA 94608 USA
| | - Aymerick Eudes
- grid.451372.60000 0004 0407 8980DOE Joint BioEnergy Institute, Emeryville, CA 94608 USA ,grid.184769.50000 0001 2231 4551Environmental Genomics and Systems Biology Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720 USA
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9
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Otoupal PB, Geiselman GM, Oka AM, Barcelos CA, Choudhary H, Dinh D, Zhong W, Hwang H, Keasling JD, Mukhopadhyay A, Sundstrom E, Haushalter RW, Sun N, Simmons BA, Gladden JM. Advanced one-pot deconstruction and valorization of lignocellulosic biomass into triacetic acid lactone using Rhodosporidium toruloides. Microb Cell Fact 2022; 21:254. [PMID: 36482295 PMCID: PMC9733078 DOI: 10.1186/s12934-022-01977-0] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/23/2022] [Accepted: 11/19/2022] [Indexed: 12/13/2022] Open
Abstract
BACKGROUND Rhodosporidium toruloides is capable of co-utilization of complex carbon sources and robust growth from lignocellulosic hydrolysates. This oleaginous yeast is therefore an attractive host for heterologous production of valuable bioproducts at high titers from low-cost, deconstructed biomass in an economically and environmentally sustainable manner. Here we demonstrate this by engineering R. toruloides to produce the polyketide triacetic acid lactone (TAL) directly from unfiltered hydrolysate deconstructed from biomass with minimal unit process operations. RESULTS Introduction of the 2-pyrone synthase gene into R. toruloides enabled the organism to produce 2.4 g/L TAL from simple media or 2.0 g/L from hydrolysate produced from sorghum biomass. Both of these titers are on par with titers from other better-studied microbial hosts after they had been heavily engineered. We next demonstrate that filtered hydrolysates produced from ensiled sorghum are superior to those derived from dried sorghum for TAL production, likely due to the substantial organic acids produced during ensiling. We also demonstrate that the organic acids found in ensiled biomass can be used for direct synthesis of ionic liquids within the biomass pretreatment process, enabling consolidation of unit operations of in-situ ionic liquid synthesis, pretreatment, saccharification, and fermentation into a one-pot, separations-free process. Finally, we demonstrate this consolidation in a 2 L bioreactor using unfiltered hydrolysate, producing 3.9 g/L TAL. CONCLUSION Many steps involved in deconstructing biomass into fermentable substrate can be combined into a distinct operation, and directly fed to cultures of engineered R. toruloides cultures for subsequent valorization into gram per liter titers of TAL in a cost-effective manner.
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Affiliation(s)
- Peter B. Otoupal
- grid.474523.30000000403888279Biomanufacturing and Biomaterials Department, Sandia National Laboratories, Livermore, CA USA ,grid.184769.50000 0001 2231 4551DOE Joint BioEnergy Institute, Lawrence Berkeley National Laboratory, Emeryville, CA USA ,Agile BioFoundry, Department of Energy, Emeryville, CA USA
| | - Gina M. Geiselman
- grid.474523.30000000403888279Biomanufacturing and Biomaterials Department, Sandia National Laboratories, Livermore, CA USA ,grid.184769.50000 0001 2231 4551DOE Joint BioEnergy Institute, Lawrence Berkeley National Laboratory, Emeryville, CA USA ,Agile BioFoundry, Department of Energy, Emeryville, CA USA
| | - Asun M. Oka
- grid.184769.50000 0001 2231 4551Advanced Biofuels and Bioproducts Process Development Unit, Lawrence Berkeley National Laboratory, Emeryville, CA USA ,grid.184769.50000 0001 2231 4551Biological Systems and Engineering, Lawrence Berkeley National Laboratory, Berkeley, CA USA
| | - Carolina A. Barcelos
- grid.184769.50000 0001 2231 4551Advanced Biofuels and Bioproducts Process Development Unit, Lawrence Berkeley National Laboratory, Emeryville, CA USA ,grid.184769.50000 0001 2231 4551Biological Systems and Engineering, Lawrence Berkeley National Laboratory, Berkeley, CA USA
| | - Hemant Choudhary
- grid.474523.30000000403888279Biomanufacturing and Biomaterials Department, Sandia National Laboratories, Livermore, CA USA ,grid.184769.50000 0001 2231 4551DOE Joint BioEnergy Institute, Lawrence Berkeley National Laboratory, Emeryville, CA USA
| | - Duy Dinh
- grid.184769.50000 0001 2231 4551Advanced Biofuels and Bioproducts Process Development Unit, Lawrence Berkeley National Laboratory, Emeryville, CA USA ,grid.184769.50000 0001 2231 4551Biological Systems and Engineering, Lawrence Berkeley National Laboratory, Berkeley, CA USA
| | - Wenqing Zhong
- grid.184769.50000 0001 2231 4551Advanced Biofuels and Bioproducts Process Development Unit, Lawrence Berkeley National Laboratory, Emeryville, CA USA ,grid.184769.50000 0001 2231 4551Biological Systems and Engineering, Lawrence Berkeley National Laboratory, Berkeley, CA USA
| | - HeeJin Hwang
- grid.474523.30000000403888279Biomanufacturing and Biomaterials Department, Sandia National Laboratories, Livermore, CA USA ,Agile BioFoundry, Department of Energy, Emeryville, CA USA
| | - Jay D. Keasling
- grid.184769.50000 0001 2231 4551DOE Joint BioEnergy Institute, Lawrence Berkeley National Laboratory, Emeryville, CA USA ,grid.184769.50000 0001 2231 4551Biological Systems and Engineering, Lawrence Berkeley National Laboratory, Berkeley, CA USA ,grid.47840.3f0000 0001 2181 7878Department of Chemical & Biomolecular Engineering, University of California, Berkeley, Berkeley, CA USA ,grid.47840.3f0000 0001 2181 7878Department of Bioengineering, University of California, Berkeley, Berkeley, CA USA ,grid.5170.30000 0001 2181 8870Center for Biosustainability, Danish Technical University, Lyngby, Denmark ,grid.458489.c0000 0001 0483 7922Center for Synthetic Biochemistry, Institute for Synthetic Biology, Shenzhen Institute of Advanced Technology, Shenzhen, China
| | - Aindrila Mukhopadhyay
- grid.474523.30000000403888279Biomanufacturing and Biomaterials Department, Sandia National Laboratories, Livermore, CA USA ,grid.184769.50000 0001 2231 4551Biological Systems and Engineering, Lawrence Berkeley National Laboratory, Berkeley, CA USA ,grid.184769.50000 0001 2231 4551Environmental Genomics and Systems Biology Division, Lawrence Berkeley National Laboratory, Berkeley, CA USA
| | - Eric Sundstrom
- grid.184769.50000 0001 2231 4551Advanced Biofuels and Bioproducts Process Development Unit, Lawrence Berkeley National Laboratory, Emeryville, CA USA ,grid.184769.50000 0001 2231 4551Biological Systems and Engineering, Lawrence Berkeley National Laboratory, Berkeley, CA USA
| | - Robert W. Haushalter
- grid.184769.50000 0001 2231 4551DOE Joint BioEnergy Institute, Lawrence Berkeley National Laboratory, Emeryville, CA USA ,grid.184769.50000 0001 2231 4551Biological Systems and Engineering, Lawrence Berkeley National Laboratory, Berkeley, CA USA
| | - Ning Sun
- grid.184769.50000 0001 2231 4551Advanced Biofuels and Bioproducts Process Development Unit, Lawrence Berkeley National Laboratory, Emeryville, CA USA ,grid.184769.50000 0001 2231 4551Biological Systems and Engineering, Lawrence Berkeley National Laboratory, Berkeley, CA USA
| | - Blake A. Simmons
- grid.184769.50000 0001 2231 4551DOE Joint BioEnergy Institute, Lawrence Berkeley National Laboratory, Emeryville, CA USA ,Agile BioFoundry, Department of Energy, Emeryville, CA USA ,grid.184769.50000 0001 2231 4551Biological Systems and Engineering, Lawrence Berkeley National Laboratory, Berkeley, CA USA
| | - John M. Gladden
- grid.474523.30000000403888279Biomanufacturing and Biomaterials Department, Sandia National Laboratories, Livermore, CA USA ,grid.184769.50000 0001 2231 4551DOE Joint BioEnergy Institute, Lawrence Berkeley National Laboratory, Emeryville, CA USA ,Agile BioFoundry, Department of Energy, Emeryville, CA USA
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10
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Wang B, Xu X, Fang Y, Yan S, Cui B, Abd El-Aty AM. Effect of Different Ratios of Glycerol and Erythritol on Properties of Corn Starch-Based Films. Front Nutr 2022; 9:882682. [PMID: 35548578 PMCID: PMC9083458 DOI: 10.3389/fnut.2022.882682] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/24/2022] [Accepted: 03/29/2022] [Indexed: 11/13/2022] Open
Abstract
The demand for biodegradable products has increased; hence, a suitable method for producing green composites is essential. This study prepared corn starch-based films using the solution casting method, and the physicochemical properties of the prepared films were investigated using a mixture of glycerol (GLY) and erythritol (ERY) at different ratios (4:0, 3:1, 2:2, 1:3, and 0:4) as plasticizing agents. The crystallinity, hydrophilicity, mechanical properties, oxygen and water vapor, surface roughness, and thermal stability of corn starch-based films were analyzed using small-angle X-ray diffraction, water contact angle, automatic tensile testing machine, oxygen permeability tester and water vapor permeability analyzer, atomic force microscope, and thermogravimetric analyzer. With the increase in GLY ratio, the thickness, water-solubility, water content, water vapor permeability, elongation at break, oxygen permeability and V-shaped crystallization of the corn starch-based films increased. The tensile strength and the thermal stability decreased with increasing the GLY ratio. We developed a new plasticizer using glycerol and erythritol to improve the properties of starch films and provided the basis for the industrial production of corn starch-based films.
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Affiliation(s)
- Bin Wang
- State Key Laboratory of Biobased Material and Green Papermaking, Qilu University of Technology, Shandong Academy of Sciences, Jinan, China.,School of Food Science and Engineering, Qilu University of Technology, Shandong Academy of Sciences, Jinan, China.,Department of Food Science and Engineering, Shandong Agricultural University, Taian, China
| | - Xin Xu
- State Key Laboratory of Biobased Material and Green Papermaking, Qilu University of Technology, Shandong Academy of Sciences, Jinan, China.,School of Food Science and Engineering, Qilu University of Technology, Shandong Academy of Sciences, Jinan, China
| | - Youxin Fang
- State Key Laboratory of Biobased Material and Green Papermaking, Qilu University of Technology, Shandong Academy of Sciences, Jinan, China.,School of Food Science and Engineering, Qilu University of Technology, Shandong Academy of Sciences, Jinan, China.,Department of Forestry College, Shandong Agricultural University, Taian, China
| | - Shouxin Yan
- State Key Laboratory of Biobased Material and Green Papermaking, Qilu University of Technology, Shandong Academy of Sciences, Jinan, China.,School of Food Science and Engineering, Qilu University of Technology, Shandong Academy of Sciences, Jinan, China
| | - Bo Cui
- State Key Laboratory of Biobased Material and Green Papermaking, Qilu University of Technology, Shandong Academy of Sciences, Jinan, China.,School of Food Science and Engineering, Qilu University of Technology, Shandong Academy of Sciences, Jinan, China
| | - A M Abd El-Aty
- State Key Laboratory of Biobased Material and Green Papermaking, Qilu University of Technology, Shandong Academy of Sciences, Jinan, China.,Department of Pharmacology, Faculty of Veterinary Medicine, Cairo University, Giza, Egypt.,Department of Medical Pharmacology, Faculty of Medicine, Atatürk University, Erzurum, Turkey
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11
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Zhao Y, Song B, Li J, Zhang J. Rhodotorula toruloides: an ideal microbial cell factory to produce oleochemicals, carotenoids, and other products. World J Microbiol Biotechnol 2021; 38:13. [PMID: 34873661 DOI: 10.1007/s11274-021-03201-4] [Citation(s) in RCA: 20] [Impact Index Per Article: 6.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/11/2021] [Accepted: 11/29/2021] [Indexed: 12/20/2022]
Abstract
Requirement of clean energy sources urges us to find substitutes for fossil fuels. Microorganisms provide an option to produce feedstock for biofuel production by utilizing inexpensive, renewable biomass. Rhodotorula toruloides (Rhodosporidium toruloides), a non-conventional oleaginous yeast, can accumulate intracellular lipids (single cell oil, SCO) more than 70% of its cell dry weight. At present, the SCO-based biodiesel is not a price-competitive fuel to the petroleum diesel. Many efforts are made to cut the cost of SCO by strengthening the performance of genetically modified R. toruloides strains and by valorization of low-cost biomass, including crude glycerol, lignocellulosic hydrolysates, food and agro waste, wastewater, and volatile fatty acids. Besides, optimization of fermentation and SCO recovery processes are carefully studied as well. Recently, new R. toruloides strains are developed via metabolic engineering and synthetic biology methods to produce value-added chemicals, such as sesquiterpenes, fatty acid esters, fatty alcohols, carotenoids, and building block chemicals. This review summarizes recent advances in the main aspects of R. toruloides studies, namely, construction of strains with new traits, valorization of low-cost biomass, process detection and optimization, and product recovery. In general, R. toruloides is a promising microbial cell factory for production of biochemicals.
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Affiliation(s)
- Yu Zhao
- Center for Molecular Metabolism, Nanjing University of Science & Technology, 200 Xiaolingwei Street, Nanjing, 210094, China.,Key Laboratory of Metabolic Engineering and Biosynthesis Technology of Ministry of Industry and Information Technology, Nanjing University of Science and Technology, 200 Xiaolingwei Street, Nanjing, 210094, China
| | - Baocai Song
- Center for Molecular Metabolism, Nanjing University of Science & Technology, 200 Xiaolingwei Street, Nanjing, 210094, China.,Key Laboratory of Metabolic Engineering and Biosynthesis Technology of Ministry of Industry and Information Technology, Nanjing University of Science and Technology, 200 Xiaolingwei Street, Nanjing, 210094, China
| | - Jing Li
- Center for Molecular Metabolism, Nanjing University of Science & Technology, 200 Xiaolingwei Street, Nanjing, 210094, China. .,Key Laboratory of Metabolic Engineering and Biosynthesis Technology of Ministry of Industry and Information Technology, Nanjing University of Science and Technology, 200 Xiaolingwei Street, Nanjing, 210094, China.
| | - Jianfa Zhang
- Center for Molecular Metabolism, Nanjing University of Science & Technology, 200 Xiaolingwei Street, Nanjing, 210094, China.,Key Laboratory of Metabolic Engineering and Biosynthesis Technology of Ministry of Industry and Information Technology, Nanjing University of Science and Technology, 200 Xiaolingwei Street, Nanjing, 210094, China
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12
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Liu CL, Xue K, Yang Y, Liu X, Li Y, Lee TS, Bai Z, Tan T. Metabolic engineering strategies for sesquiterpene production in microorganism. Crit Rev Biotechnol 2021; 42:73-92. [PMID: 34256675 DOI: 10.1080/07388551.2021.1924112] [Citation(s) in RCA: 20] [Impact Index Per Article: 6.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
Abstract
Sesquiterpenes are a large variety of terpene natural products, widely existing in plants, fungi, marine organisms, insects, and microbes. Value-added sesquiterpenes are extensively used in industries such as: food, drugs, fragrances, and fuels. With an increase in market demands and the price of sesquiterpenes, the biosynthesis of sesquiterpenes by microbial fermentation methods from renewable feedstocks is acquiring increasing attention. Synthetic biology provides robust tools of sesquiterpene production in microorganisms. This review presents a summary of metabolic engineering strategies on the hosts and pathway engineering for sesquiterpene production. Advances in synthetic biology provide new strategies on the creation of desired hosts for sesquiterpene production. Especially, metabolic engineering strategies for the production of sesquiterpenes such as: amorphadiene, farnesene, bisabolene, and caryophyllene are emphasized in: Escherichia coli, Saccharomyces cerevisiae, and other microorganisms. Challenges and future perspectives of the bioprocess for translating sesquiterpene production into practical industrial work are also discussed.
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Affiliation(s)
- Chun-Li Liu
- National Engineering Laboratory for Cereal Fermentation Technology, Jiangnan University, Wuxi, China.,College of Life Science and Technology, Beijing University of Chemical Technology, Beijing, PR China.,The Key Laboratory of Industrial Biotechnology, Ministry of Education, School of Biotechnology, Jiangnan University, Wuxi, China.,Jiangsu Provincial Research Center for Bioactive Product Processing Technology, Jiangnan University, Wuxi, China
| | - Kai Xue
- National Engineering Laboratory for Cereal Fermentation Technology, Jiangnan University, Wuxi, China.,The Key Laboratory of Industrial Biotechnology, Ministry of Education, School of Biotechnology, Jiangnan University, Wuxi, China.,Jiangsu Provincial Research Center for Bioactive Product Processing Technology, Jiangnan University, Wuxi, China
| | - Yankun Yang
- National Engineering Laboratory for Cereal Fermentation Technology, Jiangnan University, Wuxi, China.,The Key Laboratory of Industrial Biotechnology, Ministry of Education, School of Biotechnology, Jiangnan University, Wuxi, China.,Jiangsu Provincial Research Center for Bioactive Product Processing Technology, Jiangnan University, Wuxi, China
| | - Xiuxia Liu
- National Engineering Laboratory for Cereal Fermentation Technology, Jiangnan University, Wuxi, China.,The Key Laboratory of Industrial Biotechnology, Ministry of Education, School of Biotechnology, Jiangnan University, Wuxi, China.,Jiangsu Provincial Research Center for Bioactive Product Processing Technology, Jiangnan University, Wuxi, China
| | - Ye Li
- National Engineering Laboratory for Cereal Fermentation Technology, Jiangnan University, Wuxi, China.,The Key Laboratory of Industrial Biotechnology, Ministry of Education, School of Biotechnology, Jiangnan University, Wuxi, China.,Jiangsu Provincial Research Center for Bioactive Product Processing Technology, Jiangnan University, Wuxi, China
| | - Taek Soon Lee
- Joint BioEnergy Institute, Emeryville, CA, USA.,Biological Systems & Engineering Division, Lawrence Berkeley National Laboratory, Berkeley, CA, USA
| | - Zhonghu Bai
- National Engineering Laboratory for Cereal Fermentation Technology, Jiangnan University, Wuxi, China.,The Key Laboratory of Industrial Biotechnology, Ministry of Education, School of Biotechnology, Jiangnan University, Wuxi, China.,Jiangsu Provincial Research Center for Bioactive Product Processing Technology, Jiangnan University, Wuxi, China
| | - Tianwei Tan
- College of Life Science and Technology, Beijing University of Chemical Technology, Beijing, PR China
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13
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Kirby J, Geiselman GM, Yaegashi J, Kim J, Zhuang X, Tran-Gyamfi MB, Prahl JP, Sundstrom ER, Gao Y, Munoz N, Burnum-Johnson KE, Benites VT, Baidoo EEK, Fuhrmann A, Seibel K, Webb-Robertson BJM, Zucker J, Nicora CD, Tanjore D, Magnuson JK, Skerker JM, Gladden JM. Further engineering of R. toruloides for the production of terpenes from lignocellulosic biomass. BIOTECHNOLOGY FOR BIOFUELS 2021; 14:101. [PMID: 33883010 PMCID: PMC8058980 DOI: 10.1186/s13068-021-01950-w] [Citation(s) in RCA: 23] [Impact Index Per Article: 7.7] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/25/2020] [Accepted: 04/07/2021] [Indexed: 05/05/2023]
Abstract
BACKGROUND Mitigation of climate change requires that new routes for the production of fuels and chemicals be as oil-independent as possible. The microbial conversion of lignocellulosic feedstocks into terpene-based biofuels and bioproducts represents one such route. This work builds upon previous demonstrations that the single-celled carotenogenic basidiomycete, Rhodosporidium toruloides, is a promising host for the production of terpenes from lignocellulosic hydrolysates. RESULTS This study focuses on the optimization of production of the monoterpene 1,8-cineole and the sesquiterpene α-bisabolene in R. toruloides. The α-bisabolene titer attained in R. toruloides was found to be proportional to the copy number of the bisabolene synthase (BIS) expression cassette, which in turn influenced the expression level of several native mevalonate pathway genes. The addition of more copies of BIS under a stronger promoter resulted in production of α-bisabolene at 2.2 g/L from lignocellulosic hydrolysate in a 2-L fermenter. Production of 1,8-cineole was found to be limited by availability of the precursor geranylgeranyl pyrophosphate (GPP) and expression of an appropriate GPP synthase increased the monoterpene titer fourfold to 143 mg/L at bench scale. Targeted mevalonate pathway metabolite analysis suggested that 3-hydroxy-3-methyl-glutaryl-coenzyme A reductase (HMGR), mevalonate kinase (MK) and phosphomevalonate kinase (PMK) may be pathway bottlenecks are were therefore selected as targets for overexpression. Expression of HMGR, MK, and PMK orthologs and growth in an optimized lignocellulosic hydrolysate medium increased the 1,8-cineole titer an additional tenfold to 1.4 g/L. Expression of the same mevalonate pathway genes did not have as large an impact on α-bisabolene production, although the final titer was higher at 2.6 g/L. Furthermore, mevalonate pathway intermediates accumulated in the mevalonate-engineered strains, suggesting room for further improvement. CONCLUSIONS This work brings R. toruloides closer to being able to make industrially relevant quantities of terpene from lignocellulosic biomass.
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Affiliation(s)
- James Kirby
- Department of Energy, Agile BioFoundry, Emeryville, CA, 94608, USA
- Department of Biomass Science and Conversion Technology, Sandia National Laboratories, Livermore, CA, 94550, USA
| | - Gina M Geiselman
- Department of Energy, Agile BioFoundry, Emeryville, CA, 94608, USA
- Department of Biomass Science and Conversion Technology, Sandia National Laboratories, Livermore, CA, 94550, USA
| | - Junko Yaegashi
- Joint BioEnergy Institute, Lawrence Berkeley National Laboratory, Emeryville, CA, 94608, USA
- Chemical and Biological Processing Group, Pacific Northwest National Laboratory, Richland, WA, 99354, USA
| | - Joonhoon Kim
- Department of Energy, Agile BioFoundry, Emeryville, CA, 94608, USA
- Chemical and Biological Processing Group, Pacific Northwest National Laboratory, Richland, WA, 99354, USA
| | - Xun Zhuang
- Department of Energy, Agile BioFoundry, Emeryville, CA, 94608, USA
- Department of Biomass Science and Conversion Technology, Sandia National Laboratories, Livermore, CA, 94550, USA
| | - Mary Bao Tran-Gyamfi
- Department of Energy, Agile BioFoundry, Emeryville, CA, 94608, USA
- Department of Biomass Science and Conversion Technology, Sandia National Laboratories, Livermore, CA, 94550, USA
| | - Jan-Philip Prahl
- Department of Energy, Agile BioFoundry, Emeryville, CA, 94608, USA
- Advanced Biofuels and Bioproducts Process Development Unit, Lawrence Berkeley National Laboratory, Emeryville, CA, 94608, USA
| | - Eric R Sundstrom
- Department of Energy, Agile BioFoundry, Emeryville, CA, 94608, USA
- Advanced Biofuels and Bioproducts Process Development Unit, Lawrence Berkeley National Laboratory, Emeryville, CA, 94608, USA
| | - Yuqian Gao
- Department of Energy, Agile BioFoundry, Emeryville, CA, 94608, USA
- Biological Sciences Division, Pacific Northwest National Laboratory, Richland, WA, 99354, USA
| | - Nathalie Munoz
- Department of Energy, Agile BioFoundry, Emeryville, CA, 94608, USA
- The Environmental Molecular Sciences Laboratory, Richland, WA, 99354, USA
| | - Kristin E Burnum-Johnson
- Department of Energy, Agile BioFoundry, Emeryville, CA, 94608, USA
- The Environmental Molecular Sciences Laboratory, Richland, WA, 99354, USA
| | - Veronica T Benites
- Department of Energy, Agile BioFoundry, Emeryville, CA, 94608, USA
- Biological Systems and Engineering Division, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA
| | - Edward E K Baidoo
- Department of Energy, Agile BioFoundry, Emeryville, CA, 94608, USA
- Biological Systems and Engineering Division, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA
| | - Anna Fuhrmann
- Joint BioEnergy Institute, Lawrence Berkeley National Laboratory, Emeryville, CA, 94608, USA
| | - Katharina Seibel
- Joint BioEnergy Institute, Lawrence Berkeley National Laboratory, Emeryville, CA, 94608, USA
| | - Bobbie-Jo M Webb-Robertson
- Department of Energy, Agile BioFoundry, Emeryville, CA, 94608, USA
- Biological Sciences Division, Pacific Northwest National Laboratory, Richland, WA, 99354, USA
| | - Jeremy Zucker
- Department of Energy, Agile BioFoundry, Emeryville, CA, 94608, USA
- Biological Sciences Division, Pacific Northwest National Laboratory, Richland, WA, 99354, USA
| | - Carrie D Nicora
- Department of Energy, Agile BioFoundry, Emeryville, CA, 94608, USA
- Biological Sciences Division, Pacific Northwest National Laboratory, Richland, WA, 99354, USA
| | - Deepti Tanjore
- Department of Energy, Agile BioFoundry, Emeryville, CA, 94608, USA
- Advanced Biofuels and Bioproducts Process Development Unit, Lawrence Berkeley National Laboratory, Emeryville, CA, 94608, USA
| | - Jon K Magnuson
- Department of Energy, Agile BioFoundry, Emeryville, CA, 94608, USA
- Chemical and Biological Processing Group, Pacific Northwest National Laboratory, Richland, WA, 99354, USA
| | - Jeffrey M Skerker
- Environmental Genomics and Systems Biology Division, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA
- QB3-Berkeley, University of California, Berkeley, CA, 94704, USA
| | - John M Gladden
- Department of Energy, Agile BioFoundry, Emeryville, CA, 94608, USA.
- Department of Biomass Science and Conversion Technology, Sandia National Laboratories, Livermore, CA, 94550, USA.
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