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Kim YC, Yoo HW, Park BG, Sarak S, Hahn JS, Kim BG, Yun H. One-Pot Biocatalytic Route from Alkanes to α,ω-Diamines by Whole-Cell Consortia of Engineered Yarrowia lipolytica and Escherichia coli. ACS Synth Biol 2024. [PMID: 38912892 DOI: 10.1021/acssynbio.4c00273] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/25/2024]
Abstract
Metabolically engineered microbial consortia can contribute as a promising production platform for the supply of polyamide monomers. To date, the biosynthesis of long-chain α,ω-diamines from n-alkanes is challenging because of the inert nature of n-alkanes and the complexity of the overall synthesis pathway. We combined an engineered Yarrowia lipolytica module with Escherichia coli modules to obtain a mixed strain microbial consortium that could catalyze an efficient biotransformation of n-alkanes into corresponding α,ω-diamines. The engineered Y. lipolytica strain was constructed (YALI10) wherein the two genes responsible for β-oxidation and the five genes responsible for the overoxidation of fatty aldehydes were deleted. This newly constructed YALI10 strain expressing transaminase (TA) could produce 0.2 mM 1,12-dodecanediamine (40.1 mg/L) from 10 mM n-dodecane. The microbial consortia comprising engineered Y. lipolytica strains for the oxidation of n-alkanes (OM) and an E. coli amination module (AM) expressing an aldehyde reductase (AHR) and transaminase (TA) improved the production of 1,12-diamine up to 1.95 mM (391 mg/L) from 10 mM n-dodecane. Finally, combining the E. coli reduction module (RM) expressing a carboxylic acid reductase (CAR) and an sfp phosphopantetheinyl transferase with OM and AM further improved the production of 1,12-diamine by catalyzing the reduction of undesired 1,12-diacids into 1,12-diols, which further undergo amination to give 1,12-diamine as the target product. This newly constructed mixed strain consortium comprising three modules in one pot gave 4.1 mM (41%; 816 mg/L) 1,12-diaminododecane from 10 mM n-dodecane. The whole-cell consortia reported herein present an elegant "greener" alternative for the biosynthesis of various α,ω-diamines (C8, C10, C12, and C14) from corresponding n-alkanes.
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Affiliation(s)
- Ye Chan Kim
- School of Chemical and Biological Engineering, Seoul National University, Seoul 08826, South Korea
| | - Hee-Wang Yoo
- Manufacfuring development, Pyeongtaek plant, Hanmi Pharm. Co., Pyeontaek 17118, South Korea
| | - Beom Gi Park
- CutisBio Co., Ltd., 8F Apgujeong B/D, 842 Nonhyeon-ro, Gangnam-gu, Seoul 08826, South Korea
| | - Sharad Sarak
- Department of Biochemistry, Molecular Biology & Biophysics, University of Minnesota, Saint Paul campus, Saint Paul, Minnesota 55108, United States of America
| | - Ji-Sook Hahn
- School of Chemical and Biological Engineering, Seoul National University, Seoul 08826, South Korea
| | - Byung-Gee Kim
- School of Chemical and Biological Engineering, Seoul National University, Seoul 08826, South Korea
| | - Hyungdon Yun
- Department of Systems Biotechnology, Konkuk University, Seoul 05029, South Korea
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Saadon S, Ali MSM, Kamarudin NHA, Latip W, Ishak SNH, Basri RS, Johan UUM, Shukri NSA, Rosli NE, Rahman RNZRA. Benefitting multi-enzyme system for the purpose of improving the flow properties of waxy oil. GEOENERGY SCIENCE AND ENGINEERING 2023; 230:212221. [DOI: 10.1016/j.geoen.2023.212221] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 09/02/2023]
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Bairagi N, Watanabe S, Nimura-Matsune K, Tanaka K, Tsurumaki T, Nakanishi S, Tanaka K. Conserved Two-component Hik2-Rre1 Signaling Is Activated Under Temperature Upshift and Plastoquinone-reducing Conditions in the Cyanobacterium Synechococcus elongatus PCC 7942. PLANT & CELL PHYSIOLOGY 2022; 63:176-188. [PMID: 34750635 DOI: 10.1093/pcp/pcab158] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/16/2021] [Revised: 10/25/2021] [Accepted: 11/08/2021] [Indexed: 06/13/2023]
Abstract
The highly conserved Hik2-Rre1 two-component system is a multi-stress responsive signal-transducing module that controls the expression of hsp and other genes in cyanobacteria. Previously, we found in Synechococcus elongatus PCC 7942 that the heat-inducible phosphorylation of Rre1 was alleviated in a hik34 mutant, suggesting that Hik34 positively regulates signaling. In this study, we examined the growth of the hik34 deletion mutant in detail, and newly identified suppressor mutations located in rre1 or sasA gene negating the phenotype. Subsequent analyses indicated that heat-inducible Rre1 phosphorylation is dependent on Hik2 and that Hik34 modulates this Hik2-dependent response. In the following part of this study, we focused on the mechanism to control the Hik2 activity. Other recent studies reported that Hik2 activity is regulated by the redox status of plastoquinone (PQ) through the 3Fe-4S cluster attached to the cyclic GMP, adenylyl cyclase, FhlA (GAF) domain. Consistent with this, Rre1 phosphorylation occurred after the addition of 2,5-dibromo-6-isopropyl-3-methyl-1,4-benzoquinone but not after the addition of 3-(3,4-dichlorophenyl)-1,1-dimethylurea to the culture medium, which corresponded to PQ-reducing or -oxidizing conditions, respectively, suggesting that the Hik2-to-Rre1 phosphotransfer was activated under PQ-reducing conditions. However, there was no correlation between the measured PQ redox status and Rre1 phosphorylation during the temperature upshift. Therefore, changes in the PQ redox status are not the direct reason for the heat-inducible Rre1 phosphorylation, while some redox regulation is likely involved as oxidation events dependent on 2,6-dichloro-1,4-benzoquinone prevented heat-inducible Rre1 phosphorylation. On the basis of these results, we propose a model for the control of Hik2-dependent Rre1 phosphorylation.
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Affiliation(s)
- Nachiketa Bairagi
- Laboratory for Chemistry and Life Science, Institute of Innovative Research, Tokyo Institute of Technology, 4259 Nagatsuta, Midori-ku, Yokohama, 226-8503 Japan
- School of Life Science and Technology, Tokyo Institute of Technology, 4259 Nagatsuta, Midori-ku, Yokohama, 226-8503 Japan
| | - Satoru Watanabe
- Department of Bioscience, Tokyo University of Agriculture, Sakuragaoka, Setagaya-ku, Tokyo, 156-8502 Japan
| | - Kaori Nimura-Matsune
- Department of Bioscience, Tokyo University of Agriculture, Sakuragaoka, Setagaya-ku, Tokyo, 156-8502 Japan
| | - Kenya Tanaka
- Research Center for Solar Energy Chemistry, Graduate School of Engineering Science, Osaka University, 1-3 Machikaneyama, Toyonaka, Osaka, 560-8531 Japan
- Engineering Biology Research Center, Kobe University, 1-1 Rokkodai, Nada-ku, Kobe, 657-8501 Japan
| | - Tatsuhiro Tsurumaki
- Laboratory for Chemistry and Life Science, Institute of Innovative Research, Tokyo Institute of Technology, 4259 Nagatsuta, Midori-ku, Yokohama, 226-8503 Japan
- School of Life Science and Technology, Tokyo Institute of Technology, 4259 Nagatsuta, Midori-ku, Yokohama, 226-8503 Japan
| | - Shuji Nakanishi
- Research Center for Solar Energy Chemistry, Graduate School of Engineering Science, Osaka University, 1-3 Machikaneyama, Toyonaka, Osaka, 560-8531 Japan
- Innovative Catalysis Science Division, Institute for Open and Transdisciplinary Research Initiatives, Osaka University, 2-1 Yamada-oka, Suita, Osaka 565-0871, Japan
| | - Kan Tanaka
- Laboratory for Chemistry and Life Science, Institute of Innovative Research, Tokyo Institute of Technology, 4259 Nagatsuta, Midori-ku, Yokohama, 226-8503 Japan
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Kazemi Shariat Panahi H, Dehhaghi M, Dehhaghi S, Guillemin GJ, Lam SS, Aghbashlo M, Tabatabaei M. Engineered bacteria for valorizing lignocellulosic biomass into bioethanol. BIORESOURCE TECHNOLOGY 2022; 344:126212. [PMID: 34715341 DOI: 10.1016/j.biortech.2021.126212] [Citation(s) in RCA: 7] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/30/2021] [Revised: 10/17/2021] [Accepted: 10/20/2021] [Indexed: 06/13/2023]
Abstract
Appropriate bioprocessing of lignocellulosic materials into ethanol could address the world's insatiable appetite for energy while mitigating greenhouse gases. Bioethanol is an ideal gasoline extender and is widely used in many countries in blended form with gasoline at specific ratios to improve fuel characteristics and engine performance. Although the bioethanol production industry has long been operational, finding a suitable microbial agent for the efficient conversion of lignocelluloses is still an active field of study. Among available microbial candidates, engineered bacteria may be promising ethanol producers while may show other desired traits such as thermophilic nature and high ethanol tolerance. This review provides the current knowledge on the introduction, overexpression, and deletion of the genes that have been performed in bacterial hosts to achieve higher ethanol yield, production rate and titer, and tolerance. The constraints and possible solutions and economic feasibility of the processes utilizing such engineered strains are also discussed.
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Affiliation(s)
- Hamed Kazemi Shariat Panahi
- Henan Province Engineering Research Center for Forest Biomass Value-added Products, School of Forestry, Henan Agricultural University, Zhengzhou, Henan, 450002, China; Neuroinflammation Group, Department of Biomedical Sciences, Faculty of Medicine, Health and Human Sciences, Macquarie University, NSW, Australia; Biofuel Research Team (BRTeam), Terengganu, Malaysia
| | - Mona Dehhaghi
- Neuroinflammation Group, Department of Biomedical Sciences, Faculty of Medicine, Health and Human Sciences, Macquarie University, NSW, Australia; Biofuel Research Team (BRTeam), Terengganu, Malaysia; PANDIS.org, Australia
| | - Somayeh Dehhaghi
- Department of Agricultural Extension and Education, Tarbiat Modares University, Tehran 14115-336, Iran
| | - Gilles J Guillemin
- Neuroinflammation Group, Department of Biomedical Sciences, Faculty of Medicine, Health and Human Sciences, Macquarie University, NSW, Australia; PANDIS.org, Australia
| | - Su Shiung Lam
- Henan Province Engineering Research Center for Forest Biomass Value-added Products, School of Forestry, Henan Agricultural University, Zhengzhou, Henan, 450002, China; Higher Institution Centre of Excellence (HICoE), Institute of Tropical Aquaculture and Fisheries (AKUATROP), Universiti Malaysia Terengganu, 21030 Kuala Nerus, Terengganu, Malaysia.
| | - Mortaza Aghbashlo
- Department of Mechanical Engineering of Agricultural Machinery, Faculty of Agricultural Engineering and Technology, College of Agriculture and Natural Resources, University of Tehran, Karaj, Iran
| | - Meisam Tabatabaei
- Henan Province Engineering Research Center for Forest Biomass Value-added Products, School of Forestry, Henan Agricultural University, Zhengzhou, Henan, 450002, China; Biofuel Research Team (BRTeam), Terengganu, Malaysia; Higher Institution Centre of Excellence (HICoE), Institute of Tropical Aquaculture and Fisheries (AKUATROP), Universiti Malaysia Terengganu, 21030 Kuala Nerus, Terengganu, Malaysia; Microbial Biotechnology Department, Agricultural Biotechnology Research Institute of Iran (ABRII), Agricultural Research, Education and Extension Organization (AREEO), Karaj, Iran
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Lin GH, Hsieh MC, Shu HY. Role of Iron-Containing Alcohol Dehydrogenases in Acinetobacter baumannii ATCC 19606 Stress Resistance and Virulence. Int J Mol Sci 2021; 22:ijms22189921. [PMID: 34576087 PMCID: PMC8465190 DOI: 10.3390/ijms22189921] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/03/2021] [Revised: 09/11/2021] [Accepted: 09/13/2021] [Indexed: 11/21/2022] Open
Abstract
Most bacteria possess alcohol dehydrogenase (ADH) genes (Adh genes) to mitigate alcohol toxicity, but these genes have functions beyond alcohol degradation. Previous research has shown that ADH can modulate quorum sensing in Acinetobacter baumannii, a rising opportunistic pathogen. However, the number and nature of Adh genes in A. baumannii have not yet been fully characterized. We identified seven alcohol dehydrogenases (NAD+-ADHs) from A. baumannii ATCC 19606, and examined the roles of three iron-containing ADHs, ADH3, ADH4, and ADH6. Marker-less mutation was used to generate Adh3, Adh4, and Adh6 single, double, and triple mutants. Disrupted Adh4 mutants failed to grow in ethanol-, 1-butanol-, or 1-propanol-containing mediums, and recombinant ADH4 exhibited strongest activity against ethanol. Stress resistance assays with inorganic and organic hydroperoxides showed that Adh3 and Adh6 were key to oxidative stress resistance. Virulence assays performed on the Galleria mellonella model organism revealed that Adh4 mutants had comparable virulence to wild-type, while Adh3 and Adh6 mutants had reduced virulence. The results suggest that ADH4 is primarily involved in alcohol metabolism, while ADH3 and ADH6 are key to stress resistance and virulence. Further investigation into the roles of other ADHs in A. baumannii is warranted.
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Affiliation(s)
- Guang-Huey Lin
- Master Program of Microbiology and Immunology, School of Medicine, Tzu Chi University, Hualien 97004, Taiwan; (G.-H.L.); (M.-C.H.)
- Department of Microbiology, School of Medicine, Tzu Chi University, Hualien 97004, Taiwan
- International College, Tzu Chi University, Hualien 97004, Taiwan
| | - Ming-Chuan Hsieh
- Master Program of Microbiology and Immunology, School of Medicine, Tzu Chi University, Hualien 97004, Taiwan; (G.-H.L.); (M.-C.H.)
| | - Hung-Yu Shu
- Department of Bioscience Technology, Chang Jung Christian University, Tainan 71101, Taiwan
- Correspondence: ; Tel.: +886-6-278-5123 (ext. 3211); Fax: +886-6-278-5010
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Hao YC, Zong MH, Wang ZL, Li N. Chemoenzymatic access to enantiopure N-containing furfuryl alcohol from chitin-derived N-acetyl-D-glucosamine. BIORESOUR BIOPROCESS 2021; 8:80. [PMID: 38650256 PMCID: PMC10992857 DOI: 10.1186/s40643-021-00435-w] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/25/2021] [Accepted: 08/18/2021] [Indexed: 12/16/2022] Open
Abstract
BACKGROUND Chiral furfuryl alcohols are important precursors for the synthesis of valuable functionalized pyranones such as the rare sugar L-rednose. However, the synthesis of enantiopure chiral biobased furfuryl alcohols remains scarce. In this work, we present a chemoenzymatic route toward enantiopure nitrogen-containing (R)- and (S)-3-acetamido-5-(1-hydroxylethyl)furan (3A5HEF) from chitin-derived N-acetyl-D-glucosamine (NAG). FINDINGS 3-Acetamido-5-acetylfuran (3A5AF) was obtained from NAG via ionic liquid/boric acid-catalyzed dehydration, in an isolated yield of approximately 31%. Carbonyl reductases from Streptomyces coelicolor (ScCR) and Bacillus sp. ECU0013 (YueD) were found to be good catalysts for asymmetric reduction of 3A5AF. Enantiocomplementary synthesis of (R)- and (S)-3A5HEF was implemented with the yields of up to > 99% and the enantiomeric excess (ee) values of > 99%. Besides, biocatalytic synthesis of (R)-3A5HEF was demonstrated on a preparative scale, with an isolated yield of 65%. CONCLUSIONS A two-step process toward the chiral furfuryl alcohol was successfully developed by integrating chemical catalysis with enzyme catalysis, with excellent enantioselectivities. This work demonstrates the power of the combination of chemo- and biocatalysis for selective valorization of biobased furans.
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Affiliation(s)
- Ya-Cheng Hao
- School of Food Science and Engineering, South China University of Technology, 381 Wushan Road, Guangzhou, 510640, China
| | - Min-Hua Zong
- School of Food Science and Engineering, South China University of Technology, 381 Wushan Road, Guangzhou, 510640, China
| | - Zhi-Lin Wang
- Agro-Biological Gene Research Center, Guangdong Academy of Agricultural Sciences, 20 Jinying Road, Guangzhou, 510640, China.
| | - Ning Li
- School of Food Science and Engineering, South China University of Technology, 381 Wushan Road, Guangzhou, 510640, China.
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A multi-enzyme cascade reaction for the production of α,ω-dicarboxylic acids from free fatty acids. J IND ENG CHEM 2021. [DOI: 10.1016/j.jiec.2021.03.029] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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do Amaral SC, Santos AV, da Cruz Schneider MP, da Silva JKR, Xavier LP. Determination of Volatile Organic Compounds and Antibacterial Activity of the Amazonian Cyanobacterium Synechococcus sp. Strain GFB01. Molecules 2020; 25:molecules25204744. [PMID: 33081080 PMCID: PMC7587573 DOI: 10.3390/molecules25204744] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/22/2020] [Revised: 09/09/2020] [Accepted: 09/15/2020] [Indexed: 12/20/2022] Open
Abstract
Cyanobacteria exhibit great biotechnological potential due to their capacity to produce compounds with various applicability. Volatile organic compounds (VOCs) possess low molecular weight and high vapor pressure. Many volatiles produced by microorganisms have biotechnological potential, including antimicrobial activity. This study aimed to investigate the VOCs synthesized by cyanobacterium Synechococcus sp. strain GFB01, and the influence of nitrate and phosphate on its antibacterial potential. The strain was isolated from the surface of the freshwater lagoon Lagoa dos Índios, Amapá state, in Northern Brazil. After cultivation, the VOCs were extracted by a simultaneous distillation-extraction process, using a Likens-Nickerson apparatus (2 h), and then identified by GC-MS. The extracts did not display inhibitory activity against the Gram-positive bacteria tested by the disk-diffusion agar method. However, the anti-Salmonella property in both extracts (methanol and aqueous) was detected. The main VOCs identified were heptadecane (81.32%) and octadecyl acetate (11.71%). To the best of our knowledge, this is the first study of VOCs emitted by a cyanobacterium from the Amazon that reports the occurrence of 6-pentadecanol and octadecyl acetate in cyanobacteria.
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Affiliation(s)
- Samuel Cavalcante do Amaral
- Laboratory of Biotechnology of Enzymes and Biotransformation, Biological Sciences Institute, Federal University of Para, Belém 66075-110, Brazil; (S.C.d.A.); (A.V.S.)
| | - Agenor Valadares Santos
- Laboratory of Biotechnology of Enzymes and Biotransformation, Biological Sciences Institute, Federal University of Para, Belém 66075-110, Brazil; (S.C.d.A.); (A.V.S.)
| | - Maria Paula da Cruz Schneider
- Center of Genomics and Systems Biology, Biological Sciences Institute, Federal University of Para, Belém 66075-110, Brazil;
| | - Joyce Kelly Rosário da Silva
- Laboratory of Biotechnology of Enzymes and Biotransformation, Biological Sciences Institute, Federal University of Para, Belém 66075-110, Brazil; (S.C.d.A.); (A.V.S.)
- Correspondence: (J.K.R.d.S.); (L.P.X.); Tel.: +55-91-3201-8426 (J.K.R.d.S.)
| | - Luciana Pereira Xavier
- Laboratory of Biotechnology of Enzymes and Biotransformation, Biological Sciences Institute, Federal University of Para, Belém 66075-110, Brazil; (S.C.d.A.); (A.V.S.)
- Correspondence: (J.K.R.d.S.); (L.P.X.); Tel.: +55-91-3201-8426 (J.K.R.d.S.)
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Haghighi O, Moradi M. In Silico Study of the Structure and Ligand Interactions of Alcohol Dehydrogenase from Cyanobacterium Synechocystis Sp. PCC 6803 as a Key Enzyme for Biofuel Production. Appl Biochem Biotechnol 2020; 192:1346-1367. [PMID: 32767175 DOI: 10.1007/s12010-020-03400-z] [Citation(s) in RCA: 12] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/02/2020] [Accepted: 07/16/2020] [Indexed: 12/13/2022]
Abstract
Alcohol dehydrogenase is one of the most critical enzymes in the production of ethanol and butanol. Synechocystis sp. PCC 6803 is a model cyanobacterium organism that is able to produce alcohols through its autotrophic energy production system. In spite of the high potential for biofuel production by this bacteria, the structure of its alcohol dehydrogenase has not been subjected to in-depth studies. The current study was aimed to analyze the molecular model for alcohol dehydrogenase of Synechocystis sp. PCC 6803 and scrutinize the interactions of different chemicals, including substrates and coenzymes. Also, the phylogenetic tree was provided to investigate the relation between different sources. The results indicated that alcohol dehydrogenase of Synechocystis sp. PCC 6803 has a different sequence compared with other Alcohol dehydrogenases (ADHs) of cyanobacterial family members. Verification of the homology model using Ramachandran plot by PROCHECK indicated that all of the residues are in favored or allowed regions of the plot. This enzyme has two Zn ions in its structure which is very similar to the other Zn-dependent ADHs. Docking studies suggest that this enzyme could have more active sites for different substrates. In addition, this enzyme has more affinity to NADH as a cofactor and sinapaldehyde as a substrate compared with the other cofactor and substrates.
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Affiliation(s)
- Omid Haghighi
- Department of Energy and Environmental Biotechnology, National Institute of Genetic Engineering and Biotechnology (NIGEB), Tehran, Iran.
- Department of Biotechnology, Faculty of Biological Science and Technology, University of Isfahan, Isfahan, Iran.
| | - Mohammad Moradi
- Department of Biotechnology, Faculty of Biological Science and Technology, University of Isfahan, Isfahan, Iran.
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Bhagat AK, Buium H, Shmul G, Alfonta L. Genetically Expanded Reactive-Oxygen-Tolerant Alcohol Dehydrogenase II. ACS Catal 2020. [DOI: 10.1021/acscatal.9b03739] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/20/2023]
Affiliation(s)
- Ashok Kumar Bhagat
- Departments of Life Sciences, Chemistry and Ilse Katz Institute for Nanoscale Science and Technology, Ben-Gurion University of the Negev, Beer-Sheva 8410501, Israel
| | - Hadar Buium
- Departments of Life Sciences, Chemistry and Ilse Katz Institute for Nanoscale Science and Technology, Ben-Gurion University of the Negev, Beer-Sheva 8410501, Israel
| | - Guy Shmul
- Department of Chemical Research Support, Weizmann Institute of Science, Rehovot 7610001, Israel
| | - Lital Alfonta
- Departments of Life Sciences, Chemistry and Ilse Katz Institute for Nanoscale Science and Technology, Ben-Gurion University of the Negev, Beer-Sheva 8410501, Israel
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Jia HY, Zong MH, Zheng GW, Li N. One-Pot Enzyme Cascade for Controlled Synthesis of Furancarboxylic Acids from 5-Hydroxymethylfurfural by H 2 O 2 Internal Recycling. CHEMSUSCHEM 2019; 12:4764-4768. [PMID: 31490638 DOI: 10.1002/cssc.201902199] [Citation(s) in RCA: 25] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/12/2019] [Revised: 09/05/2019] [Indexed: 06/10/2023]
Abstract
Furancarboxylic acids are promising biobased building blocks in pharmaceutical and polymer industries. In this work, dual-enzyme cascade systems composed of galactose oxidase (GOase) and alcohol dehydrogenases (ADHs) are constructed for controlled synthesis of 5-formyl-2-furancarboxylic acid (FFCA) and 2,5-furandicarboxylic acid (FDCA) from 5-hydroxymethylfurfural (HMF), based on the catalytic promiscuity of ADHs. The byproduct H2 O2 , which is produced in GOase-catalyzed oxidation of HMF to 2,5-diformylfuran (DFF), is used for horseradish peroxidase (HRP)-mediated regeneration of the oxidized nicotinamide cofactors for subsequent oxidation of DFF promoted by an ADH, thus implementing H2 O2 internal recycling. The desired products FFCA and FDCA are obtained with yields of more than 95 %.
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Affiliation(s)
- Hao-Yu Jia
- State Key Laboratory of Pulp and Paper Engineering, School of Food Science and Engineering, South China University of Technology, 381 Wushan Road, Guangzhou, 510640, China
| | - Min-Hua Zong
- State Key Laboratory of Pulp and Paper Engineering, School of Food Science and Engineering, South China University of Technology, 381 Wushan Road, Guangzhou, 510640, China
| | - Gao-Wei Zheng
- State Key Laboratory of Bioreactor Engineering, East China University of Science and Technology, 130 Meilong Road, Shanghai, 200237, China
| | - Ning Li
- State Key Laboratory of Pulp and Paper Engineering, School of Food Science and Engineering, South China University of Technology, 381 Wushan Road, Guangzhou, 510640, China
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12
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Schmermund L, Jurkaš V, Özgen FF, Barone GD, Büchsenschütz HC, Winkler CK, Schmidt S, Kourist R, Kroutil W. Photo-Biocatalysis: Biotransformations in the Presence of Light. ACS Catal 2019. [DOI: 10.1021/acscatal.9b00656] [Citation(s) in RCA: 147] [Impact Index Per Article: 29.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/08/2023]
Affiliation(s)
- Luca Schmermund
- Institute of Chemistry, University of Graz, NAWI Graz, BioTechMed Graz, BioHealth, Heinrichstrasse 28, 8010 Graz, Austria
| | - Valentina Jurkaš
- Institute of Chemistry, University of Graz, NAWI Graz, BioTechMed Graz, BioHealth, Heinrichstrasse 28, 8010 Graz, Austria
| | - F. Feyza Özgen
- Institute of Molecular Biotechnology, Graz University of Technology, NAWI Graz, Petersgasse 14, 8010 Graz, Austria
| | - Giovanni D. Barone
- Institute of Molecular Biotechnology, Graz University of Technology, NAWI Graz, Petersgasse 14, 8010 Graz, Austria
| | - Hanna C. Büchsenschütz
- Institute of Molecular Biotechnology, Graz University of Technology, NAWI Graz, Petersgasse 14, 8010 Graz, Austria
| | - Christoph K. Winkler
- Institute of Chemistry, University of Graz, NAWI Graz, BioTechMed Graz, BioHealth, Heinrichstrasse 28, 8010 Graz, Austria
| | - Sandy Schmidt
- Institute of Molecular Biotechnology, Graz University of Technology, NAWI Graz, Petersgasse 14, 8010 Graz, Austria
| | - Robert Kourist
- Institute of Molecular Biotechnology, Graz University of Technology, NAWI Graz, Petersgasse 14, 8010 Graz, Austria
| | - Wolfgang Kroutil
- Institute of Chemistry, University of Graz, NAWI Graz, BioTechMed Graz, BioHealth, Heinrichstrasse 28, 8010 Graz, Austria
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Proteomic evaluation of the freshly isolated cyanobionts from Azolla microphylla exposed to salinity stress. Symbiosis 2018. [DOI: 10.1007/s13199-018-0586-8] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/10/2023]
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14
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Poirier I, Pallud M, Kuhn L, Hammann P, Demortière A, Jamali A, Chicher J, Caplat C, Gallon RK, Bertrand M. Toxicological effects of CdSe nanocrystals on the marine diatom Phaeodactylum tricornutum: The first mass spectrometry-based proteomic approach. ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY 2018; 152:78-90. [PMID: 29407785 DOI: 10.1016/j.ecoenv.2018.01.043] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/08/2017] [Revised: 01/17/2018] [Accepted: 01/19/2018] [Indexed: 06/07/2023]
Abstract
UNLABELLED In the marine environment, benthic diatoms from estuarine and coastal sediments are among the first targets of nanoparticle pollution whose potential toxicity on marine organisms is still largely unknown. It is therefore relevant to improve our knowledge of interactions between these new pollutants and microalgae, the key players in the control of marine resources. In this study, the response of P. tricornutum to CdSe nanocrystals (CdSe NPs) of 5 nm (NP5) and 12 nm (NP12) in diameter was evaluated through microscopic, physiological, biochemical and proteomic approaches. NP5 and NP12 affected cell growth but oxygen production was only slightly decreased by NP5 after 1-d incubation time. In our experimental conditions, a high CdSe NP dissolution was observed during the first day of culture, leading to Cd bioaccumulation and oxidative stress, particularly with NP12. However, after a 7-day incubation time, proteomic analysis highlighted that P. tricornutum responded to CdSe NP toxicity by regulating numerous proteins involved in protection against oxidative stress, cellular redox homeostasis, Ca2+ regulation and signalling, S-nitrosylation and S-glutathionylation processes and cell damage repair. These proteome changes allowed algae cells to regulate their intracellular ROS level in contaminated cultures. P. tricornutum was also capable to control its intracellular Cd concentration at a sufficiently low level to preserve its growth. To our knowledge, this is the first work allowing the identification of proteins differentially expressed by P. tricornutum subjected to NPs and thus the understanding of some molecular pathways involved in its cellular response to nanoparticles. SIGNIFICANCE The microalgae play a key role in the control of marine resources. Moreover, they produce 50% of the atmospheric oxygen. CdSe NPs are extensively used in the industry of renewable energies and it is regrettably expected that these pollutants will sometime soon appear in the marine environment through surface runoff, urban effluents and rivers. Since estuarine and coastal sediments concentrate pollutants, benthic microalgae which live in superficial sediments will be among the first targets of nanoparticle pollution. Thus, it is relevant to improve our knowledge of interactions between diatoms and nanoparticles. Proteomics is a powerful tool for understanding the molecular mechanisms triggered by nanoparticle exposure, and our study is the first one to use this tool to identify proteins differentially expressed by P. tricornutum subjected to CdSe nanocrystals. This work is fundamental to improve our knowledge about the defence mechanisms developed by algae cells to counteract damage caused by CdSe NPs.
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Affiliation(s)
- Isabelle Poirier
- Institut National des Sciences et Techniques de la Mer, Conservatoire National des Arts et Métiers, 50103 Cherbourg en Cotentin Cedex, France; Laboratoire Universitaire des Sciences Appliquées de Cherbourg, EA4253, Normandie Université, UNICAEN, 50130 Cherbourg en Cotentin, France.
| | - Marie Pallud
- Institut National des Sciences et Techniques de la Mer, Conservatoire National des Arts et Métiers, 50103 Cherbourg en Cotentin Cedex, France; IFREMER, LEAD NC, Equipe Ecophysiologie Station aquacole de Saint Vincent, Boulouparis, 98897 Nouvelle Calédonie Cedex, France.
| | - Lauriane Kuhn
- Plateforme Protéomique Strasbourg Esplanade, CNRS FRC 1589, Institut de Biologie Moléculaire et Cellulaire, 67084 Strasbourg Cedex, France.
| | - Philippe Hammann
- Plateforme Protéomique Strasbourg Esplanade, CNRS FRC 1589, Institut de Biologie Moléculaire et Cellulaire, 67084 Strasbourg Cedex, France.
| | - Arnaud Demortière
- Laboratoire de Réactivité et Chimie des Solides, CNRS UMR 7314, Université de Picardie Jules Verne, 80039 Amiens Cedex 1, France; Réseau sur le Stockage Electrochimique de l'Energie (RS2E), CNRS FR 3459, 80039 Amiens Cedex 1, France; Center for Nanoscale Materials, Argonne National Laboratory, Argonne, IL 60439, United States.
| | - Arash Jamali
- Laboratoire de Réactivité et Chimie des Solides, CNRS UMR 7314, Université de Picardie Jules Verne, 80039 Amiens Cedex 1, France.
| | - Johana Chicher
- Plateforme Protéomique Strasbourg Esplanade, CNRS FRC 1589, Institut de Biologie Moléculaire et Cellulaire, 67084 Strasbourg Cedex, France.
| | - Christelle Caplat
- UMR BOREA, UCBN, MNHN, UPMC, CNRS-7208, IRD-207, Institut de Biologie Fondamentale et Appliquée, Normandie Université, UNICAEN, 14032 Caen Cedex 5, France.
| | - Régis Kevin Gallon
- Institut National des Sciences et Techniques de la Mer, Conservatoire National des Arts et Métiers, 50103 Cherbourg en Cotentin Cedex, France; Laboratoire Universitaire des Sciences Appliquées de Cherbourg, EA4253, Normandie Université, UNICAEN, 50130 Cherbourg en Cotentin, France.
| | - Martine Bertrand
- Institut National des Sciences et Techniques de la Mer, Conservatoire National des Arts et Métiers, 50103 Cherbourg en Cotentin Cedex, France; Laboratoire Universitaire des Sciences Appliquées de Cherbourg, EA4253, Normandie Université, UNICAEN, 50130 Cherbourg en Cotentin, France.
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15
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Deletion of sll1541 in Synechocystis sp. Strain PCC 6803 Allows Formation of a Far-Red-Shifted holo-Proteorhodopsin In Vivo. Appl Environ Microbiol 2018; 84:AEM.02435-17. [PMID: 29475867 DOI: 10.1128/aem.02435-17] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/07/2017] [Accepted: 02/08/2018] [Indexed: 12/25/2022] Open
Abstract
In many pro- and eukaryotes, a retinal-based proton pump equips the cell to drive ATP synthesis with (sun)light. Such pumps, therefore, have been proposed as a plug-in for cyanobacteria to artificially increase the efficiency of oxygenic photosynthesis. However, little information on the metabolism of retinal, their chromophore, is available for these organisms. We have studied the in vivo roles of five genes (sll1541, slr1648, slr0091, slr1192, and slr0574) potentially involved in retinal metabolism in Synechocystis sp. strain PCC 6803. With a gene deletion approach, we have shown that Synechocystis apo-carotenoid-15,15-oxygenase (SynACO), encoded by gene sll1541, is an indispensable enzyme for retinal synthesis in Synechocystis, presumably via asymmetric cleavage of β-apo-carotenal. The second carotenoid oxygenase (SynDiox2), encoded by gene slr1648, competes with SynACO for substrate(s) but only measurably contributes to retinal biosynthesis in stationary phase via an as-yet-unknown mechanism. In vivo degradation of retinal may proceed through spontaneous chemical oxidation and via enzyme-catalyzed processes. Deletion of gene slr0574 (encoding CYP120A1), but not of slr0091 or of slr1192, causes an increase (relative to the level in wild-type Synechocystis) in the retinal content in both the linear and stationary growth phases. These results suggest that CYP120A1 does contribute to retinal degradation. Preliminary data obtained using 13C-labeled retinal suggest that conversion to retinol and retinoic acid and subsequent further oxidation also play a role. Deletion of sll1541 leads to deficiency in retinal synthesis and allows the in vivo reconstitution of far-red-absorbing holo-proteorhodopsin with exogenous retinal analogues, as demonstrated here for all-trans 3,4-dehydroretinal and 3-methylamino-16-nor-1,2,3,4-didehydroretinal.IMPORTANCE Retinal is formed by many cyanobacteria and has a critical role in most forms of life for processes such as photoreception, growth, and stress survival. However, the metabolic pathways in cyanobacteria for synthesis and degradation of retinal are poorly understood. In this paper we identify genes involved in its synthesis, characterize their role, and provide an initial characterization of the pathway of its degradation. This led to the identification of sll1541 (encoding SynACO) as the essential gene for retinal synthesis. Multiple pathways for retinal degradation presumably exist. These results have allowed us to construct a strain that expresses a light-dependent proton pump with an action spectrum extending beyond 700 nm. The availability of this strain will be important for further work aimed at increasing the overall efficiency of oxygenic photosynthesis.
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16
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Shimakawa G, Kohara A, Miyake C. Medium-chain dehydrogenase/reductase and aldo-keto reductase scavenge reactive carbonyls in Synechocystis sp. PCC 6803. FEBS Lett 2018; 592:1010-1019. [PMID: 29430658 DOI: 10.1002/1873-3468.13003] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/05/2018] [Revised: 01/30/2018] [Accepted: 02/02/2018] [Indexed: 01/24/2023]
Abstract
Reactive carbonyls (RCs), which are inevitably produced during respiratory and photosynthetic metabolism, have the potential to cause oxidative damage to photosynthetic organisms. Previously, we proposed a scavenging model for RCs in the cyanobacterium Synechocystis sp. PCC 6803 (S. 6803). In the current study, we constructed mutants deficient in the enzymes medium-chain dehydrogenase/reductase (ΔMDR) and aldo-keto reductase (ΔAKR) to investigate their contributions to RC scavenging in vivo. We found that treatment with the lipid-derived RC acrolein causes growth inhibition and promotes greater protein carbonylation in ΔMDR, compared with the wild-type and ΔAKR. In both ΔMDR and ΔAKR, photosynthesis is severely inhibited in the presence of acrolein. These results suggest that these enzymes function as part of the scavenging systems for RCs in S. 6803 in vivo.
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Affiliation(s)
- Ginga Shimakawa
- Department of Biological and Environmental Science, Faculty of Agriculture, Graduate School of Agricultural Science, Kobe University, Japan
| | - Ayaka Kohara
- Department of Biological and Environmental Science, Faculty of Agriculture, Graduate School of Agricultural Science, Kobe University, Japan
| | - Chikahiro Miyake
- Department of Biological and Environmental Science, Faculty of Agriculture, Graduate School of Agricultural Science, Kobe University, Japan.,Core Research for Environmental Science and Technology, Japan Science and Technology Agency, Tokyo, Japan
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17
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Lopes da Silva T, Passarinho PC, Galriça R, Zenóglio A, Armshaw P, Pembroke JT, Sheahan C, Reis A, Gírio F. Evaluation of the ethanol tolerance for wild and mutant Synechocystis strains by flow cytometry. ACTA ACUST UNITED AC 2018; 17:137-147. [PMID: 29556479 PMCID: PMC5856660 DOI: 10.1016/j.btre.2018.02.005] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/02/2017] [Revised: 01/31/2018] [Accepted: 02/13/2018] [Indexed: 01/28/2023]
Abstract
Flow cytometry was used to evaluate the effect of initial ethanol concentrations on cyanobacterial strains of Synechocystis PCC 6803 [wild-type (WT), and ethanol producing recombinants (UL 004 and UL 030)] in batch cultures. Ethanol recombinants, containing one or two metabolically engineered cassettes, were designed towards the development of an economically competitive process for the direct production of bioethanol from microalgae through an exclusive autotrophic route. It can be concluded that the recombinant Synechocystis UL 030 containing two copies of the genes per genome was the most tolerant to ethanol. Nevertheless, to implement a production process using recombinant strains, the bioethanol produced will be required to be continuously extracted from the culture media via a membrane-based technological process for example to prevent detrimental effects on the biomass. The results presented here are of significance in defining the maximum threshold for bulk ethanol concentration in production media.
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Affiliation(s)
- Teresa Lopes da Silva
- Laboratório Nacional de Energia e Geologia, I.P., Unidade de Bioenergia, Estrada do Paço do Lumiar 22, 1649-038, Lisbon, Portugal
| | - Paula C Passarinho
- Laboratório Nacional de Energia e Geologia, I.P., Unidade de Bioenergia, Estrada do Paço do Lumiar 22, 1649-038, Lisbon, Portugal
| | - Ricardo Galriça
- Laboratório Nacional de Energia e Geologia, I.P., Unidade de Bioenergia, Estrada do Paço do Lumiar 22, 1649-038, Lisbon, Portugal
| | - Afonso Zenóglio
- Laboratório Nacional de Energia e Geologia, I.P., Unidade de Bioenergia, Estrada do Paço do Lumiar 22, 1649-038, Lisbon, Portugal
| | - Patricia Armshaw
- Bernal Institute, Department of Chemical Sciences, School of Natural Sciences University of Limerick, Ireland
| | - J Tony Pembroke
- Bernal Institute, Department of Chemical Sciences, School of Natural Sciences University of Limerick, Ireland
| | - Con Sheahan
- School of Engineering, University of Limerick, Ireland
| | - Alberto Reis
- Laboratório Nacional de Energia e Geologia, I.P., Unidade de Bioenergia, Estrada do Paço do Lumiar 22, 1649-038, Lisbon, Portugal
| | - Francisco Gírio
- Laboratório Nacional de Energia e Geologia, I.P., Unidade de Bioenergia, Estrada do Paço do Lumiar 22, 1649-038, Lisbon, Portugal
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18
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Miao R, Liu X, Englund E, Lindberg P, Lindblad P. Isobutanol production in Synechocystis PCC 6803 using heterologous and endogenous alcohol dehydrogenases. Metab Eng Commun 2017; 5:45-53. [PMID: 29188183 PMCID: PMC5699533 DOI: 10.1016/j.meteno.2017.07.003] [Citation(s) in RCA: 55] [Impact Index Per Article: 7.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/13/2017] [Revised: 07/18/2017] [Accepted: 07/27/2017] [Indexed: 12/24/2022] Open
Abstract
Isobutanol is a flammable compound that can be used as a biofuel due to its high energy density and suitable physical and chemical properties. In this study, we examined the capacity of engineered strains of Synechocystis PCC 6803 containing the α-ketoisovalerate decarboxylase from Lactococcus lactis and different heterologous and endogenous alcohol dehydrogenases (ADH) for isobutanol production. A strain expressing an introduced kivd without any additional copy of ADH produced 3 mg L-1 OD750-1 isobutanol in 6 days. After the cultures were supplemented with external addition of isobutyraldehyde, the substrate for ADH, 60.8 mg L-1 isobutanol was produced after 24 h when OD750 was 0.8. The in vivo activities of four different ADHs, two heterologous and two putative endogenous in Synechocystis, were examined and the Synechocystis endogenous ADH encoded by slr1192 showed the highest efficiency for isobutanol production. Furthermore, the strain overexpressing the isobutanol pathway on a self-replicating vector with the strong Ptrc promoter showed significantly higher gene expression and isobutanol production compared to the corresponding strains expressing the same operon introduced on the genome. Hence, this study demonstrates that Synechocystis endogenous AHDs have a high capacity for isobutanol production, and identifies kivd encoded α-ketoisovalerate decarboxylase as one of the likely bottlenecks for further isobutanol production.
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Affiliation(s)
| | | | | | | | - Peter Lindblad
- Microbial chemistry, Department of Chemistry-Ångström Laboratory, Uppsala University, Box 523, SE-751 20 Uppsala, Sweden
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19
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Yi SY, Ku SS, Sim HJ, Kim SK, Park JH, Lyu JI, So EJ, Choi SY, Kim J, Ahn MS, Kim SW, Park H, Jeong WJ, Lim YP, Min SR, Liu JR. An Alcohol Dehydrogenase Gene from Synechocystis sp. Confers Salt Tolerance in Transgenic Tobacco. FRONTIERS IN PLANT SCIENCE 2017; 8:1965. [PMID: 29204151 PMCID: PMC5698875 DOI: 10.3389/fpls.2017.01965] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/15/2017] [Accepted: 10/31/2017] [Indexed: 06/01/2023]
Abstract
Synechocystis salt-responsive gene 1 (sysr1) was engineered for expression in higher plants, and gene construction was stably incorporated into tobacco plants. We investigated the role of Sysr1 [a member of the alcohol dehydrogenase (ADH) superfamily] by examining the salt tolerance of sysr1-overexpressing (sysr1-OX) tobacco plants using quantitative real-time polymerase chain reactions, gas chromatography-mass spectrometry, and bioassays. The sysr1-OX plants exhibited considerably increased ADH activity and tolerance to salt stress conditions. Additionally, the expression levels of several stress-responsive genes were upregulated. Moreover, airborne signals from salt-stressed sysr1-OX plants triggered salinity tolerance in neighboring wild-type (WT) plants. Therefore, Sysr1 enhanced the interconversion of aldehydes to alcohols, and this occurrence might affect the quality of green leaf volatiles (GLVs) in sysr1-OX plants. Actually, the Z-3-hexenol level was approximately twofold higher in sysr1-OX plants than in WT plants within 1-2 h of wounding. Furthermore, analyses of WT plants treated with vaporized GLVs indicated that Z-3-hexenol was a stronger inducer of stress-related gene expression and salt tolerance than E-2-hexenal. The results of the study suggested that increased C6 alcohol (Z-3-hexenol) induced the expression of resistance genes, thereby enhancing salt tolerance of transgenic plants. Our results revealed a role for ADH in salinity stress responses, and the results provided a genetic engineering strategy that could improve the salt tolerance of crops.
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Affiliation(s)
- So Young Yi
- Plant Systems Engineering Research Center, Korea Research Institute of Bioscience and Biotechnology, Daejeon, South Korea
- Institute of Agricultural Science, Chungnam National University, Daejeon, South Korea
| | - Seong Sub Ku
- Plant Systems Engineering Research Center, Korea Research Institute of Bioscience and Biotechnology, Daejeon, South Korea
| | - Hee-Jung Sim
- Center for Genome Engineering, Institute for Basic Science, Daejeon, South Korea
| | - Sang-Kyu Kim
- Center for Genome Engineering, Institute for Basic Science, Daejeon, South Korea
| | - Ji Hyun Park
- Plant Systems Engineering Research Center, Korea Research Institute of Bioscience and Biotechnology, Daejeon, South Korea
| | - Jae Il Lyu
- Plant Systems Engineering Research Center, Korea Research Institute of Bioscience and Biotechnology, Daejeon, South Korea
| | - Eun Jin So
- Plant Systems Engineering Research Center, Korea Research Institute of Bioscience and Biotechnology, Daejeon, South Korea
| | - So Yeon Choi
- Plant Systems Engineering Research Center, Korea Research Institute of Bioscience and Biotechnology, Daejeon, South Korea
| | - Jonghyun Kim
- Plant Systems Engineering Research Center, Korea Research Institute of Bioscience and Biotechnology, Daejeon, South Korea
| | - Myung Suk Ahn
- Biological Resources Center, Korea Research Institute of Bioscience and Biotechnology, Daejeon, South Korea
| | - Suk Weon Kim
- Biological Resources Center, Korea Research Institute of Bioscience and Biotechnology, Daejeon, South Korea
| | - Hyunwoo Park
- Plant Systems Engineering Research Center, Korea Research Institute of Bioscience and Biotechnology, Daejeon, South Korea
| | - Won Joong Jeong
- Plant Systems Engineering Research Center, Korea Research Institute of Bioscience and Biotechnology, Daejeon, South Korea
| | - Yong Pyo Lim
- Department of Horticulture, Chungnam National University, Daejeon, South Korea
| | - Sung Ran Min
- Plant Systems Engineering Research Center, Korea Research Institute of Bioscience and Biotechnology, Daejeon, South Korea
| | - Jang Ryol Liu
- Plant Systems Engineering Research Center, Korea Research Institute of Bioscience and Biotechnology, Daejeon, South Korea
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20
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Spatial separation of photosynthesis and ethanol production by cell type-specific metabolic engineering of filamentous cyanobacteria. Appl Microbiol Biotechnol 2017; 102:1523-1531. [DOI: 10.1007/s00253-017-8620-y] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/12/2017] [Revised: 10/24/2017] [Accepted: 10/30/2017] [Indexed: 12/22/2022]
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21
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Sun T, Chen L, Zhang W. Quantitative Proteomics Reveals Potential Crosstalk between a Small RNA CoaR and a Two-Component Regulator Slr1037 in Synechocystis sp. PCC6803. J Proteome Res 2017; 16:2954-2963. [PMID: 28677390 DOI: 10.1021/acs.jproteome.7b00243] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/06/2023]
Abstract
Bacterial small RNAs (sRNAs) and two-component systems (TCSs) were two vital regulatory mechanisms employed by microorganisms to respond to environmental changes and stresses. As a promising "autotrophic cell factory", photosynthetic cyanobacteria have attracted a lot of attention these years. Although most studies focused on studying the roles of sRNAs or TCS regulators in stress response in photosynthetic cyanobacteria, limited work has elucidated their potential crosstalk. Our previous work has identified a negative sRNA regulator CoaR and a positive response regulator Slr1037 both related to 1-butanol stress regulation in Synechocystis sp. PCC6803. In this work, the potential crosstalk between CoaR and Slr1307 (i.e., the coregulated genes mediated by CoaR and Slr1037) was identified and validated through quantitative proteomics and quantitative real-time PCR (qRT-PCR), respectively. The results showed that the sensitive phenotype to 1-butanol of Δslr1037 could be rescued by suppressing coaR in Δslr1037, probably due to the fact that some target genes of Slr1037 could be reactivated by repression of CoaR. Twenty-eight coregulated proteins mediated by CoaR and Slr1037 were found through quantitative proteomics, and 10 of the annotated proteins were validated via qRT-PCR. This study proved the existence of crosstalk between sRNAs and response regulators and provided new insights into the coregulation of biofuel resistance in cyanobacteria.
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Affiliation(s)
- Tao Sun
- Laboratory of Synthetic Microbiology, School of Chemical Engineering & Technology, Tianjin University , Tianjin 300072, P. R. China.,Key Laboratory of Systems Bioengineering (Ministry of Education), Tianjin University , Tianjin 300072, P. R. China.,SynBio Research Platform, Collaborative Innovation Center of Chemical Science and Engineering , Tianjin 300072, P. R. China
| | - Lei Chen
- Laboratory of Synthetic Microbiology, School of Chemical Engineering & Technology, Tianjin University , Tianjin 300072, P. R. China.,Key Laboratory of Systems Bioengineering (Ministry of Education), Tianjin University , Tianjin 300072, P. R. China.,SynBio Research Platform, Collaborative Innovation Center of Chemical Science and Engineering , Tianjin 300072, P. R. China
| | - Weiwen Zhang
- Laboratory of Synthetic Microbiology, School of Chemical Engineering & Technology, Tianjin University , Tianjin 300072, P. R. China.,Key Laboratory of Systems Bioengineering (Ministry of Education), Tianjin University , Tianjin 300072, P. R. China.,SynBio Research Platform, Collaborative Innovation Center of Chemical Science and Engineering , Tianjin 300072, P. R. China.,Center for Biosafety Research and Strategy, Tianjin University , Tianjin 300072, P. R. China
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22
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Kobayashi I, Watanabe S, Kanesaki Y, Shimada T, Yoshikawa H, Tanaka K. Conserved two-component Hik34-Rre1 module directly activates heat-stress inducible transcription of major chaperone and other genes in Synechococcus elongatus PCC 7942. Mol Microbiol 2017; 104:260-277. [PMID: 28106321 DOI: 10.1111/mmi.13624] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 01/16/2017] [Indexed: 11/28/2022]
Abstract
Bacteria and other organisms, including cyanobacteria, employ two-component signal transducing modules comprising histidine kinases and response regulators to acclimate to changing environments. While the number and composition of these modules differ among cyanobacteria, two response regulators that contain DNA binding domains, RpaB and Rre1, are conserved in all sequenced cyanobacterial genomes and are essential for viability. Although RpaB negatively or positively regulates high light and other stress-responsive gene expression, little is known about the function of Rre1. Here, they investigated the direct regulatory targets of Rre1 in the cyanobacterium Synechococcus elongatus PCC 7942. Chromatin immunoprecipitation and high-density tiling array analysis were used to map Rre1 binding sites. The sites included promoter regions for chaperone genes such as dnaK2, groESL-1, groEL-2, hspA and htpG, as well as the group 2 sigma factor gene rpoD2. In vivo and in vitro analyses revealed that Rre1 phosphorylation level, DNA binding activity and adjacent gene transcription increased in response to heat stress. These responses were much diminished in a knock-out mutant of Hik34, a previously identified heat shock regulator. Based on our results, we propose Hik34-Rre1 is the heat shock-responsive signaling module that positively regulates major chaperone and other genes in cyanobacteria.
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Affiliation(s)
- Ikki Kobayashi
- Laboratory for Chemistry and Life Science, Institute of Innovative Science, Tokyo Institute of Technology, 4259-R1-29 Nagatsuta, Midori-ku, Yokohama, 226-8503, Japan.,Graduate School of Interdisciplinary Science, Tokyo Institute of Technology, Nagatsuta 4259-R1-29, Midori-ku, Yokohama, 226-8503, Japan
| | - Satoru Watanabe
- Department of Bioscience, Tokyo University of Agriculture, Sakuragaoka, Setagaya-ku, Tokyo, 156-8502, Japan
| | - Yu Kanesaki
- NODAI Genome Research Center, Tokyo University of Agriculture, Sakuragaoka, Setagaya-ku, Tokyo, 156-8502, Japan
| | - Tomohiro Shimada
- Laboratory for Chemistry and Life Science, Institute of Innovative Science, Tokyo Institute of Technology, 4259-R1-29 Nagatsuta, Midori-ku, Yokohama, 226-8503, Japan
| | - Hirofumi Yoshikawa
- Department of Bioscience, Tokyo University of Agriculture, Sakuragaoka, Setagaya-ku, Tokyo, 156-8502, Japan.,Core Research for Evolutional Science and Technology (CREST), Japan Science and Technology Agency (JST), Saitama, 332-0012, Japan
| | - Kan Tanaka
- Laboratory for Chemistry and Life Science, Institute of Innovative Science, Tokyo Institute of Technology, 4259-R1-29 Nagatsuta, Midori-ku, Yokohama, 226-8503, Japan.,Core Research for Evolutional Science and Technology (CREST), Japan Science and Technology Agency (JST), Saitama, 332-0012, Japan
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23
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Vidal R. Alcohol dehydrogenase AdhA plays a role in ethanol tolerance in model cyanobacterium Synechocystis sp. PCC 6803. Appl Microbiol Biotechnol 2017; 101:3473-3482. [PMID: 28160048 DOI: 10.1007/s00253-017-8138-3] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/05/2016] [Revised: 01/11/2017] [Accepted: 01/13/2017] [Indexed: 01/30/2023]
Abstract
The protein AdhA from the cyanobacterium Synechocystis sp. PCC 6803 (hereafter Synechocystis) has been previously reported to show alcohol dehydrogenase activity towards ethanol and both NAD and NADP. This protein is currently being used in genetically modified strains of Synechocystis capable of synthesizing ethanol showing the highest ethanol productivities. In the present work, mutant strains of Synechocystis lacking AdhA have been constructed and tested for tolerance to ethanol. The lack of AdhA in the wild-type strain reduces survival to externally added ethanol at lethal concentration of 4% (v/v). On the other hand, the lack of AdhA in an ethanologenic strain diminishes tolerance of cells to internally produced ethanol. It is also shown that light-activated heterotrophic growth (LAHG) of the wild-type strain is impaired in the mutant strain lacking AdhA (∆adhA strain). Photoautotrophic, mixotrophic, and photoheterotrophic growth are not affected in the mutant strain. Based on phenotypic characterization of ∆adhA mutants, the possible physiological function of AdhA in Synechocystis is discussed.
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Affiliation(s)
- Rebeca Vidal
- CSIC/University of Seville, Avda. Americo Vespucio, s/n 41092, Seville, Spain. .,, Current Address: Avda. Republica Argentina, s/n. Edificio Principado, 41930, Bormujos (Seville), Spain.
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24
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Fu Y, Chen L, Zhang W. Regulatory mechanisms related to biofuel tolerance in producing microbes. J Appl Microbiol 2016; 121:320-32. [PMID: 27123568 DOI: 10.1111/jam.13162] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/03/2016] [Accepted: 04/20/2016] [Indexed: 11/28/2022]
Affiliation(s)
- Y. Fu
- Laboratory of Synthetic Microbiology; School of Chemical Engineering & Technology; Tianjin University; Tianjin China
- Key Laboratory of Systems Bioengineering (Ministry of Education); Tianjin University; Tianjin China
- SynBio Research Platform; Collaborative Innovation Center of Chemical Science and Engineering (Tianjin); Tianjin China
| | - L. Chen
- Laboratory of Synthetic Microbiology; School of Chemical Engineering & Technology; Tianjin University; Tianjin China
- Key Laboratory of Systems Bioengineering (Ministry of Education); Tianjin University; Tianjin China
- SynBio Research Platform; Collaborative Innovation Center of Chemical Science and Engineering (Tianjin); Tianjin China
| | - W. Zhang
- Laboratory of Synthetic Microbiology; School of Chemical Engineering & Technology; Tianjin University; Tianjin China
- Key Laboratory of Systems Bioengineering (Ministry of Education); Tianjin University; Tianjin China
- SynBio Research Platform; Collaborative Innovation Center of Chemical Science and Engineering (Tianjin); Tianjin China
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Yao L, Cengic I, Anfelt J, Hudson EP. Multiple Gene Repression in Cyanobacteria Using CRISPRi. ACS Synth Biol 2016; 5:207-12. [PMID: 26689101 DOI: 10.1021/acssynbio.5b00264] [Citation(s) in RCA: 147] [Impact Index Per Article: 18.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/03/2023]
Abstract
We describe the application of clustered regularly interspaced short palindromic repeats interference (CRISPRi) for gene repression in the model cyanobacterium Synechcocystis sp. PCC 6803. The nuclease-deficient Cas9 from the type-II CRISPR/Cas of Streptrococcus pyogenes was used to repress green fluorescent protein (GFP) to negligible levels. CRISPRi was also used to repress formation of carbon storage compounds polyhydroxybutryate (PHB) and glycogen during nitrogen starvation. As an example of the potential of CRISPRi for basic and applied cyanobacteria research, we simultaneously knocked down 4 putative aldehyde reductases and dehydrogenases at 50-95% repression. This work also demonstrates that tightly repressed promoters allow for inducible and reversible CRISPRi in cyanobacteria.
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Affiliation(s)
- Lun Yao
- KTH—Royal Institute of Technology, Division of Proteomics and Nanobiotechnology, Science for Life Laboratory, Stockholm SE-171 21 Sweden
| | - Ivana Cengic
- KTH—Royal Institute of Technology, Division of Proteomics and Nanobiotechnology, Science for Life Laboratory, Stockholm SE-171 21 Sweden
| | - Josefine Anfelt
- KTH—Royal Institute of Technology, Division of Proteomics and Nanobiotechnology, Science for Life Laboratory, Stockholm SE-171 21 Sweden
| | - Elton P. Hudson
- KTH—Royal Institute of Technology, Division of Proteomics and Nanobiotechnology, Science for Life Laboratory, Stockholm SE-171 21 Sweden
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Kumar D, Rampuria S, Singh NK, Kirti PB. A novel zinc-binding alcohol dehydrogenase 2 from Arachis diogoi, expressed in resistance responses against late leaf spot pathogen, induces cell death when transexpressed in tobacco. FEBS Open Bio 2016; 6:200-10. [PMID: 27047748 PMCID: PMC4794784 DOI: 10.1002/2211-5463.12040] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/15/2015] [Revised: 12/11/2015] [Accepted: 01/08/2016] [Indexed: 12/26/2022] Open
Abstract
A novel zinc-binding alcohol dehydrogenase 2 (AdZADH2) was significantly upregulated in a wild peanut, Arachis diogoi treated with conidia of late leaf spot (LLS) pathogen, Phaeoisariopsis personata. This upregulation was not observed in a comparative analysis of cultivated peanut, which is highly susceptible to LLS. This zinc-binding alcohol dehydrogenase possessed a Rossmann fold containing NADB domain in addition to the MDR domain present in all previously characterized plant ADH genes/proteins. Transient over-expression of AdZADH2 under an estradiol inducible promoter (XVE) resulted in hypersensitive response (HR)-like cell death in tobacco leaf. However, the same level of cell death was not observed when the domains were transiently expressed individually. Cell death observed in tobacco was associated with overexpression of cell death related proteins, antioxidative enzymes such as SOD, CAT and APX and pathogenesis-related (PR) proteins. In A. diogoi, AdZADH2 expression was significantly upregulated in response to the plant signaling hormones salicylic acid, methyl jasmonate, and sodium nitroprusside.
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Affiliation(s)
- Dilip Kumar
- Department of Plant Sciences School of Life Sciences University of Hyderabad India
| | - Sakshi Rampuria
- Department of Plant Sciences School of Life Sciences University of Hyderabad India
| | - Naveen Kumar Singh
- Department of Plant Sciences School of Life Sciences University of Hyderabad India
| | - Pulugurtha B Kirti
- Department of Plant Sciences School of Life Sciences University of Hyderabad India
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Mohammadi R, Fallah-Mehrabadi J, Bidkhori G, Zahiri J, Javad Niroomand M, Masoudi-Nejad A. A systems biology approach to reconcile metabolic network models with application to Synechocystis sp. PCC 6803 for biofuel production. MOLECULAR BIOSYSTEMS 2016; 12:2552-61. [DOI: 10.1039/c6mb00119j] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/03/2023]
Abstract
Metabolic network models can be optimized for the production of desired materials like biofuels.
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Affiliation(s)
- Reza Mohammadi
- Laboratory of Systems Biology and Bioinformatics (LBB)
- Institute of Biochemistry and Biophysics
- University of Tehran
- Tehran
- Iran
| | | | | | - Javad Zahiri
- Bioinformatics and Computational Omics Lab (BioCOOL)
- Department of Biophysics
- Faculty of Biological Sciences
- Tarbiat Modares University
- Tehran
| | - Mohammad Javad Niroomand
- Learning Intelligent Systems Lab
- School of Electrical and Computer Engineering
- University of Tehran
- Tehran
- Iran
| | - Ali Masoudi-Nejad
- Laboratory of Systems Biology and Bioinformatics (LBB)
- Institute of Biochemistry and Biophysics
- University of Tehran
- Tehran
- Iran
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Knoop H, Steuer R. A computational analysis of stoichiometric constraints and trade-offs in cyanobacterial biofuel production. Front Bioeng Biotechnol 2015; 3:47. [PMID: 25941672 PMCID: PMC4403605 DOI: 10.3389/fbioe.2015.00047] [Citation(s) in RCA: 34] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/14/2015] [Accepted: 03/24/2015] [Indexed: 11/13/2022] Open
Abstract
Cyanobacteria are a promising biological chassis for the synthesis of renewable fuels and chemical bulk commodities. Significant efforts have been devoted to improve the yields of cyanobacterial products. However, while the introduction and heterologous expression of product-forming pathways is often feasible, the interactions and incompatibilities of product synthesis with the host metabolism are still insufficiently understood. In this work, we investigate the stoichiometric properties and trade-offs that underlie cyanobacterial product formation using a computational reconstruction of cyanobacterial metabolism. First, we evaluate the synthesis requirements of a selection of cyanobacterial products of potential biotechnological interest. Second, the large-scale metabolic reconstruction allows us to perform in silico experiments that mimic and predict the metabolic changes that must occur in the transition from a growth-only phenotype to a production-only phenotype. Applied to the synthesis of ethanol, ethylene, and propane, these in silico transition experiments point to bottlenecks and potential modification targets in cyanobacterial metabolism. Our analysis reveals incompatibilities between biotechnological product synthesis and native host metabolism, such as shifts in ATP/NADPH demand and the requirement to reintegrate metabolic by-products. Similar strategies can be employed for a large class of cyanobacterial products to identify potential stoichiometric bottlenecks.
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Affiliation(s)
- Henning Knoop
- Institut für Theoretische Biologie, Humboldt-Universität zu Berlin , Berlin , Germany
| | - Ralf Steuer
- Institut für Theoretische Biologie, Humboldt-Universität zu Berlin , Berlin , Germany
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Biosynthesis of odd-chain fatty alcohols in Escherichia coli. Metab Eng 2015; 29:113-123. [PMID: 25773521 DOI: 10.1016/j.ymben.2015.03.005] [Citation(s) in RCA: 58] [Impact Index Per Article: 6.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/17/2014] [Revised: 02/16/2015] [Accepted: 03/04/2015] [Indexed: 11/21/2022]
Abstract
Engineered microbes offer the opportunity to design and implement artificial molecular pathways for renewable production of tailored chemical commodities. Targeted biosynthesis of odd-chain fatty alcohols is very challenging in microbe, due to the specificity of fatty acids synthase for two-carbon unit elongation. Here, we developed a novel strategy to directly tailor carbon number in fatty aldehydes formation step by incorporating α-dioxygenase (αDOX) from Oryza sativa (rice) into Escherichia coli αDOX oxidizes Cn fatty acids (even-chain) to form Cn-1 fatty aldehydes (odd-chain). Through combining αDOX with fatty acyl-acyl carrier protein (-ACP) thioesterase (TE) and aldehyde reductase (AHR), the medium odd-chain fatty alcohols profile (C11, C13, C15) was firstly established in E. coli. Also, medium even-chain alkanes (C12, C14) were obtained by substitution of AHR to aldehyde decarbonylase (AD). The titer of odd-chain fatty alcohols was improved from 7.4mg/L to 101.5mg/L in tube cultivation by means of fine-tuning endogenous fatty acyl-ACP TE (TesA'), αDOX, AHRs and the genes involved in fatty acids metabolism pathway. Through high cell density fed-batch fermentation, a titer of 1.95g/L odd-chain fatty alcohols was achieved, which was the highest reported titer in E. coli. Our system has greatly expanded the current microbial fatty alcohols profile that provides a new brand solution for producing complex and desired molecules in microbes.
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Vidal R. Identification of the correct form of the mis-annotated response regulator Rre1 from the cyanobacterium Synechocystis sp. PCC 6803. FEMS Microbiol Lett 2015; 362:fnv030. [DOI: 10.1093/femsle/fnv030] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/19/2023] Open
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Luan G, Qi Y, Wang M, Li Z, Duan Y, Tan X, Lu X. Combinatory strategy for characterizing and understanding the ethanol synthesis pathway in cyanobacteria cell factories. BIOTECHNOLOGY FOR BIOFUELS 2015; 8:184. [PMID: 26594240 PMCID: PMC4654843 DOI: 10.1186/s13068-015-0367-z] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/10/2015] [Accepted: 10/28/2015] [Indexed: 05/09/2023]
Abstract
BACKGROUND Photosynthetic production of chemicals and fuels by recycling CO2 in cyanobacteria is a promising solution facing energy shortage and resource declination. Ethanol is an attractive and demonstrative biofuel product, and ethanol synthesis in cyanobacteria has been achieved by assembling of a pathway consisting of pyruvate decarboxylase (PDCzm) and alcohol dehydrogenase II (slr1192). For enabling more powerful ethanol photosynthetic production, an optimized and balanced catalyzing route was required. In this work, we provided a paradigm for systematically characterizing and optimizing the PDCzm-slr1192 pathway from engineered cyanobacteria strains, combining in vitro reconstitution, genetic engineering and feeding-cultivation. RESULTS We reconstituted the PDCzm-slr1192 pathway in vitro and performed specific titration assays for enzymes, substrates, cofactors, and metal ions. In the in vitro system, K 50 of PDCzm was 0.326 μM, with a V max of 2.074 μM/s; while for slr1192, the values were 0.109 μM and 1.722 μM/s, respectively. Titration response discrepancy indicated that PDCzm rather than slr1192 was the rate-limiting factor for ethanol synthesis. In addition, a 4:6 concentration ratio of PDCzm-slr1192 would endow the reaction with a maximal specific catalytic activity. Titration assays for other components were also performed. K m values for NADPH, pyruvate, TPP, Mg(2+) and acetaldehyde were 0.136, 6.496, 0.011, 0.104, and 0.393 mM, respectively. We further constructed Synechocystis mutant strains with diverse PDCzm-slr1192 concentrations and ratios, and compared the growth and ethanol synthesis performances. The results revealed that activities of PDCzm indeed held control over the ethanol generation capacities. We performed pyruvate-feeding treatment with the newly developed Syn-YQ4 strain, and confirmed that improvement of pyruvate supply would direct more carbon flow to ethanol formation. CONCLUSIONS We systematically characterized and optimized the PDCzm-slr1192 pathway in engineered cyanobacteria for ethanol production. Information gained from in vitro monitoring and genetic engineering revealed that for further enhancing ethanol synthesis capacities, PDCzm activities needed enhancement, and the PDCzm-slr1192 ratio should be improved and held to about 1:1.5. Considering actual metabolites concentrations of cyanobacteria cells, enhancing pyruvate supply was also a promising strategy for further updating the current ethanol photosynthetic cell factories.
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Affiliation(s)
- Guodong Luan
- />Key Laboratory of Biofuels, Qingdao Institute of Bioenergy and Bioprocess Technology, Chinese Academy of Sciences, No. 189 Songling Road, Qingdao, 266101 China
- />Shandong Provincial Key Laboratory of Synthetic Biology, Qingdao Institute of Bioenergy and Bioprocess Technology, Chinese Academy of Sciences, No. 189 Songling Road, Qingdao, 266101 China
| | - Yunjing Qi
- />Qingdao University of Science and Technology, Qingdao, 266061 China
| | - Min Wang
- />Key Laboratory of Biofuels, Qingdao Institute of Bioenergy and Bioprocess Technology, Chinese Academy of Sciences, No. 189 Songling Road, Qingdao, 266101 China
- />Shandong Provincial Key Laboratory of Energy Genetics, Qingdao Institute of Bioenergy and Bioprocess Technology, Chinese Academy of Sciences, No. 189 Songling Road, Qingdao, 266101 China
| | - Zhimin Li
- />Key Laboratory of Biofuels, Qingdao Institute of Bioenergy and Bioprocess Technology, Chinese Academy of Sciences, No. 189 Songling Road, Qingdao, 266101 China
- />Shandong Provincial Key Laboratory of Synthetic Biology, Qingdao Institute of Bioenergy and Bioprocess Technology, Chinese Academy of Sciences, No. 189 Songling Road, Qingdao, 266101 China
- />College of Bioscience and Bioengineering, Jiangxi Agricultural University, Nanchang, 330045 Jiangxi China
| | - Yangkai Duan
- />Key Laboratory of Biofuels, Qingdao Institute of Bioenergy and Bioprocess Technology, Chinese Academy of Sciences, No. 189 Songling Road, Qingdao, 266101 China
- />Shandong Provincial Key Laboratory of Energy Genetics, Qingdao Institute of Bioenergy and Bioprocess Technology, Chinese Academy of Sciences, No. 189 Songling Road, Qingdao, 266101 China
- />University of Chinese Academy of Sciences, Beijing, 100049 China
| | - Xiaoming Tan
- />Key Laboratory of Biofuels, Qingdao Institute of Bioenergy and Bioprocess Technology, Chinese Academy of Sciences, No. 189 Songling Road, Qingdao, 266101 China
- />Shandong Provincial Key Laboratory of Synthetic Biology, Qingdao Institute of Bioenergy and Bioprocess Technology, Chinese Academy of Sciences, No. 189 Songling Road, Qingdao, 266101 China
| | - Xuefeng Lu
- />Key Laboratory of Biofuels, Qingdao Institute of Bioenergy and Bioprocess Technology, Chinese Academy of Sciences, No. 189 Songling Road, Qingdao, 266101 China
- />Shandong Provincial Key Laboratory of Synthetic Biology, Qingdao Institute of Bioenergy and Bioprocess Technology, Chinese Academy of Sciences, No. 189 Songling Road, Qingdao, 266101 China
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Yoshino T, Liang Y, Arai D, Maeda Y, Honda T, Muto M, Kakunaka N, Tanaka T. Alkane production by the marine cyanobacterium Synechococcus sp. NKBG15041c possessing the α-olefin biosynthesis pathway. Appl Microbiol Biotechnol 2014; 99:1521-9. [PMID: 25527377 DOI: 10.1007/s00253-014-6286-2] [Citation(s) in RCA: 40] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/03/2014] [Revised: 11/24/2014] [Accepted: 11/29/2014] [Indexed: 01/14/2023]
Abstract
The production of alkanes in a marine cyanobacterium possessing the α-olefin biosynthesis pathway was achieved by introducing an exogenous alkane biosynthesis pathway. Cyanobacterial hydrocarbons are synthesized via two separate pathways: the acyl-acyl carrier protein (ACP) reductase/aldehyde-deformylating oxygenase (AAR/ADO) pathway for the alkane biosynthesis and the α-olefin synthase (OLS) pathway for the α-olefin biosynthesis. Coexistence of these pathways has not yet been reported. In this study, the marine cyanobacterium Synechococcus sp. NKBG15041c was shown to produce α-olefins similar to those of Synechococcus sp. PCC7002 via the α-olefin biosynthesis pathway. The production of heptadecane in Synechococcus sp. NKBG15041c was achieved by expressing the AAR/ADO pathway genes from Synechococcus elongatus PCC 7942. The production yields of heptadecane in Synechococcus sp. NKBG15041c varied with the expression level of the aar and ado genes. The maximal yield of heptadecane was 4.2 ± 1.2 μg/g of dried cell weight in the transformant carrying a homologous promoter. Our results also suggested that the effective activation of ADO may be more important for the enhancement of alkane production by cyanobacteria.
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Affiliation(s)
- Tomoko Yoshino
- Division of Biotechnology and Life Science, Institute of Engineering, Tokyo University of Agriculture and Technology, Koganei, Tokyo, Japan
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Erdrich P, Knoop H, Steuer R, Klamt S. Cyanobacterial biofuels: new insights and strain design strategies revealed by computational modeling. Microb Cell Fact 2014; 13:128. [PMID: 25323065 PMCID: PMC4180434 DOI: 10.1186/s12934-014-0128-x] [Citation(s) in RCA: 61] [Impact Index Per Article: 6.1] [Reference Citation Analysis] [Abstract] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/09/2014] [Accepted: 08/10/2014] [Indexed: 01/15/2023] Open
Abstract
Background Cyanobacteria are increasingly recognized as promising cell factories for the production of renewable biofuels and chemical feedstocks from sunlight, CO2, and water. However, most biotechnological applications of these organisms are still characterized by low yields. Increasing the production performance of cyanobacteria remains therefore a crucial step. Results In this work we use a stoichiometric network model of Synechocystis sp. PCC 6803 in combination with CASOP and minimal cut set analysis to systematically identify and characterize suitable strain design strategies for biofuel synthesis, specifically for ethanol and isobutanol. As a key result, improving upon other works, we demonstrate that higher-order knockout strategies exist in the model that lead to coupling of growth with high-yield biofuel synthesis under phototrophic conditions. Enumerating all potential knockout strategies (cut sets) reveals a unifying principle behind the identified strain designs, namely to reduce the ratio of ATP to NADPH produced by the photosynthetic electron transport chain. Accordingly, suitable knockout strategies seek to block cyclic and other alternate electron flows, such that ATP and NADPH are exclusively synthesized via the linear electron flow whose ATP/NADPH ratio is below that required for biomass synthesis. The products of interest are then utilized by the cell as sinks for reduction equivalents in excess. Importantly, the calculated intervention strategies do not rely on the assumption of optimal growth and they ensure that maintenance metabolism in the absence of light remains feasible. Our analyses furthermore suggest that a moderately increased ATP turnover, realized, for example, by ATP futile cycles or other ATP wasting mechanisms, represents a promising target to achieve increased biofuel yields. Conclusion Our study reveals key principles of rational metabolic engineering strategies in cyanobacteria towards biofuel production. The results clearly show that achieving obligatory coupling of growth and product synthesis in photosynthetic bacteria requires fundamentally different intervention strategies compared to heterotrophic organisms. Electronic supplementary material The online version of this article (doi:10.1186/s12934-014-0128-x) contains supplementary material, which is available to authorized users.
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Pásztor A, Kallio P, Malatinszky D, Akhtar MK, Jones PR. A synthetic O2-tolerant butanol pathway exploiting native fatty acid biosynthesis inEscherichia coli. Biotechnol Bioeng 2014; 112:120-8. [DOI: 10.1002/bit.25324] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/31/2014] [Revised: 06/23/2014] [Accepted: 06/25/2014] [Indexed: 11/07/2022]
Affiliation(s)
- András Pásztor
- Department of Biochemistry; University of Turku; Tykistökatu 6B 4krs 20520 Turku Finland
| | - Pauli Kallio
- Department of Biochemistry; University of Turku; Tykistökatu 6B 4krs 20520 Turku Finland
| | - Dávid Malatinszky
- Department of Life Sciences; Imperial College London; Sir Alexander Fleming Building London SW7 2AZ UK
| | - M. Kalim Akhtar
- Department of Biochemistry; University of Turku; Tykistökatu 6B 4krs 20520 Turku Finland
| | - Patrik R. Jones
- Department of Biochemistry; University of Turku; Tykistökatu 6B 4krs 20520 Turku Finland
- Department of Life Sciences; Imperial College London; Sir Alexander Fleming Building London SW7 2AZ UK
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Overexpression of sigma factor SigB improves temperature and butanol tolerance of Synechocystis sp. PCC6803. J Biotechnol 2014; 182-183:54-60. [DOI: 10.1016/j.jbiotec.2014.04.017] [Citation(s) in RCA: 51] [Impact Index Per Article: 5.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/10/2014] [Revised: 04/17/2014] [Accepted: 04/25/2014] [Indexed: 11/21/2022]
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Scavenging Systems for Reactive Carbonyls in the CyanobacteriumSynechocystissp. PCC 6803. Biosci Biotechnol Biochem 2014; 77:2441-8. [DOI: 10.1271/bbb.130554] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
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37
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Why don't plants have diabetes? Systems for scavenging reactive carbonyls in photosynthetic organisms. Biochem Soc Trans 2014; 42:543-7. [DOI: 10.1042/bst20130273] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/16/2022]
Abstract
In the present paper, we review the toxicity of sugar- and lipid-derived RCs (reactive carbonyls) and the RC-scavenging systems observed in photosynthetic organisms. Similar to heterotrophs, photosynthetic organisms are exposed to the danger of RCs produced in sugar metabolism during both respiration and photosynthesis. RCs such as methylglyoxal and acrolein have toxic effects on the photosynthetic activity of higher plants and cyanobacteria. These toxic effects are assumed to occur uniquely in photosynthetic organisms, suggesting that RC-scavenging systems are essential for their survival. The aldo–keto reductase and the glyoxalase systems mainly scavenge sugar-derived RCs in higher plants and cyanobacteria. 2-Alkenal reductase and alkenal/alkenone reductase catalyse the reduction of lipid-derived RCs in higher plants. In cyanobacteria, medium-chain dehydrogenases/reductases are the main scavengers of lipid-derived RCs.
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Dienst D, Georg J, Abts T, Jakorew L, Kuchmina E, Börner T, Wilde A, Dühring U, Enke H, Hess WR. Transcriptomic response to prolonged ethanol production in the cyanobacterium Synechocystis sp. PCC6803. BIOTECHNOLOGY FOR BIOFUELS 2014; 7:21. [PMID: 24502290 PMCID: PMC3925133 DOI: 10.1186/1754-6834-7-21] [Citation(s) in RCA: 25] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/03/2013] [Accepted: 01/17/2014] [Indexed: 05/03/2023]
Abstract
BACKGROUND The production of biofuels in photosynthetic microalgae and cyanobacteria is a promising alternative to the generation of fuels from fossil resources. To be economically competitive, producer strains need to be established that synthesize the targeted product at high yield and over a long time. Engineering cyanobacteria into forced fuel producers should considerably interfere with overall cell homeostasis, which in turn might counteract productivity and sustainability of the process. Therefore, in-depth characterization of the cellular response upon long-term production is of high interest for the targeted improvement of a desired strain. RESULTS The transcriptome-wide response to continuous ethanol production was examined in Synechocystis sp. PCC6803 using high resolution microarrays. In two independent experiments, ethanol production rates of 0.0338% (v/v) ethanol d-1 and 0.0303% (v/v) ethanol d-1 were obtained over 18 consecutive days, measuring two sets of biological triplicates in fully automated photobioreactors. Ethanol production caused a significant (~40%) delay in biomass accumulation, the development of a bleaching phenotype and a down-regulation of light harvesting capacity. However, microarray analyses performed at day 4, 7, 11 and 18 of the experiment revealed only three mRNAs with a strongly modified accumulation level throughout the course of the experiment. In addition to the overexpressed adhA (slr1192) gene, this was an approximately 4 fold reduction in cpcB (sll1577) and 3 to 6 fold increase in rps8 (sll1809) mRNA levels. Much weaker modifications of expression level or modifications restricted to day 18 of the experiment were observed for genes involved in carbon assimilation (Ribulose bisphosphate carboxylase and Glutamate decarboxylase). Molecular analysis of the reduced cpcB levels revealed a post-transcriptional processing of the cpcBA operon mRNA leaving a truncated mRNA cpcA* likely not competent for translation. Moreover, western blots and zinc-enhanced bilin fluorescence blots confirmed a severe reduction in the amounts of both phycocyanin subunits, explaining the cause of the bleaching phenotype. CONCLUSIONS Changes in gene expression upon induction of long-term ethanol production in Synechocystis sp. PCC6803 are highly specific. In particular, we did not observe a comprehensive stress response as might have been expected.
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Affiliation(s)
- Dennis Dienst
- Algenol Biofuels Germany GmbH, Magnusstraße 1, Berlin D-12489, Germany
- Institute of Biology, Humboldt-University Berlin, Chausseestr 117, Berlin D-10115, Germany
| | - Jens Georg
- Faculty of Biology, Inst. Biology III, University of Freiburg, Schänzlestr 1, Freiburg D-79104, Germany
| | - Thomas Abts
- Algenol Biofuels Germany GmbH, Magnusstraße 1, Berlin D-12489, Germany
| | - Lew Jakorew
- Institute of Biology, Humboldt-University Berlin, Chausseestr 117, Berlin D-10115, Germany
- Current address: Department of Plant and Environmental Sciences, University of Copenhagen, Thorvaldsensvej 40, Frederiksberg C DK-1871, Denmark
| | - Ekaterina Kuchmina
- Faculty of Biology, Inst. Biology III, University of Freiburg, Schänzlestr 1, Freiburg D-79104, Germany
| | - Thomas Börner
- Institute of Biology, Humboldt-University Berlin, Chausseestr 117, Berlin D-10115, Germany
| | - Annegret Wilde
- Faculty of Biology, Inst. Biology III, University of Freiburg, Schänzlestr 1, Freiburg D-79104, Germany
| | - Ulf Dühring
- Algenol Biofuels Germany GmbH, Magnusstraße 1, Berlin D-12489, Germany
| | - Heike Enke
- Algenol Biofuels Germany GmbH, Magnusstraße 1, Berlin D-12489, Germany
| | - Wolfgang R Hess
- Faculty of Biology, Inst. Biology III, University of Freiburg, Schänzlestr 1, Freiburg D-79104, Germany
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Mueller TJ, Berla BM, Pakrasi HB, Maranas CD. Rapid construction of metabolic models for a family of Cyanobacteria using a multiple source annotation workflow. BMC SYSTEMS BIOLOGY 2013; 7:142. [PMID: 24369854 PMCID: PMC3880981 DOI: 10.1186/1752-0509-7-142] [Citation(s) in RCA: 27] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 09/25/2013] [Accepted: 12/19/2013] [Indexed: 12/02/2022]
Abstract
Background Cyanobacteria are photoautotrophic prokaryotes that exhibit robust growth under diverse environmental conditions with minimal nutritional requirements. They can use solar energy to convert CO2 and other reduced carbon sources into biofuels and chemical products. The genus Cyanothece includes unicellular nitrogen-fixing cyanobacteria that have been shown to offer high levels of hydrogen production and nitrogen fixation. The reconstruction of quality genome-scale metabolic models for organisms with limited annotation resources remains a challenging task. Results Here we reconstruct and subsequently analyze and compare the metabolism of five Cyanothece strains, namely Cyanothece sp. PCC 7424, 7425, 7822, 8801 and 8802, as the genome-scale metabolic reconstructions iCyc792, iCyn731, iCyj826, iCyp752, and iCyh755 respectively. We compare these phylogenetically related Cyanothece strains to assess their bio-production potential. A systematic workflow is introduced for integrating and prioritizing annotation information from the Universal Protein Resource (Uniprot), NCBI Protein Clusters, and the Rapid Annotations using Subsystems Technology (RAST) method. The genome-scale metabolic models include fully traced photosynthesis reactions and respiratory chains, as well as balanced reactions and GPR associations. Metabolic differences between the organisms are highlighted such as the non-fermentative pathway for alcohol production found in only Cyanothece 7424, 8801, and 8802. Conclusions Our development workflow provides a path for constructing models using information from curated models of related organisms and reviewed gene annotations. This effort lays the foundation for the expedient construction of curated metabolic models for organisms that, while not being the target of comprehensive research, have a sequenced genome and are related to an organism with a curated metabolic model. Organism-specific models, such as the five presented in this paper, can be used to identify optimal genetic manipulations for targeted metabolite overproduction as well as to investigate the biology of diverse organisms.
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Affiliation(s)
| | | | | | - Costas D Maranas
- Department of Chemical Engineering, The Pennsylvania State University, University Park, Pennsylvania, USA.
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Straathof AJJ. Transformation of Biomass into Commodity Chemicals Using Enzymes or Cells. Chem Rev 2013; 114:1871-908. [DOI: 10.1021/cr400309c] [Citation(s) in RCA: 315] [Impact Index Per Article: 28.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
Affiliation(s)
- Adrie J. J. Straathof
- Department of Biotechnology, Delft University of Technology, Julianalaan
67, 2628
BC Delft, The Netherlands
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41
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Kaiser BK, Carleton M, Hickman JW, Miller C, Lawson D, Budde M, Warrener P, Paredes A, Mullapudi S, Navarro P, Cross F, Roberts JM. Fatty aldehydes in cyanobacteria are a metabolically flexible precursor for a diversity of biofuel products. PLoS One 2013; 8:e58307. [PMID: 23505484 PMCID: PMC3594298 DOI: 10.1371/journal.pone.0058307] [Citation(s) in RCA: 55] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/14/2012] [Accepted: 02/01/2013] [Indexed: 11/19/2022] Open
Abstract
We describe how pathway engineering can be used to convert a single intermediate derived from lipid biosynthesis, fatty aldehydes, into a variety of biofuel precursors including alkanes, free fatty acids and wax esters. In cyanobacteria, long-chain acyl-ACPs can be reduced to fatty aldehydes, and then decarbonylated to alkanes. We discovered a cyanobacteria class-3 aldehyde-dehydrogenase, AldE, that was necessary and sufficient to instead oxidize fatty aldehyde precursors into fatty acids. Overexpression of enzymes in this pathway resulted in production of 50 to 100 fold more fatty acids than alkanes, and the fatty acids were secreted from the cell. Co-expression of acyl-ACP reductase, an alcohol-dehydrogenase and a wax-ester-synthase resulted in a third fate for fatty aldehydes: conversion to wax esters, which accumulated as intracellular lipid bodies. Conversion of acyl-ACP to fatty acids using endogenous cyanobacterial enzymes may allow biofuel production without transgenesis.
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Affiliation(s)
- Brett K. Kaiser
- Matrix Genetics, Seattle, Washington, United States of America
| | | | | | - Cameron Miller
- Matrix Genetics, Seattle, Washington, United States of America
| | - David Lawson
- Matrix Genetics, Seattle, Washington, United States of America
| | - Mark Budde
- Matrix Genetics, Seattle, Washington, United States of America
| | - Paul Warrener
- Matrix Genetics, Seattle, Washington, United States of America
| | - Angel Paredes
- Department of Pathology and Laboratory Medicine, University of Texas Health Science Center, Houston, Texas, United States of America
| | - Srinivas Mullapudi
- Department of Pathology and Laboratory Medicine, University of Texas Health Science Center, Houston, Texas, United States of America
| | - Patricia Navarro
- Department of Pathology and Laboratory Medicine, University of Texas Health Science Center, Houston, Texas, United States of America
| | - Fred Cross
- The Rockefeller University, New York, New York, United States of America
| | - James M. Roberts
- Department of Biochemistry, University of Washington, Seattle, Washington, United States of America
- Division of Basic Sciences, Fred Hutchinson Cancer Research Center, Seattle, Washington, United States of America
- * E-mail:
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42
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Akhtar MK, Turner NJ, Jones PR. Carboxylic acid reductase is a versatile enzyme for the conversion of fatty acids into fuels and chemical commodities. Proc Natl Acad Sci U S A 2013; 110:87-92. [PMID: 23248280 PMCID: PMC3538209 DOI: 10.1073/pnas.1216516110] [Citation(s) in RCA: 245] [Impact Index Per Article: 22.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
Aliphatic hydrocarbons such as fatty alcohols and petroleum-derived alkanes have numerous applications in the chemical industry. In recent years, the renewable synthesis of aliphatic hydrocarbons has been made possible by engineering microbes to overaccumulate fatty acids. However, to generate end products with the desired physicochemical properties (e.g., fatty aldehydes, alkanes, and alcohols), further conversion of the fatty acid is necessary. A carboxylic acid reductase (CAR) from Mycobacterium marinum was found to convert a wide range of aliphatic fatty acids (C(6)-C(18)) into corresponding aldehydes. Together with the broad-substrate specificity of an aldehyde reductase or an aldehyde decarbonylase, the catalytic conversion of fatty acids to fatty alcohols (C(8)-C(16)) or fatty alkanes (C(7)-C(15)) was reconstituted in vitro. This concept was applied in vivo, in combination with a chain-length-specific thioesterase, to engineer Escherichia coli BL21(DE3) strains that were capable of synthesizing fatty alcohols and alkanes. A fatty alcohol titer exceeding 350 mg·L(-1) was obtained in minimal media supplemented with glucose. Moreover, by combining the CAR-dependent pathway with an exogenous fatty acid-generating lipase, natural oils (coconut oil, palm oil, and algal oil bodies) were enzymatically converted into fatty alcohols across a broad chain-length range (C(8)-C(18)). Together with complementing enzymes, the broad substrate specificity and kinetic characteristics of CAR opens the road for direct and tailored enzyme-catalyzed conversion of lipids into user-ready chemical commodities.
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Affiliation(s)
- M. Kalim Akhtar
- Department of Biochemistry and Food Chemistry, University of Turku, Tykistökatu 6A 6krs, 20520 Turku, Finland; and
- School of Chemistry, Manchester Institute of Biotechnology, University of Manchester, Manchester M1 7DN, United Kingdom
| | - Nicholas J. Turner
- School of Chemistry, Manchester Institute of Biotechnology, University of Manchester, Manchester M1 7DN, United Kingdom
| | - Patrik R. Jones
- Department of Biochemistry and Food Chemistry, University of Turku, Tykistökatu 6A 6krs, 20520 Turku, Finland; and
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43
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Qiao J, Wang J, Chen L, Tian X, Huang S, Ren X, Zhang W. Quantitative iTRAQ LC-MS/MS proteomics reveals metabolic responses to biofuel ethanol in cyanobacterial Synechocystis sp. PCC 6803. J Proteome Res 2012; 11:5286-300. [PMID: 23062023 DOI: 10.1021/pr300504w] [Citation(s) in RCA: 103] [Impact Index Per Article: 8.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
Abstract
Recent progress in metabolic engineering has led to autotrophic production of ethanol in various cyanobacterial hosts. However, cyanobacteria are known to be sensitive to ethanol, which restricts further efforts to increase ethanol production levels in these renewable host systems. To understand the mechanisms of ethanol tolerance so that engineering more robust cyanobacterial hosts can be possible, in this study, the responses of model cyanobacterial Synechocystis sp. PCC 6803 to ethanol were determined using a quantitative proteomics approach with iTRAQ LC-MS/MS technologies. The resulting high-quality proteomic data set consisted of 24,887 unique peptides corresponding to 1509 identified proteins, a coverage of approximately 42% of the predicted proteins in the Synechocystis genome. Using a cutoff of 1.5-fold change and a p-value less than 0.05, 135 and 293 unique proteins with differential abundance levels were identified between control and ethanol-treated samples at 24 and 48 h, respectively. Functional analysis showed that the Synechocystis cells employed a combination of induced common stress response, modifications of cell membrane and envelope, and induction of multiple transporters and cell mobility-related proteins as protection mechanisms against ethanol toxicity. Interestingly, our proteomic analysis revealed that proteins related to multiple aspects of photosynthesis were up-regulated in the ethanol-treated Synechocystis cells, consistent with increased chlorophyll a concentration in the cells upon ethanol exposure. The study provided the first comprehensive view of the complicated molecular mechanisms against ethanol stress and also provided a list of potential gene targets for further engineering ethanol tolerance in Synechocystis PCC 6803.
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Affiliation(s)
- Jianjun Qiao
- School of Chemical Engineering & Technology, Tianjin University, Tianjin 300072, P.R. China
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Tian X, Chen L, Wang J, Qiao J, Zhang W. Quantitative proteomics reveals dynamic responses of Synechocystis sp. PCC 6803 to next-generation biofuel butanol. J Proteomics 2012; 78:326-45. [PMID: 23079071 DOI: 10.1016/j.jprot.2012.10.002] [Citation(s) in RCA: 75] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/22/2012] [Revised: 10/01/2012] [Accepted: 10/04/2012] [Indexed: 01/04/2023]
Abstract
Butanol is a promising biofuel, and recent metabolic engineering efforts have demonstrated the use of photosynthetic cyanobacterial hosts for its production. However, cyanobacteria have very low tolerance to butanol, limiting the economic viability of butanol production from these renewable producing systems. The existing knowledge of molecular mechanism involved in butanol tolerance in cyanobacteria is very limited. To build a foundation necessary to engineer robust butanol-producing cyanobacterial hosts, in this study, the responses of Synechocystis PCC 6803 to butanol were investigated using a quantitative proteomics approach with iTRAQ - LC-MS/MS technologies. The resulting high-quality dataset consisted of 25,347 peptides corresponding to 1452 unique proteins, a coverage of approximately 40% of the predicted proteins in Synechocystis. Comparative quantification of protein abundances led to the identification of 303 differentially regulated proteins by butanol. Annotation and GO term enrichment analysis showed that multiple biological processes were regulated, suggesting that Synechocystis probably employed multiple and synergistic resistance mechanisms in dealing with butanol stress. Notably, the analysis revealed the induction of heat-shock protein and transporters, along with modification of cell membrane and envelope were the major protection mechanisms against butanol. A conceptual cellular model of Synechocystis PCC 6803 responses to butanol stress was constructed to illustrate the putative molecular mechanisms employed to defend against butanol stress.
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Affiliation(s)
- Xiaoxu Tian
- School of Chemical Engineering & Technology, Tianjin University, Tianjin 300072, PR China
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Liu J, Chen L, Wang J, Qiao J, Zhang W. Proteomic analysis reveals resistance mechanism against biofuel hexane in Synechocystis sp. PCC 6803. BIOTECHNOLOGY FOR BIOFUELS 2012; 5:68. [PMID: 22958739 PMCID: PMC3479031 DOI: 10.1186/1754-6834-5-68] [Citation(s) in RCA: 52] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/28/2012] [Accepted: 08/30/2012] [Indexed: 05/19/2023]
Abstract
BACKGROUND Recent studies have demonstrated that photosynthetic cyanobacteria could be an excellent cell factory to produce renewable biofuels and chemicals due to their capability to utilize solar energy and CO2 as the sole energy and carbon sources. Biosynthesis of carbon-neutral biofuel alkanes with good chemical and physical properties has been proposed. However, to make the process economically feasible, one major hurdle to improve the low cell tolerance to alkanes needed to be overcome. RESULTS Towards the goal to develop robust and high-alkane-tolerant hosts, in this study, the responses of model cyanobacterial Synechocystis PCC 6803 to hexane, a representative of alkane, were investigated using a quantitative proteomics approach with iTRAQ - LC-MS/MS technologies. In total, 1,492 unique proteins were identified, representing about 42% of all predicted protein in the Synechocystis genome. Among all proteins identified, a total of 164 and 77 proteins were found up- and down-regulated, respectively. Functional annotation and KEGG pathway enrichment analyses showed that common stress responses were induced by hexane in Synechocystis. Notably, a large number of transporters and membrane-bound proteins, proteins against oxidative stress and proteins related to sulfur relay system and photosynthesis were induced, suggesting that they are possibly the major protection mechanisms against hexane toxicity. CONCLUSION The study provided the first comprehensive view of the complicated molecular mechanism employed by cyanobacterial model species, Synechocystis to defend against hexane stress. The study also provided a list of potential targets to engineer Synechocystis against hexane stress.
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Affiliation(s)
- Jie Liu
- School of Chemical Engineering & Technology, Tianjin University, Tianjin 300072, P.R. China
- Key Laboratory of Systems Bioengineering, Ministry of Education of China, Tianjin 300072, P.R. China
| | - Lei Chen
- School of Chemical Engineering & Technology, Tianjin University, Tianjin 300072, P.R. China
- Key Laboratory of Systems Bioengineering, Ministry of Education of China, Tianjin 300072, P.R. China
| | - Jiangxin Wang
- School of Chemical Engineering & Technology, Tianjin University, Tianjin 300072, P.R. China
- Key Laboratory of Systems Bioengineering, Ministry of Education of China, Tianjin 300072, P.R. China
| | - Jianjun Qiao
- School of Chemical Engineering & Technology, Tianjin University, Tianjin 300072, P.R. China
- Key Laboratory of Systems Bioengineering, Ministry of Education of China, Tianjin 300072, P.R. China
| | - Weiwen Zhang
- School of Chemical Engineering & Technology, Tianjin University, Tianjin 300072, P.R. China
- Key Laboratory of Systems Bioengineering, Ministry of Education of China, Tianjin 300072, P.R. China
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Physiological tolerance and stoichiometric potential of cyanobacteria for hydrocarbon fuel production. J Biotechnol 2012; 162:67-74. [PMID: 22954891 DOI: 10.1016/j.jbiotec.2012.07.193] [Citation(s) in RCA: 46] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/22/2012] [Revised: 06/30/2012] [Accepted: 07/03/2012] [Indexed: 12/22/2022]
Abstract
Cyanobacteria are capable of directly converting sunlight, carbon dioxide and water into hydrocarbon fuel or precursors thereof. Many biological and non-biological factors will influence the ability of such a production system to become economically sustainable. We evaluated two factors in engineerable cyanobacteria which could potentially limit economic sustainability: (i) tolerance of the host to the intended end-product, and (ii) stoichiometric potential for production. Alcohols, when externally added, inhibited growth the most, followed by aldehydes and acids, whilst alkanes were the least inhibitory. The growth inhibition became progressively greater with increasing chain-length for alcohols, whilst the intermediate C6 alkane caused more inhibition than both C3 and C11 alkane. Synechocystis sp. PCC 6803 was more tolerant to some of the tested chemicals than Synechococcus elongatus PCC 7942, particularly ethanol and undecane. Stoichiometric evaluation of the potential yields suggested that there is no difference in the potential productivity of harvestable energy between any of the studied fuels, with the exception of ethylene, for which maximal stoichiometric yield is considerably lower. In summary, it was concluded that alkanes would constitute the best choice metabolic end-product for fuel production using cyanobacteria if high-yielding strains can be developed.
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