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Sun XH, Chen XL, Wang XF, Zhang XR, Sun XM, Sun ML, Zhang XY, Zhang YZ, Zhang YQ, Xu F. Cost-effective production of alginate oligosaccharides from Laminaria japonica roots by Pseudoalteromonas agarivorans A3. Microb Cell Fact 2023; 22:179. [PMID: 37689719 PMCID: PMC10492272 DOI: 10.1186/s12934-023-02170-7] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/15/2023] [Accepted: 08/07/2023] [Indexed: 09/11/2023] Open
Abstract
BACKGROUND Alginate oligosaccharides (AOs) are the degradation products of alginate, a natural polysaccharide abundant in brown algae. AOs generated by enzymatic hydrolysis have diverse bioactivities and show broad application potentials. AOs production via enzymolysis is now generally with sodium alginate as the raw material, which is chemically extracted from brown algae. In contrast, AOs production by direct degradation of brown algae is more advantageous on account of its cost reduction and is more eco-friendly. However, there have been only a few attempts reported in AOs production from direct degradation of brown algae. RESULTS In this study, an efficient Laminaria japonica-decomposing strain Pseudoalteromonas agarivorans A3 was screened. Based on the secretome and mass spectrum analyses, strain A3 showed the potential as a cell factory for AOs production by secreting alginate lyases to directly degrade L. japonica. By using the L. japonica roots, which are normally discarded in the food industry, as the raw material for both fermentation and enzymatic hydrolysis, AOs were produced by the fermentation broth supernatant of strain A3 after optimization of the alginate lyase production and hydrolysis parameters. The generated AOs mainly ranged from dimers to tetramers, among which trimers and tetramers were predominant. The degradation efficiency of the roots reached 54.58%, the AOs production was 33.11%, and the AOs purity was 85.03%. CONCLUSION An efficient, cost-effective and green process for AOs production directly from the underutilized L. japonica roots by using strain A3 was set up, which differed from the reported processes in terms of the substrate and strain used for fermentation and the AOs composition. This study provides a promising platform for scalable production of AOs, which may have application potentials in industry and agriculture.
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Affiliation(s)
- Xiao-Hui Sun
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Qingdao, 266237, China
| | - Xiu-Lan Chen
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Qingdao, 266237, China
| | - Xiao-Fei Wang
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Qingdao, 266237, China
| | - Xin-Ru Zhang
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Qingdao, 266237, China
| | - Xiao-Meng Sun
- Frontiers Science Center for Deep Ocean Multispheres and Earth System & College of Marine Life Sciences, Ocean University of China, Qingdao, 266003, China
| | - Mei-Ling Sun
- Frontiers Science Center for Deep Ocean Multispheres and Earth System & College of Marine Life Sciences, Ocean University of China, Qingdao, 266003, China
- Laboratory for Marine Biology and Biotechnology, Pilot National Laboratory for Marine Science and Technology, Qingdao, 266237, China
| | - Xi-Ying Zhang
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Qingdao, 266237, China
- Laboratory for Marine Biology and Biotechnology, Pilot National Laboratory for Marine Science and Technology, Qingdao, 266237, China
| | - Yu-Zhong Zhang
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Qingdao, 266237, China
- Frontiers Science Center for Deep Ocean Multispheres and Earth System & College of Marine Life Sciences, Ocean University of China, Qingdao, 266003, China
- Laboratory for Marine Biology and Biotechnology, Pilot National Laboratory for Marine Science and Technology, Qingdao, 266237, China
| | - Yu-Qiang Zhang
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Qingdao, 266237, China.
| | - Fei Xu
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Qingdao, 266237, China.
- Laboratory for Marine Biology and Biotechnology, Pilot National Laboratory for Marine Science and Technology, Qingdao, 266237, China.
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Monika, Sheetal, Thakur N, Chand Bhalla T. Biotransformation of 3-cyanopyridine to nicotinic acid using whole-cell nitrilase of Gordonia terrae mutant MN12. Bioprocess Biosyst Eng 2023; 46:195-206. [PMID: 36451047 DOI: 10.1007/s00449-022-02823-8] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/07/2022] [Accepted: 11/21/2022] [Indexed: 12/03/2022]
Abstract
In the present study, the Gordonia terrae was subjected to chemical mutagenesis using ethyl methane sulfonate (EMS) and methyl methane sulfonate (MMS), N-methyl-N-nitro-N-nitrosoguanidine (MNNG), 5-bromouracil (5-BU) and hydroxylamine with the aim of improving the catalytic efficiency of its nitrilase for conversion of 3-cyanopyridine to nicotinic acid. A mutant MN12 generated with MNNG exhibited increase in nitrilase activity from 0.5 U/mg dcw (dry cell weight) (in the wild G. terrae) to 1.33 U/mg dcw. Further optimizations of culture conditions using response surface methodology enhanced the enzyme production to 1.2-fold. Whole-cell catalysis was adopted for bench-scale synthesis of nicotinic acid, and 100% conversion of 100 mM 3-cyanopyridine was achieved in potassium phosphate buffer (0.1 M, pH 8.0) at 40 °C in 15 min. The whole-cell nitrilase of the mutant MN12 exhibited higher rate of product formation and volumetric productivity, i.e., 24.56 g/h/g dcw and 221 g/L as compared to 8.95 g/h/g dcw and 196.8 g/L of the wild G. terrae. The recovered product was confirmed by HPLC, FTIR and NMR analysis with high purity (> 99.9%). These results indicated that the mutant MN12 of G. terrae as whole-cell nitrilase is a very promising biocatalyst for the large-scale synthesis of nicotinic acid.
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Affiliation(s)
- Monika
- Department of Biotechnology, Himachal Pradesh University, Shimla, Himachal Pradesh, 171005, India
| | - Sheetal
- Department of Biotechnology, Himachal Pradesh University, Shimla, Himachal Pradesh, 171005, India
| | - Neerja Thakur
- Department of Biotechnology, Himachal Pradesh University, Shimla, Himachal Pradesh, 171005, India
| | - Tek Chand Bhalla
- Department of Biotechnology, Himachal Pradesh University, Shimla, Himachal Pradesh, 171005, India.
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Kasemiire A, Avohou HT, De Bleye C, Sacre PY, Dumont E, Hubert P, Ziemons E. Design of experiments and design space approaches in the pharmaceutical bioprocess optimization. Eur J Pharm Biopharm 2021; 166:144-154. [PMID: 34147574 DOI: 10.1016/j.ejpb.2021.06.004] [Citation(s) in RCA: 14] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/24/2021] [Revised: 06/10/2021] [Accepted: 06/11/2021] [Indexed: 01/04/2023]
Abstract
The optimization of pharmaceutical bioprocesses suffers from several challenges like complexity, upscaling costs, regulatory approval, leading to the risk of delivering substandard drugs to patients. Bioprocess is very complex and requires the evaluation of multiple components that need to be monitored and controlled in order to attain the desired state when the process ends. Statistical design of experiments (DoE) is a powerful tool for optimizing bioprocesses because it plays a critical role in the quality by design strategy as it is useful in exploring the experimental domain and providing statistics of interest that enable scientists to understand the impact of critical process parameters on the critical quality attributes. This review summarizes selected publications in which DoE methodology was used to optimize bioprocess. The main objective of the critical review was to clearly demonstrate potential benefits of using the DoE and design space methodologies in bioprocess optimization.
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Affiliation(s)
- Alice Kasemiire
- University of Liege (ULiege), CIRM, ViBra-Sante Hub, Department of Pharmacy, Pharmaceutical Analytical Chemistry, Avenue Hippocrate 15, 4000 Liege, Belgium.
| | - Hermane T Avohou
- University of Liege (ULiege), CIRM, ViBra-Sante Hub, Department of Pharmacy, Pharmaceutical Analytical Chemistry, Avenue Hippocrate 15, 4000 Liege, Belgium
| | - Charlotte De Bleye
- University of Liege (ULiege), CIRM, ViBra-Sante Hub, Department of Pharmacy, Pharmaceutical Analytical Chemistry, Avenue Hippocrate 15, 4000 Liege, Belgium
| | - Pierre-Yves Sacre
- University of Liege (ULiege), CIRM, ViBra-Sante Hub, Department of Pharmacy, Pharmaceutical Analytical Chemistry, Avenue Hippocrate 15, 4000 Liege, Belgium
| | - Elodie Dumont
- University of Liege (ULiege), CIRM, ViBra-Sante Hub, Department of Pharmacy, Pharmaceutical Analytical Chemistry, Avenue Hippocrate 15, 4000 Liege, Belgium
| | - Philippe Hubert
- University of Liege (ULiege), CIRM, ViBra-Sante Hub, Department of Pharmacy, Pharmaceutical Analytical Chemistry, Avenue Hippocrate 15, 4000 Liege, Belgium
| | - Eric Ziemons
- University of Liege (ULiege), CIRM, ViBra-Sante Hub, Department of Pharmacy, Pharmaceutical Analytical Chemistry, Avenue Hippocrate 15, 4000 Liege, Belgium
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Improvement of the production of an Arctic bacterial exopolysaccharide with protective effect on human skin cells against UV-induced oxidative stress. Appl Microbiol Biotechnol 2020; 104:4863-4875. [PMID: 32285173 DOI: 10.1007/s00253-020-10524-z] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/24/2019] [Revised: 02/12/2020] [Accepted: 03/03/2020] [Indexed: 01/24/2023]
Abstract
Although microbial exopolysaccharides (EPSs) are applied in different fields, no EPS has been used to protect human skin cells against UV-induced oxidative stress. The EPS produced by the Arctic bacterium Polaribacter sp. SM1127 has high moisture-retention ability and antioxidant activity, suggesting its good industrial potentials. In this study, we improved the EPS production of SM1127 and evaluated its protective effect on human dermal fibroblasts (HDFs) against UV-induced oxidative stress. With glucose as carbon source, the EPS yield was increased from 2.11 to 6.12 g/L by optimizing the fermentation conditions using response surface methodology. To lower the fermentation cost and decrease corrosive speed in stainless steel tanks, whole sugar, whose price is only 8% of that of glucose, was used to replace glucose and NaCl concentration was reduced to 4 g/L in the medium. With the optimized conditions, fed-batch fermentation in a 5-L bioreactor was conducted, and the EPS production reached 19.25 g/L, which represents the highest one reported for a polar microorganism. Moreover, SM1127 EPS could maintain the cell viability and integrity of HDFs under UV-B radiation, probably via decreasing intracellular reactive oxygen species level and increasing intracellular glutathione content and superoxide dismutase activity. Therefore, SM1127 EPS has significant protective effect on HDFs against UV-induced oxidative stress, suggesting its potential to be used in preventing photoaging and photocarcinogenesis. Altogether, this study lays a good foundation for the industrialization of SM1127 EPS, which has promising potential to be used in cosmetics and medical fields.
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Zhang W, Wei L, Xu R, Lin G, Xin H, Lv Z, Qian H, Shi H. Evaluation of the Antibacterial Material Production in the Fermentation of Bacillus amyloliquefaciens-9 from Whitespotted Bamboo Shark ( Chiloscyllium plagiosum). Mar Drugs 2020; 18:md18020119. [PMID: 32085415 PMCID: PMC7073760 DOI: 10.3390/md18020119] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/11/2019] [Revised: 02/05/2020] [Accepted: 02/13/2020] [Indexed: 12/30/2022] Open
Abstract
Bacillus amyloliquefaciens-9 (GBacillus-9), which is isolated from the intestinal tract of the white-spotted bamboo shark (Chiloscyllium plagiosum), can secrete potential antibacterial materials, such as β-1,3-1,4-glucanase and some antimicrobial peptides. However, the low fermentation production has hindered the development of GBacillus-9 as biological additives. In this study, the Plackett–Burman design and response surface methodology were used to optimize the fermentation conditions in a shake flask to obtain a higher yield and antibacterial activity of GBacillus-9. On the basis of the data from medium screening, M9 medium was selected as the basic medium for fermentation. The data from the single-factor experiment showed that sucrose had the highest antibacterial activity among the 10 carbon sources. The Plackett–Burman design identified sucrose, NH4Cl, and MgSO4 as the major variables altering antibacterial activity. The optimal concentrations of these compounds to enhance antibacterial activity were assessed using the central composite design. Data showed that sucrose, NH4Cl, and MgSO4 had the highest antibacterial activities at concentrations of 64.8, 1.84, and 0.08 g L−1, respectively. The data also showed that the optimal fermentation conditions for the antibacterial material production of GBacillus-9 were as follows: Inoculum volume of 5%, initial pH of 7.0, temperature of 36 °C, rotating speed of 180 rpm, and fermentation time of 10 h. The optimal fermentation medium and conditions achieved to improve the yield of antibacterial materials for GBacillus-9 can enhance the process of developing biological additives derived from GBacillus-9.
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Affiliation(s)
- Wenjie Zhang
- Zhejiang provincial key Laboratory of Silkworm Bioreactor and Biomedicine, College of Life Sciences and medicine, Zhejiang Sci-Tech University, Hangzhou 310018, China
| | - Ling Wei
- Zhejiang provincial key Laboratory of Silkworm Bioreactor and Biomedicine, College of Life Sciences and medicine, Zhejiang Sci-Tech University, Hangzhou 310018, China
| | - Rong Xu
- Zhejiang provincial key Laboratory of Silkworm Bioreactor and Biomedicine, College of Life Sciences and medicine, Zhejiang Sci-Tech University, Hangzhou 310018, China
| | - Guodong Lin
- Zhejiang provincial key Laboratory of Silkworm Bioreactor and Biomedicine, College of Life Sciences and medicine, Zhejiang Sci-Tech University, Hangzhou 310018, China
| | - Huijie Xin
- Zhejiang provincial key Laboratory of Silkworm Bioreactor and Biomedicine, College of Life Sciences and medicine, Zhejiang Sci-Tech University, Hangzhou 310018, China
| | - Zhengbing Lv
- Zhejiang provincial key Laboratory of Silkworm Bioreactor and Biomedicine, College of Life Sciences and medicine, Zhejiang Sci-Tech University, Hangzhou 310018, China
| | - Hong Qian
- Zhejiang provincial key Laboratory of Silkworm Bioreactor and Biomedicine, College of Life Sciences and medicine, Zhejiang Sci-Tech University, Hangzhou 310018, China
- Correspondence: (H.Q.); (H.S.); Tel.: +86-571-8898-1341 (H.S.)
| | - Hengbo Shi
- Zhejiang provincial key Laboratory of Silkworm Bioreactor and Biomedicine, College of Life Sciences and medicine, Zhejiang Sci-Tech University, Hangzhou 310018, China
- College of Animal Science, Zhejiang University, Hangzhou 310015, China
- Correspondence: (H.Q.); (H.S.); Tel.: +86-571-8898-1341 (H.S.)
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Uhoraningoga A, Kinsella GK, Henehan GT, Ryan BJ. The Goldilocks Approach: A Review of Employing Design of Experiments in Prokaryotic Recombinant Protein Production. Bioengineering (Basel) 2018; 5:E89. [PMID: 30347746 PMCID: PMC6316313 DOI: 10.3390/bioengineering5040089] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/20/2018] [Revised: 10/09/2018] [Accepted: 10/12/2018] [Indexed: 02/06/2023] Open
Abstract
The production of high yields of soluble recombinant protein is one of the main objectives of protein biotechnology. Several factors, such as expression system, vector, host, media composition and induction conditions can influence recombinant protein yield. Identifying the most important factors for optimum protein expression may involve significant investment of time and considerable cost. To address this problem, statistical models such as Design of Experiments (DoE) have been used to optimise recombinant protein production. This review examines the application of DoE in the production of recombinant proteins in prokaryotic expression systems with specific emphasis on media composition and culture conditions. The review examines the most commonly used DoE screening and optimisation designs. It provides examples of DoE applied to optimisation of media and culture conditions.
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Affiliation(s)
| | | | - Gary T Henehan
- Dublin Institute of Technology, Dublin D01 HV58, Ireland.
| | - Barry J Ryan
- Dublin Institute of Technology, Dublin D01 HV58, Ireland.
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7
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Wang M, Zhang J, Wang L, Han L, Zhang X, Feng J. Optimization of Production Conditions for Protoplasts and Polyethylene Glycol-Mediated Transformation of Gaeumannomyces tritici. Molecules 2018; 23:E1253. [PMID: 29794975 PMCID: PMC6100196 DOI: 10.3390/molecules23061253] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/28/2018] [Revised: 05/20/2018] [Accepted: 05/22/2018] [Indexed: 11/29/2022] Open
Abstract
Take-all, caused by Gaeumannomyces tritici, is one of the most important wheat root diseases worldwide, as it results in serious yield losses. In this study, G. tritici was transformed to express the hygromycin B phosphotransferase using a combined protoplast and polyethylene glycol (PEG)-mediated transformation technique. Based on a series of single-factor experimental results, three major factors-temperature, enzyme lysis time, and concentration of the lysing enzyme-were selected as the independent variables, which were optimized using the response surface methodology. A higher protoplast yield of 9.83 × 10⁷ protoplasts/mL was observed, and the protoplast vitality was also high, reaching 96.27% after optimization. Protoplasts were isolated under the optimal conditions, with the highest transformation frequency (46⁻54 transformants/μg DNA). Polymerase chain reaction and Southern blotting detection indicated that the genes of hygromycin phosphotransferase were successfully inserted into the genome of G. tritici. An optimised PEG-mediated protoplast transformation system for G. tritici was established. The techniques and procedures described will lay the foundation for establishing a good mutation library of G. tritici and could be used to transform other fungi.
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Affiliation(s)
- Mei Wang
- Research and Development Center of Biorational Pesticide, Northwest A&F University, Yangling 712100, China.
| | - Jie Zhang
- Research and Development Center of Biorational Pesticide, Northwest A&F University, Yangling 712100, China.
| | - Lanying Wang
- Research and Development Center of Biorational Pesticide, Northwest A&F University, Yangling 712100, China.
- Institute of Tropical Agriculture and Forestry, Hainan University, Haikou 570228, China.
| | - Lirong Han
- Research and Development Center of Biorational Pesticide, Northwest A&F University, Yangling 712100, China.
| | - Xing Zhang
- Research and Development Center of Biorational Pesticide, Northwest A&F University, Yangling 712100, China.
- Engineering and Research Center of Biological Pesticide of Shaanxi Province, Yangling 712100, China.
| | - Juntao Feng
- Research and Development Center of Biorational Pesticide, Northwest A&F University, Yangling 712100, China.
- Engineering and Research Center of Biological Pesticide of Shaanxi Province, Yangling 712100, China.
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8
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Zhou Y, Sun YB, He HW, Feng JT, Zhang X, Han LR. Optimization of medium compositions to improve a novel glycoprotein production by Streptomyces kanasenisi ZX01. AMB Express 2017; 7:6. [PMID: 28050846 PMCID: PMC5209317 DOI: 10.1186/s13568-016-0316-7] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/24/2016] [Accepted: 12/20/2016] [Indexed: 11/27/2022] Open
Abstract
Streptomyces kanasenisi ZX01 was found to produce a novel glycoprotein GP-1 previously, which was secreted into medium and had significant activity against tobacco mosaic virus. However, the low production of GP-1 by strain ZX01 limited its further studies. In order to improve the yield of GP-1, a series of statistical experimental design methods were applied to optimize medium of strain ZX01 in this work. Millet medium was chosen to be the optimal original medium for optimization. Soluble starch and yeast extract were identified as the optimal carbon and nitrogen source using one-factor-at-a-time method. Response surface methodology was used to optimize medium compositions (soluble starch, yeast extract and inorganic salts). A higher yield of GP-1 was 601.33 µg/L after optimization. The optimal compositions of medium were: soluble starch 13.61 g/L, yeast extract 4.19 g/L, NaCl 3.54 g/L, CaCO3 0.28 g/L, millet, 10 g/L. The yield of GP-1 in a 5 L fermentor using optimized medium was 2.54 mg/L, which is much higher than the result of shake flask. This work will be helpful for the improvement of GP-1 production on a large scale and lay a foundation for developing it to be a novel anti-plant virus agent.
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Affiliation(s)
- Yong Zhou
- Research and Development Center of Biorational Pesticides, Northwest A & F University, Yangling, 712100 Shaanxi China
| | - Yu-Bo Sun
- Research and Development Center of Biorational Pesticides, Northwest A & F University, Yangling, 712100 Shaanxi China
| | - Hong-Wei He
- Research and Development Center of Biorational Pesticides, Northwest A & F University, Yangling, 712100 Shaanxi China
| | - Jun-Tao Feng
- Research and Development Center of Biorational Pesticides, Northwest A & F University, Yangling, 712100 Shaanxi China
- Shannxi Research Center of Biopesticides Engineering and Technology, Northwest A & F University, Yangling, 712100 Shannxi China
| | - Xing Zhang
- Research and Development Center of Biorational Pesticides, Northwest A & F University, Yangling, 712100 Shaanxi China
- Shannxi Research Center of Biopesticides Engineering and Technology, Northwest A & F University, Yangling, 712100 Shannxi China
| | - Li-Rong Han
- Research and Development Center of Biorational Pesticides, Northwest A & F University, Yangling, 712100 Shaanxi China
- Shannxi Research Center of Biopesticides Engineering and Technology, Northwest A & F University, Yangling, 712100 Shannxi China
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You SP, Wang XN, Qi W, Su RX, He ZM. Optimisation of culture conditions and development of a novel fed-batch strategy for high production of β-galactosidase by Kluyveromyces lactis. Int J Food Sci Technol 2017. [DOI: 10.1111/ijfs.13464] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Sheng-ping You
- Chemical Engineering Research Center; School of Chemical Engineering and Technology; Tianjin University; Tianjin 300072 China
| | - Xiao-nan Wang
- Chemical Engineering Research Center; School of Chemical Engineering and Technology; Tianjin University; Tianjin 300072 China
| | - Wei Qi
- Chemical Engineering Research Center; School of Chemical Engineering and Technology; Tianjin University; Tianjin 300072 China
- State Key Laboratory of Chemical Engineering; Tianjin University; Tianjin 300072 China
- Collaborative Innovation Center of Chemical Science and Engineering (Tianjin); Tianjin 300072 China
- Tianjin Key Laboratory of Membrane Science and Desalination Technology; Tianjin University; Tianjin 300072 China
| | - Rong-xin Su
- Chemical Engineering Research Center; School of Chemical Engineering and Technology; Tianjin University; Tianjin 300072 China
- State Key Laboratory of Chemical Engineering; Tianjin University; Tianjin 300072 China
- Collaborative Innovation Center of Chemical Science and Engineering (Tianjin); Tianjin 300072 China
- Tianjin Key Laboratory of Membrane Science and Desalination Technology; Tianjin University; Tianjin 300072 China
| | - Zhi-min He
- Chemical Engineering Research Center; School of Chemical Engineering and Technology; Tianjin University; Tianjin 300072 China
- State Key Laboratory of Chemical Engineering; Tianjin University; Tianjin 300072 China
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Antibacterial, Anticoagulant and Anti-inflammatory Activities of Marine Bacillus cereus S1. JOURNAL OF PURE AND APPLIED MICROBIOLOGY 2016. [DOI: 10.22207/jpam.10.4.15] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022] Open
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Chuprom J, Bovornreungroj P, Ahmad M, Kantachote D, Enomoto T. Statistical optimization for the improved production of an extracellular alkaline nuclease by halotolerant Allobacillus halotolerans MSP69: Scale-up approach and its potential as flavor enhancer of fish sauce. BIOCATALYSIS AND AGRICULTURAL BIOTECHNOLOGY 2016. [DOI: 10.1016/j.bcab.2016.09.011] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]
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Hameş EE, Demir T. Microbial ribonucleases (RNases): production and application potential. World J Microbiol Biotechnol 2015; 31:1853-62. [PMID: 26433394 DOI: 10.1007/s11274-015-1945-8] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/30/2015] [Accepted: 09/07/2015] [Indexed: 01/15/2023]
Abstract
Ribonuclease (RNase) is hydrolytic enzyme that catalyzes the cleavage of phosphodiester bonds in RNA. RNases play an important role in the metabolism of cellular RNAs, such as mRNA and rRNA or tRNA maturation. Besides their cellular roles, RNases possess biological activity, cell stimulating properties, cytotoxicity and genotoxicity. Cytotoxic effect of particular microbial RNases was comparable to that of animal derived counterparts. In this respect, microbial RNases have a therapeutic potential as anti-tumor drugs. The significant development of DNA vaccines and the progress of gene therapy trials increased the need for RNases in downstream processes. In addition, RNases are used in different fields, such as food industry for single cell protein preparations, and in some molecular biological studies for the synthesis of specific nucleotides, identifying RNA metabolism and the relationship between protein structure and function. In some cases, the use of bovine or other animal-derived RNases have increased the difficulties due to the safety and regulatory issues. Microbial RNases have promising potential mainly for pharmaceutical purposes as well as downstream processing. Therefore, an effort has been given to determination of optimum fermentation conditions to maximize RNase production from different bacterial and fungal producers. Also immobilization or strain development experiments have been carried out.
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Affiliation(s)
- E Esin Hameş
- Department of Bioengineering, Faculty of Engineering, Ege University, 35100, Bornova, Izmir, Turkey.
| | - Tuğçe Demir
- Department of Chemical Engineering, Kocaeli University, Umut Tepe Yerleşkesi, 41380, Kocaeli, Turkey
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User-friendly optimization approach of fed-batch fermentation conditions for the production of iturin A using artificial neural networks and support vector machine. ELECTRON J BIOTECHN 2015. [DOI: 10.1016/j.ejbt.2015.05.001] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022] Open
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14
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Bench scale synthesis of p-hydroxybenzoic acid using whole-cell nitrilase of Gordonia terrae mutant E9. Bioprocess Biosyst Eng 2015; 38:1267-79. [DOI: 10.1007/s00449-015-1367-x] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/22/2014] [Accepted: 01/19/2015] [Indexed: 12/26/2022]
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15
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Wang Y, Zhang L, Zhang W, Wu H, Zhu XM, Xu YJ, Yan JQ, Yu JY. Increasing plasmid-based DNA vaccine construct (16 kb pSVK-HBVA) production in Escherichia coli XL10-Gold through optimization of media component. BIOTECHNOL BIOTEC EQ 2015; 29:164-174. [PMID: 26740792 PMCID: PMC4697194 DOI: 10.1080/13102818.2014.989103] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/19/2014] [Accepted: 08/15/2014] [Indexed: 01/16/2023] Open
Abstract
At present, there are production processes to produce protein by Escherichia coli (E. coli) fermentation. Research on the design and optimization of the plasmid fermentation medium, however, is less advanced. The fermentation medium that is optimized for plasmid DNA production is different from the medium that is optimized for protein production. So, establishing a scientific and rational method to optimize the fermentation medium used for plasmid production is very important. Previously, our laboratory developed a novel therapeutic DNA vaccine (named pSVK-HBVA) for hepatitis B based on the alphavirus replicon, and found that E. coli XL10-Gold was the optimal host strain for the production of plasmid pSVK-HBVA. The aim of this study was to establish a scientific and rational method to optimize the fermentation medium used for plasmid production, and investigate the effect of growth medium composition on the production of plasmid pSVK-HBVA harboured in E. coli XL10-Gold, as well as to optimize the medium composition. The one-factor-at-a-time experiments demonstrated that Luria-Bertani (LB) was the optimal basic medium. The optimal carbon source and nitrogen source were glycerol and home-made proteose peptone, respectively. Based on the Plackett–Burman (PB) design, proteose peptone, glycerol and NH4Cl were identified as the significant variables, which were further optimized by the steepest ascent (descent) method and central composite design. Growth medium optimization in 500-mL shake flasks by response surface methodology resulted in a maximum volumetric yield of 13.61 mg/L, which was approximately 2.5 times higher than that obtained from the basic medium (LB).
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Affiliation(s)
- Yu Wang
- Institute of Basic Medical Science, Academy of Military Medical Sciences , 27 Tai Ping Road, Beijing 100850 , China
| | - Liang Zhang
- Institute of Basic Medical Science, Academy of Military Medical Sciences , 27 Tai Ping Road, Beijing 100850 , China
| | - Wei Zhang
- Institute of Basic Medical Science, Academy of Military Medical Sciences , 27 Tai Ping Road, Beijing 100850 , China
| | - Hao Wu
- Institute of Basic Medical Science, Academy of Military Medical Sciences , 27 Tai Ping Road, Beijing 100850 , China
| | - Xiao Ming Zhu
- Institute of Basic Medical Science, Academy of Military Medical Sciences , 27 Tai Ping Road, Beijing 100850 , China
| | - Yuan Ji Xu
- Institute of Basic Medical Science, Academy of Military Medical Sciences , 27 Tai Ping Road, Beijing 100850 , China
| | - Jin Qi Yan
- Institute of Basic Medical Science, Academy of Military Medical Sciences , 27 Tai Ping Road, Beijing 100850 , China
| | - Ji Yun Yu
- Institute of Basic Medical Science, Academy of Military Medical Sciences , 27 Tai Ping Road, Beijing 100850 , China
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Isolation of a Ribonuclease with Antiproliferative and HIV-1 Reverse Transcriptase Inhibitory Activities from Japanese Large Brown Buckwheat Seeds. Appl Biochem Biotechnol 2014; 175:2456-67. [DOI: 10.1007/s12010-014-1438-5] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/12/2014] [Accepted: 11/28/2014] [Indexed: 01/03/2023]
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The artificial neural network approach based on uniform design to optimize the fed-batch fermentation condition: application to the production of iturin A. Microb Cell Fact 2014; 13:54. [PMID: 24725635 PMCID: PMC3991868 DOI: 10.1186/1475-2859-13-54] [Citation(s) in RCA: 38] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/06/2014] [Accepted: 04/08/2014] [Indexed: 11/17/2022] Open
Abstract
Background Iturin A is a potential lipopeptide antibiotic produced by Bacillus subtilis. Optimization of iturin A yield by adding various concentrations of asparagine (Asn), glutamic acid (Glu) and proline (Pro) during the fed-batch fermentation process was studied using an artificial neural network-genetic algorithm (ANN-GA) and uniform design (UD). Here, ANN-GA based on the UD data was used for the first time to analyze the fed-batch fermentation process. The ANN-GA and UD methodologies were compared based on their fitting ability, prediction and generalization capacity and sensitivity analysis. Results The ANN model based on the UD data performed well on minimal statistical designed experimental number and the optimum iturin A yield was 13364.5 ± 271.3 U/mL compared with a yield of 9929.0 ± 280.9 U/mL for the control (batch fermentation without adding the amino acids). The root-mean-square-error for the ANN model with the training set and test set was 4.84 and 273.58 respectively, which was more than two times better than that for the UD model (32.21 and 483.12). The correlation coefficient for the ANN model with training and test sets was 100% and 92.62%, respectively (compared with 99.86% and 78.58% for UD). The error% for ANN with the training and test sets was 0.093 and 2.19 respectively (compared with 0.26 and 4.15 for UD). The sensitivity analysis of both methods showed the comparable results. The predictive error of the optimal iturin A yield for ANN-GA and UD was 0.8% and 2.17%, respectively. Conclusions The satisfactory fitting and predicting accuracy of ANN indicated that ANN worked well with the UD data. Through ANN-GA, the iturin A yield was significantly increased by 34.6%. The fitness, prediction, and generalization capacities of the ANN model were better than those of the UD model. Further, although UD could get the insight information between variables directly, ANN was also demonstrated to be efficient in the sensitivity analysis. The results of these comparisons indicated that ANN could be a better alternative way for fermentation optimization with limited number of experiments.
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Demir T, Gübe Ö, Yücel M, Hameş-Kocabaş EE. Increased alkalotolerant and thermostable ribonuclease (RNase) production from alkaliphilic Streptomyces sp. M49-1 by optimizing the growth conditions using response surface methodology. World J Microbiol Biotechnol 2013; 29:1625-33. [PMID: 23532461 DOI: 10.1007/s11274-013-1325-1] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/02/2012] [Accepted: 03/15/2013] [Indexed: 11/30/2022]
Abstract
Total of 171 alkaliphilic actinomycetes were evaluated for extracellular RNase production and Streptomyces sp. M49-1 was selected for further experiments. Fermentation optimization for RNase production was implemented in two steps using response surface methodology with central composite design. In the first step, the effect of independent fermentation variables including temperature, initial pH and process time were investigated. After identification of carbon and nitrogen sources affecting the production by one variable at a time method, concentrations of glucose and yeast extract and also inoculum size were chosen for the second central composite design. A maximum RNase activity was obtained under optimal conditions of 4.14 % glucose concentration, 4.63 % yeast extract concentration, 6.7 × 10⁶ spores as inoculum size for 50 ml medium, 42.9 °C, 91.2 h process time and medium initial pH 9.0. Optimum activity of the enzyme is achieved at pH 11 and temperature 60 °C. The enzyme is highly stable at pH range 9.0-12.0 and at 90 °C after 2 h. Statistical optimization experiments provide 2.25 fold increases in the activity of alkalotolerant and thermostable RNase and shortened the fermentation time compared to that of unoptimized condition. The members of Streptomyces can be promising qualified RNase producer for pharmaceutical industries.
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Affiliation(s)
- Tuğçe Demir
- Department of Bioengineering, Faculty of Engineering, Ege University, 35100 Bornova, Izmir, Turkey
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Optimization of fermentation conditions and rheological properties of exopolysaccharide produced by deep-sea bacterium Zunongwangia profunda SM-A87. PLoS One 2011; 6:e26825. [PMID: 22096500 PMCID: PMC3214017 DOI: 10.1371/journal.pone.0026825] [Citation(s) in RCA: 38] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/12/2011] [Accepted: 10/04/2011] [Indexed: 11/19/2022] Open
Abstract
Zunongwangia profunda SM-A87 isolated from deep-sea sediment can secrete large quantity of exopolysaccharide (EPS). Response surface methodology was applied to optimize the culture conditions for EPS production. Single-factor experiment showed that lactose was the best carbon source. Based on the Plackett–Burman design, lactose, peptone and temperature were selected as significant variables, which were further optimized by the steepest ascent (descent) method and central composite design. The optimal culture conditions for EPS production and broth viscosity were determined as 32.21 g/L lactose, 8.87 g/L peptone and an incubation temperature of 9.8°C. Under these conditions, the maximum EPS yield and broth viscosity were 8.90 g/L and 6551 mPa•s, respectively, which is the first report of such high yield of EPS from a marine bacterium. The aqueous solution of the EPS displayed high viscosity, interesting shearing thinning property and great tolerance to high temperature, a wide range of pH, and high salinity.
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Low KO, Mahadi NM, Rahim RA, Rabu A, Abu Bakar FD, Murad AMA, Illias RM. An effective extracellular protein secretion by an ABC transporter system in Escherichia coli: statistical modeling and optimization of cyclodextrin glucanotransferase secretory production. J Ind Microbiol Biotechnol 2011; 38:1587-97. [PMID: 21336875 DOI: 10.1007/s10295-011-0949-0] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/19/2010] [Accepted: 02/02/2011] [Indexed: 11/27/2022]
Abstract
Direct transport of recombinant protein from cytosol to extracellular medium offers great advantages, such as high specific activity and a simple purification step. This work presents an investigation on the potential of an ABC (ATP-binding cassette) transporter system, the hemolysin transport system, for efficient protein secretion in Escherichia coli (E. coli). A higher secretory production of recombinant cyclodextrin glucanotransferase (CGTase) was achieved by a new plasmid design and subsequently by optimization of culture conditions via central composite design. An improvement of at least fourfold extracellular recombinant CGTase was obtained using the new plasmid design. The optimization process consisted of 20 experiments involving six star points and six replicates at the central point. The predicted optimum culture conditions for maximum recombinant CGTase secretion were found to be 25.76 μM IPTG, 1.0% (w/v) arabinose and 34.7°C post-induction temperature, with a predicted extracellular CGTase activity of 68.76 U/ml. Validation of the model gave an extracellular CGTase activity of 69.15 ± 0.71 U/ml, resulting in a 3.45-fold increase compared to the initial conditions. This corresponded to an extracellular CGTase yield of about 0.58 mg/l. We showed that a synergistic balance of transported protein and secretory pathway is important for efficient protein transport. In addition, we also demonstrated the first successful removal of the C-terminal secretion signal from the transported fusion protein by thrombin proteolytic cleavage.
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Affiliation(s)
- Kheng Oon Low
- Department of Bioprocess Engineering, Faculty of Chemical Engineering, Universiti Teknologi Malaysia, 81310, Skudai, Johor, Malaysia
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