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Hoyano Y, Tamashiro I, Akimoto T. Fusion proteins of organophosphorus hydrolase and pHluorin for a whole-cell biosensor for organophosphorus pesticide measurement. ANAL SCI 2023; 39:1515-1520. [PMID: 37264267 DOI: 10.1007/s44211-023-00369-7] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/28/2023] [Accepted: 05/15/2023] [Indexed: 06/03/2023]
Abstract
Fusion proteins composed of an organophosphorus hydrolase (OPH) and pHluorin, a pH-sensitive green fluorescent protein variant, were constructed as whole-cell biosensors to measure organophosphorus pesticides. pHluorin was used to detect the pH changes because of the hydrolase of paraoxon by OPH. To examine the order of fusion of OPH and pHluorin, pHluorin-OPH and OPH-pHluorin fusion proteins were constructed. In addition, a peptide linker consisting of 15 amino acid was inserted between pHluorin and OPH to reduce steric hindrance. OPH and pHluorin activities were evaluated in cells expressing the four fusion proteins. The both activities of pHluorin-OPH and pHluorin-linker-OPH were higher than that of OPH-pHluorin and OPH-linker-pHluorin. Effects of the peptide linker on the activities were slight. Therefore, pHluorin-OPH and pHluorin-linker-OPH were found to be suitable for organophosphorus pesticide measurements. Using cells expressing pHluorin-linker-OPH, 0.5 μg/mL of paraoxon could be measured.
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Affiliation(s)
- Yusei Hoyano
- School of Bioscience and Biotechnology, Tokyo University of Technology, 1404-1 Katakura, Hachioji, Tokyo, 192-0982, Japan
| | - Issa Tamashiro
- School of Bioscience and Biotechnology, Tokyo University of Technology, 1404-1 Katakura, Hachioji, Tokyo, 192-0982, Japan
| | - Takuo Akimoto
- School of Bioscience and Biotechnology, Tokyo University of Technology, 1404-1 Katakura, Hachioji, Tokyo, 192-0982, Japan.
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2
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Hill BD, Prabhu P, Rizvi SM, Wen F. Yeast Intracellular Staining (yICS): Enabling High-Throughput, Quantitative Detection of Intracellular Proteins via Flow Cytometry for Pathway Engineering. ACS Synth Biol 2020; 9:2119-2131. [PMID: 32603587 DOI: 10.1021/acssynbio.0c00199] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
The complexities of pathway engineering necessitate screening libraries to discover phenotypes of interest. However, this approach is challenging when desirable phenotypes cannot be directly linked to growth advantages or fluorescence. In these cases, the ability to rapidly quantify intracellular proteins in the pathway of interest is critical to expedite the clonal selection process. While Saccharomyces cerevisiae remains a common host for pathway engineering, current approaches for intracellular protein detection in yeast either have low throughput, can interfere with protein function, or lack the ability to detect multiple proteins simultaneously. To fill this need, we developed yeast intracellular staining (yICS) that enables fluorescent antibodies to access intracellular compartments of yeast cells while maintaining their cellular integrity for analysis by flow cytometry. Using the housekeeping proteins β actin and glyceraldehyde 3-phophate dehydrogenase (GAPDH) as targets for yICS, we demonstrated for the first time successful antibody-based flow cytometric detection of yeast intracellular proteins with no modification. Further, yICS characterization of a recombinant d-xylose assimilation pathway showed 3-plexed, quantitative detection of the xylose reductase (XR), xylitol dehydrogenase (XDH), and xylulokinase (XK) enzymes each fused with a small (6-10 amino acids) tag, revealing distinct enzyme expression profiles between plasmid-based and genome-integrated expression approaches. As a result of its high-throughput and quantitative capability, yICS enabled rapid screening of a library created from CRISPR-mediated XDH integration into the yeast δ site, identifying rare (1%) clones that led to an 8.4-fold increase in XDH activity. These results demonstrate the utility of yICS for greatly accelerating pathway engineering efforts, as well as any application where the high-throughput and quantitative detection of intracellular proteins is desired.
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Affiliation(s)
- Brett D. Hill
- Department of Chemical Engineering, University of Michigan, Ann Arbor, Michigan 48109, United States
| | - Ponnandy Prabhu
- Department of Chemical Engineering, University of Michigan, Ann Arbor, Michigan 48109, United States
| | - Syed M. Rizvi
- Department of Chemical Engineering, University of Michigan, Ann Arbor, Michigan 48109, United States
| | - Fei Wen
- Department of Chemical Engineering, University of Michigan, Ann Arbor, Michigan 48109, United States
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3
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Molecularly imprinted microparticles (microMIPs) embedded with reduced graphene oxide for capture and destruction of E.coli in drinking water. MATERIALS SCIENCE & ENGINEERING. C, MATERIALS FOR BIOLOGICAL APPLICATIONS 2020; 110:110672. [PMID: 32204100 DOI: 10.1016/j.msec.2020.110672] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/28/2019] [Revised: 01/03/2020] [Accepted: 01/15/2020] [Indexed: 12/18/2022]
Abstract
In this article for the first time, we have reported, a facile way for the creation of E.coli impressions in the polymer for selective capture and to destroy E. coli in drinking water. This microporous imprinted polymer has shown the existence of micrometer size rod shape cavities with the population of 2.45 × 102 ± 60 imprints per cm2. Adsorption capacity of the polymer for E.coli was 103 CFU mg-1. This microporous imprinted polymer captured 99% of the bacteria within 30 min at initial concentration of 109 CFU mL-1. The non-imprinted polymer prepared without the bacteria imprinting reported only 40% of the bacteria removal even after 60 min. The reduced graphene oxide was embedded in the microporous imprinted polymer and it reported minimum inhibitory concentration at 7.4 mg L-1. Within 10 min, reduced graphene oxide completely kills the E.coli while microporous imprinted polymer was embedded with the reduced graphene oxide takes about 13 min to disinfect the water. The reduced graphene oxide nanoparticles were near the imprinted cavity to generate localized temperature between 180 and 210 °C to kill the bacterial cells trapped inside the imprinted cavities of the polymer. The thermal atomic force microscope with the specialized heated probe tips were used to determine the localized temperature in the polymers. The localized thermal energy would be responsible for the production of superoxides, which were as similar to photolysis reactions, and would be further improving antibacterial activity. The combination of selective capture and destruction of pathogens in a single molecular construct improves disinfection of drinking water.
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4
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Wang X, Wang L, Lin X, Yang X, Liu W, Zhao ZK. Visualizing Soluble Protein Mutants by Using Monomeric Red Fluorescent Protein as a Reporter for Directed Evolution. Appl Biochem Biotechnol 2018; 185:81-90. [PMID: 29082479 DOI: 10.1007/s12010-017-2640-z] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/17/2017] [Accepted: 10/17/2017] [Indexed: 11/29/2022]
Abstract
Directed evolution-based protein engineering usually generates large library contained insoluble mutants because of structural disturbance by mutation. To reduce the workload and costs, it is crucial to identify and eliminate those insoluble variants prior to dedicated analysis. Here, we demonstrate a method to visualize soluble protein mutants by using monomeric red fluorescent protein (mRFP) as a fusion tag. A plasmid was devised to express nicotinic acid mononucleotide adenylyltransferase (NadD) fused with a GGGS-linked mRFP tag at the C-terminus. The plasmid was subjected to site saturation mutagenesis within the nadD gene, used to transform Escherichia coli DH10B competent cells, leading to colonies with different red intensities. It was found that the fluorescence intensity of the cell culture correlated positively with the content of NadD-mRFP mutant in the supernatant. Mutation at position 132 led to a library of which most colonies lost the red phenotype, indicating that the position had a key role for proper protein folding. Similarly, mRFP enabled identification of soluble mutants of other enzymes including 1-deoxy-D-xylulose-5-phosphate reductoisomerase and phosphite dehydrogenase. These data suggested that mRFP can serve as a fusion reporter for visualizing soluble protein mutants to facilitate more efficient library screening in directed evolution.
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Affiliation(s)
- Xueying Wang
- Division of Biotechnology, Dalian Institute of Chemical Physics, CAS, Dalian, 116023, People's Republic of China
- University of Chinese Academy of Sciences, Beijing, 100049, People's Republic of China
| | - Lei Wang
- Division of Biotechnology, Dalian Institute of Chemical Physics, CAS, Dalian, 116023, People's Republic of China
| | - Xinping Lin
- Division of Biotechnology, Dalian Institute of Chemical Physics, CAS, Dalian, 116023, People's Republic of China
| | - Xiaobing Yang
- Division of Biotechnology, Dalian Institute of Chemical Physics, CAS, Dalian, 116023, People's Republic of China
| | - Wujun Liu
- Division of Biotechnology, Dalian Institute of Chemical Physics, CAS, Dalian, 116023, People's Republic of China
| | - Zongbao K Zhao
- Division of Biotechnology, Dalian Institute of Chemical Physics, CAS, Dalian, 116023, People's Republic of China.
- Dalian National Laboratory for Clean Energy, Dalian Institute of Chemical Physics, CAS, Dalian, 116023, People's Republic of China.
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5
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Evaluation of rice tetraticopeptide domain-containing thioredoxin as a novel solubility-enhancing fusion tag in Escherichia coli. J Biosci Bioeng 2018; 125:160-167. [DOI: 10.1016/j.jbiosc.2017.08.016] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/02/2017] [Revised: 08/18/2017] [Accepted: 08/24/2017] [Indexed: 02/06/2023]
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6
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7
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Petrovskaya LE, Gapizov SS, Shingarova LN, Kryukova EA, Boldyreva EF, Yakimov SA, Svirschevskaya EV, Lukashev EP, Dolgikh DA, Kirpichnikov MP. Fluorescent fusion proteins derived from the tenth human fibronectin domain. RUSSIAN JOURNAL OF BIOORGANIC CHEMISTRY 2014. [DOI: 10.1134/s1068162014030121] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
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8
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Kim CS, Seo JH, Kang DG, Cha HJ. Engineered whole-cell biocatalyst-based detoxification and detection of neurotoxic organophosphate compounds. Biotechnol Adv 2014; 32:652-62. [DOI: 10.1016/j.biotechadv.2014.04.010] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/01/2014] [Revised: 04/19/2014] [Accepted: 04/20/2014] [Indexed: 12/21/2022]
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9
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Baig F, Fernando LP, Salazar MA, Powell RR, Bruce TF, Harcum SW. Dynamic transcriptional response of Escherichia coli to inclusion body formation. Biotechnol Bioeng 2014; 111:980-99. [PMID: 24338599 DOI: 10.1002/bit.25169] [Citation(s) in RCA: 25] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/10/2013] [Revised: 11/09/2013] [Accepted: 12/02/2013] [Indexed: 01/27/2023]
Abstract
Escherichia coli is used intensively for recombinant protein production, but one key challenge with recombinant E. coli is the tendency of recombinant proteins to misfold and aggregate into insoluble inclusion bodies (IBs). IBs contain high concentrations of inactive recombinant protein that require recovery steps to salvage a functional recombinant protein. Currently, no universally effective method exists to prevent IB formation in recombinant E. coli. In this study, DNA microarrays were used to compare the E. coli gene expression response dynamics to soluble and insoluble recombinant protein production. As expected and previously reported, the classical heat-shock genes had increased expression due to IB formation, including protein folding chaperones and proteases. Gene expression levels for protein synthesis-related and energy-synthesis pathways were also increased. Many transmembrane transporter and corresponding catabolic pathways genes had decreased expression for substrates not present in the culture medium. Additionally, putative genes represented over one-third of the genes identified to have significant expression changes due to IB formation, indicating many important cellular responses to IB formation still need to be characterized. Interestingly, cells grown in 3% ethanol had significantly reduced gene expression responses due to IB formation. Taken together, these results indicate that IB formation is complex, stimulates the heat-shock response, increases protein and energy synthesis needs, and streamlines transport and catabolic processes, while ethanol diminished all of these responses.
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Affiliation(s)
- Faraz Baig
- Department of Bioengineering, Clemson University, 301 Rhodes Research Center, Clemson, South Carolina, 29634
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10
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Salazar MA, Fernando LP, Baig F, Harcum SW. The effects of protein solubility on the RNA Integrity Number (RIN) for recombinant Escherichia coli. Biochem Eng J 2013; 79:129-135. [PMID: 24151430 PMCID: PMC3799817 DOI: 10.1016/j.bej.2013.07.011] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
Abstract
High quality, intact messenger RNA (mRNA) is required for DNA microarray and reverse transcriptase polymerase chain reaction analysis and is generally obtained from total RNA isolations. The most widely recognized measure of RNA integrity is the RNA Integrity Number (RIN) obtained from the Agilent Bioanalyzer, as it provides sizing, quantification, and quality control measures. This work describes comparisons of the RIN values obtained for recombinant E. coli. Uninduced recombinant E. coli cultures were examined, as well as induced cultures that produced either a soluble or insoluble recombinant protein. The uninduced cultures and the induced cultures producing soluble protein had higher RIN values than the induced cultures producing insoluble protein. These lower RIN values for E. coli producing the insoluble protein indicate that cellular degradation of the ribosomal RNA species is the likely cause of the lower RIN values. As the use of DNA microarrays and other gene expression tools increase in usage in the industrial recombinant protein production community, these results suggest the need for further studies to determine acceptable RIN ranges for gene expression analysis and effects of various culture conditions on RIN values for recombinant E. coli.
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Affiliation(s)
| | | | - Faraz Baig
- Department of Bioengineering, Clemson University
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11
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Chen CW, Liu HL, Lin JC, Ho Y. Molecular Dynamics Simulations of Metal Ion Binding to the His-tag Motif. J CHIN CHEM SOC-TAIP 2013. [DOI: 10.1002/jccs.200500185] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
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12
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Kwak Y, Rhee IK, Shin JH. Expression pattern of recombinant organophosphorus hydrolase from Flavobacterium sp. ATCC 27551 in Escherichia coli. Appl Microbiol Biotechnol 2012; 97:8097-105. [PMID: 23274957 DOI: 10.1007/s00253-012-4626-7] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/14/2012] [Revised: 11/26/2012] [Accepted: 11/28/2012] [Indexed: 12/01/2022]
Affiliation(s)
- Yunyoung Kwak
- School of Applied Biosciences, College of Agriculture and Life Sciences, Kyungpook National University, Daegu, 702-701, Republic of Korea
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13
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Han SJ, Cho S, Lowehhaupt K, Park SY, Sim SJ, Kim YG. Recombinant tagging system using ribosomal frameshifting to monitor protein expression. Biotechnol Bioeng 2012; 110:898-904. [PMID: 23042497 DOI: 10.1002/bit.24740] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/25/2012] [Revised: 08/27/2012] [Accepted: 09/27/2012] [Indexed: 01/20/2023]
Abstract
For rapid and accurate quantitation of recombinant proteins during expression and after purification, we introduce a new tagging strategy that expresses both target proteins and limitedly tagged target proteins together in a single cell at a constant ratio by utilizing cis-elements of programmed -1 ribosomal frameshifting (-1RFS) as an embedded device. -1RFS is an alternative reading mechanism that effectively controls protein expression by many viruses. When a target gene is fused to the enhanced green fluorescent protein (EGFP) gene with a -1RFS element implanted between them, the unfused target and the target-GFP fusion proteins are expressed at a fixed ratio. The expression ratio between these two protein products is adjustable simply by changing -1RFS signals. This limited-tagging system would be valuable for the real-time monitoring of protein expression when optimizing expression condition for a new protein, and in monitoring large-scale bioprocesses without a large metabolic burden on host cells. Furthermore, this strategy allows for the direct measurement of the quantity of a protein on a chip surface and easy application to proteomewide study of gene products.
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Affiliation(s)
- Se Jong Han
- Division of Polar Life Sciences, Korea Polar Research Institute, Incheon, Korea
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14
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Alfasi S, Sevastsyanovich Y, Zaffaroni L, Griffiths L, Hall R, Cole J. Use of GFP fusions for the isolation of Escherichia coli strains for improved production of different target recombinant proteins. J Biotechnol 2011; 156:11-21. [DOI: 10.1016/j.jbiotec.2011.08.016] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/09/2010] [Revised: 06/03/2011] [Accepted: 08/08/2011] [Indexed: 11/28/2022]
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15
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LuxS coexpression enhances yields of recombinant proteins in Escherichia coli in part through posttranscriptional control of GroEL. Appl Environ Microbiol 2011; 77:2141-52. [PMID: 21278275 DOI: 10.1128/aem.02347-10] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/25/2022] Open
Abstract
Cell-to-cell communication, or quorum sensing (QS), enables cell density-dependent regulation of bacterial gene expression which can be exploited for the autonomous-signal-guided expression of recombinant proteins (C. Y. Tsao, S. Hooshangi, H. C. Wu, J. J. Valdes, and W. E. Bentley, Metab. Eng. 12:291-297, 2010). Earlier observations that the metabolic potential of Escherichia coli is conveyed via the QS signaling molecule autoinducer-2 (AI-2) suggested that the capacity for protein synthesis could also be affected by AI-2 signaling (M. P. DeLisa, J. J. Valdes, and W. E. Bentley, J. Bacteriol. 183:2918-2928, 2001). In this work, we found that simply adding conditioned medium containing high levels of AI-2 at the same time as inducing the synthesis of recombinant proteins doubled the yield of active product. We have hypothesized that AI-2 signaling "conditions" cells as a natural consequence of cell-to-cell communication and that this could tweak the signal transduction cascade to alter the protein synthesis landscape. We inserted luxS (AI-2 synthase) into vectors which cosynthesized proteins of interest (organophosphorus hydrolase [OPH], chloramphenicol acetyltransferase [CAT], or UV-variant green fluorescent protein [GFPuv]) and evaluated the protein expression in luxS-deficient hosts. In this way, we altered the level of luxS in the cells in order to "tune" the synthesis of AI-2. We found conditions in which the protein yield was dramatically increased. Further studies demonstrated coincident upregulation of the chaperone GroEL, which may have facilitated higher yields and is shown for the first time to be positively regulated at the posttranscriptional level by AI-2. This report is the first to demonstrate that the protein synthesis capacity of E. coli can be altered by rewiring quorum sensing circuitry.
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16
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Anchorage of GFP fusion on the cell surface of Pseudomonas putida. Biodegradation 2010; 22:51-61. [DOI: 10.1007/s10532-010-9375-7] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/19/2010] [Accepted: 05/25/2010] [Indexed: 11/26/2022]
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17
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Lu HD, Wheeldon IR, Banta S. Catalytic biomaterials: engineering organophosphate hydrolase to form self-assembling enzymatic hydrogels. Protein Eng Des Sel 2010; 23:559-66. [DOI: 10.1093/protein/gzq026] [Citation(s) in RCA: 45] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022] Open
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18
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Lyngsø C, Kjaerulff S, Müller S, Bratt T, Mortensen UH, Dal Degan F. A versatile selection system for folding competent proteins using genetic complementation in a eukaryotic host. Protein Sci 2010; 19:579-92. [PMID: 20082307 DOI: 10.1002/pro.337] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
Abstract
Recombinant expression of native or modified eukaryotic proteins is pivotal for structural and functional studies and for industrial and pharmaceutical production of proteins. However, it is often impeded by the lack of proper folding. Here, we present a stringent and broadly applicable eukaryotic in vivo selection system for folded proteins. It is based on genetic complementation of the Schizosaccharomyces pombe growth marker gene invertase fused C-terminally to a protein library. The fusion proteins are directed to the secretion system, utilizing the ability of the eukaryotic protein quality-control systems to retain misfolded proteins in the ER and redirect them for cytosolic degradation, thereby only allowing folded proteins to reach the cell surface. Accordingly, the folding potential of the tested protein determines the ability of autotrophic colony growth. This system was successfully demonstrated using a complex insertion mutant library of TNF-alpha, from which different folding competent mutant proteins were uncovered.
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Affiliation(s)
- Christina Lyngsø
- The Laboratory for Molecular Cardiology, The Danish National Research Foundation Centre for Cardiac Arrhythmia, Department of Biomedical Sciences, University of Copenhagen, Blegdamsvej 3B, DK-2200 Copenhagen N, Denmark.
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20
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21
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Wu HC, Shi XW, Tsao CY, Lewandowski AT, Fernandes R, Hung CW, DeShong P, Kobatake E, Valdes JJ, Payne GF, Bentley WE. Biofabrication of antibodies and antigens via IgG-binding domain engineered with activatable pentatyrosine pro-tag. Biotechnol Bioeng 2009; 103:231-40. [DOI: 10.1002/bit.22238] [Citation(s) in RCA: 28] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
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22
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Evaluation of GFP Tag as a Screening Reporter in Directed Evolution of a Hyperthermophilic β-Glucosidase. Mol Biotechnol 2009; 42:205-15. [DOI: 10.1007/s12033-009-9152-1] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/15/2008] [Accepted: 01/26/2009] [Indexed: 10/21/2022]
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23
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SHIBASAKI S, MAEDA H, UEDA M. Molecular Display Technology Using Yeast-Arming Technology-. ANAL SCI 2009; 25:41-9. [DOI: 10.2116/analsci.25.41] [Citation(s) in RCA: 60] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
Affiliation(s)
- Seiji SHIBASAKI
- Laboratory of Bioanalytical Chemistry, Department of Pharmacy, School of Pharmacy, Hyogo University of Health Sciences
| | - Hatsuo MAEDA
- Laboratory of Bioanalytical Chemistry, Department of Pharmacy, School of Pharmacy, Hyogo University of Health Sciences
| | - Mitsuyoshi UEDA
- Laboratory of Biomacromolecular Chemistry, Division of Applied Life Sciences, Graduate School of Agriculture, Kyoto University
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Laothanachareon T, Champreda V, Sritongkham P, Somasundrum M, Surareungchai W. Cross-linked enzyme crystals of organophosphate hydrolase for electrochemical detection of organophosphorus compounds. World J Microbiol Biotechnol 2008. [DOI: 10.1007/s11274-008-9851-y] [Citation(s) in RCA: 34] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/01/2022]
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25
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Zhang H, Yang C, Li C, Li L, Zhao Q, Qiao C. Functional assembly of a microbial consortium with autofluorescent and mineralizing activity for the biodegradation of organophosphates. JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY 2008; 56:7897-7902. [PMID: 18693742 DOI: 10.1021/jf801684g] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/26/2023]
Abstract
Organophosphorus pesticides (OPs) cause serious environmental problems, and bioremediation using bacterial enzymes may provide an efficient and economical method for their detoxification. Green fluorescent protein (GFP) is a stable and easily detectable marker in monitoring genetically engineered microorganisms (GEMs) in the environment. In our research, the methyl parathion hydrolase gene (mpd) and enhanced green fluorescent protein gene (egfp) were successfully coexpressed using pETDuet vector in E. coli BL21 (DE3). The coexpression of methyl parathion hydrolase (MPH) and enhanced green fluorescent protein (EGFP) were confirmed by determining MPH activity and fluorescence intensity. The recombinant protein MPH showed high enzymatic degradative activity of several widely used OP residues on vegetables determined by GC analysis. Subsequently, a dual-species consortium comprising engineered E. coli and a natural p-nitrophenol (PNP) degrader Ochrobactrum sp. strain LL-1 for complete mineralization of dimethyl OPs was studied. It could completely mineralize methyl parathion (MP) via MP through PNP and hydroquinone and eventually through the TCA cycle as determined by HPLC analysis. The accumulation of PNP in suspended culture was prevented. The consortium could be further utilized for complete mineralization of PNP-substituted OPs in a laboratory-scale bioreactor and easily monitored by fluorescence of EGFP for its activity and fate.
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Affiliation(s)
- Heng Zhang
- State Key Laboratory of Integrated Management of Pest Insects & Rodents, Institute of Zoology, Chinese Academy of Sciences, Beijing 100101, China
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26
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Shi XW, Wu HC, Liu Y, Tsao CY, Wang K, Kobatake E, Bentley WE, Payne GF. Chitosan Fibers: Versatile Platform for Nickel-Mediated Protein Assembly. Biomacromolecules 2008; 9:1417-23. [DOI: 10.1021/bm800072e] [Citation(s) in RCA: 15] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Xiao-Wen Shi
- Center for Biosystems Research, University of Maryland Biotechnology Institute, College Park, Maryland 20742, Fischell Department of Bioengineering, University of Maryland, College Park, Maryland 20742, and Department of Biological Information, Graduate School of Bioscience and Biotechnology, Tokyo Institute of Technology, 4259 Nagatsuta-cho, Midori-ku Yokohama 226-8501, Japan
| | - Hsuan-Chen Wu
- Center for Biosystems Research, University of Maryland Biotechnology Institute, College Park, Maryland 20742, Fischell Department of Bioengineering, University of Maryland, College Park, Maryland 20742, and Department of Biological Information, Graduate School of Bioscience and Biotechnology, Tokyo Institute of Technology, 4259 Nagatsuta-cho, Midori-ku Yokohama 226-8501, Japan
| | - Yi Liu
- Center for Biosystems Research, University of Maryland Biotechnology Institute, College Park, Maryland 20742, Fischell Department of Bioengineering, University of Maryland, College Park, Maryland 20742, and Department of Biological Information, Graduate School of Bioscience and Biotechnology, Tokyo Institute of Technology, 4259 Nagatsuta-cho, Midori-ku Yokohama 226-8501, Japan
| | - Chen-Yu Tsao
- Center for Biosystems Research, University of Maryland Biotechnology Institute, College Park, Maryland 20742, Fischell Department of Bioengineering, University of Maryland, College Park, Maryland 20742, and Department of Biological Information, Graduate School of Bioscience and Biotechnology, Tokyo Institute of Technology, 4259 Nagatsuta-cho, Midori-ku Yokohama 226-8501, Japan
| | - Kai Wang
- Center for Biosystems Research, University of Maryland Biotechnology Institute, College Park, Maryland 20742, Fischell Department of Bioengineering, University of Maryland, College Park, Maryland 20742, and Department of Biological Information, Graduate School of Bioscience and Biotechnology, Tokyo Institute of Technology, 4259 Nagatsuta-cho, Midori-ku Yokohama 226-8501, Japan
| | - Eiry Kobatake
- Center for Biosystems Research, University of Maryland Biotechnology Institute, College Park, Maryland 20742, Fischell Department of Bioengineering, University of Maryland, College Park, Maryland 20742, and Department of Biological Information, Graduate School of Bioscience and Biotechnology, Tokyo Institute of Technology, 4259 Nagatsuta-cho, Midori-ku Yokohama 226-8501, Japan
| | - William E. Bentley
- Center for Biosystems Research, University of Maryland Biotechnology Institute, College Park, Maryland 20742, Fischell Department of Bioengineering, University of Maryland, College Park, Maryland 20742, and Department of Biological Information, Graduate School of Bioscience and Biotechnology, Tokyo Institute of Technology, 4259 Nagatsuta-cho, Midori-ku Yokohama 226-8501, Japan
| | - Gregory F. Payne
- Center for Biosystems Research, University of Maryland Biotechnology Institute, College Park, Maryland 20742, Fischell Department of Bioengineering, University of Maryland, College Park, Maryland 20742, and Department of Biological Information, Graduate School of Bioscience and Biotechnology, Tokyo Institute of Technology, 4259 Nagatsuta-cho, Midori-ku Yokohama 226-8501, Japan
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Kaiser C, Pototzki T, Ellert A, Luttmann R. Applications of PAT-Process Analytical Technology in Recombinant Protein Processes withEscherichia coli. Eng Life Sci 2008. [DOI: 10.1002/elsc.200720232] [Citation(s) in RCA: 28] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022] Open
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28
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29
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Li L, Kim YS, Hwang DS, Seo JH, Jung HJ, Du J, Cha HJ. High and compact formation of baculoviral polyhedrin-induced inclusion body by co-expression of baculoviral FP25 in Escherichia coli. Biotechnol Bioeng 2007; 96:1183-90. [PMID: 17004271 DOI: 10.1002/bit.21193] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
Abstract
Previously, we found that baculoviral polyhedrin (Polh) can successfully be used in Escherichia coli as a fusion partner for the expression of special foreign proteins as inclusion bodies, and the resulting, easily isolatable Polh-induced fusion inclusion bodies had almost the same characteristics as the native Polh. Here, we investigated the effects of co-expression of baculoviral FP25 protein on Polh-induced inclusion-body production in an E. coli expression system, as FP25 is known to be involved specifically in polyhedra formation. Using several analytical tools, including SDS-PAGE, pronase proteolysis, solubilization under alkaline conditions, and electron microscopy, we found that co-expressed FP25 was associated with Polh-induced inclusion bodies and that its co-expression led to formation of compact inclusion bodies as well as high production levels. We confirmed that FP25 co-expression induced higher production levels of other heterologous protein, antimicrobial peptide Hal18, fused with aggregation-prone Polh. Therefore, co-expression of baculoviral FP25 can be promisingly used to increase the levels of baculoviral Polh-fused foreign proteins, especially harmful proteins, expressed as inclusion bodies in an E. coli expression system.
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Affiliation(s)
- Lin Li
- Division of Molecular and Life Sciences, Pohang University of Science and Technology, Pohang 790-784, Korea
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30
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Nagamine K, Onodera S, Kurihara A, Yasukawa T, Shiku H, Asano R, Kumagai I, Matsue T. Electrochemical screening of recombinant protein solubility in Escherichia coli using scanning electrochemical microscopy (SECM). Biotechnol Bioeng 2007; 96:1008-13. [PMID: 16952165 DOI: 10.1002/bit.21173] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
Abstract
A microbial array chip with collagen gel spots entrapping living Escherichia coli (E. coli) DH5alpha was applied for the screening of recombinant protein solubilities. The alpha-fragment of beta-galactosidase (betaGal) was fused to the target protein, namely, maltose-binding protein (MBP), to monitor the solubility of MBP. Scanning electrochemical microscopy (SECM) was used to detect the release of p-aminophenol from E. coli cells catalyzed by intracellular betaGal. Comparison of the SECM-based method with the Western blotting-based method indicated that the current response obtained using SECM increased with an increase in the betaGal activity and therefore, with the soluble fraction of MBP in the host cells.
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Affiliation(s)
- Kuniaki Nagamine
- Graduate School of Environmental Studies, Tohoku University, 6-6-11 Aramaki Aoba, Aoba-ku, Sendai 980-8579, Japan
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31
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Su Y, Zou Z, Feng S, Zhou P, Cao L. The acidity of protein fusion partners predominantly determines the efficacy to improve the solubility of the target proteins expressed in Escherichia coli. J Biotechnol 2007; 129:373-82. [PMID: 17374413 DOI: 10.1016/j.jbiotec.2007.01.015] [Citation(s) in RCA: 27] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/28/2006] [Revised: 01/14/2007] [Accepted: 01/18/2007] [Indexed: 11/17/2022]
Abstract
Maximization of the soluble protein expression in Escherichia coli (E. coli) via the fusion expression strategy is usually preferred for academic, industrial and pharmaceutical purposes. In this study, a set of distinct protein fusion partners were comparatively evaluated to promote the soluble expression of two target proteins including the bovine enterokinase largely prone to aggregation and the green fluorescent protein with moderate native solubility. Within protein attributes that are putatively involved in protein solubility, the protein acidity was of particular concern. Our results explicitly indicated the protein fusion partners with a stronger acidity remarkably exhibited a higher capacity to enhance the solubility of the target proteins. Among them, msyB, an E. coli acidic protein that suppresses the mutants lacking function of protein export, was revealed as an excellent protein fusion partner with the distinguished features including high potential to enhance protein solubility, efficient expression, relatively small size and the origin of E. coli itself. In principle, our results confirmed the modified solubility model of Wilkinson-Harrison and especially deepened understanding its essence. Meanwhile, the roles of other parameters such as protein hydrophilicity in solubility enhancement were discussed, a guideline to design or search an optimum protein solubility enhancer was also proposed.
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Affiliation(s)
- Yu Su
- School of Life Sciences, East China Normal University, Zhongshan North Road 3663, Shanghai 200062, China
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32
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Yin CHEN, Xinhui XING, Fengchun YE, Ying KUANG. Soluble Expression and Rapid Quantification of GFP-hepA Fusion Protein in Recombinant Escherichia coli. Chin J Chem Eng 2007. [DOI: 10.1016/s1004-9541(07)60044-5] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
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33
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Sharma SS, Blattner FR, Harcum SW. Recombinant protein production in an Escherichia coli reduced genome strain. Metab Eng 2006; 9:133-41. [PMID: 17126054 PMCID: PMC3710453 DOI: 10.1016/j.ymben.2006.10.002] [Citation(s) in RCA: 51] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/11/2006] [Revised: 10/04/2006] [Accepted: 10/11/2006] [Indexed: 10/24/2022]
Abstract
Recently, efforts have been made to improve the properties of Escherichia coli as a recombinant host by 'genomic surgery'-deleting large segments of the E. coli K12 MG1655 genome without scars. These excised segments included K-islands, which contain a high proportion of transposons, insertion sequences, cryptic phage, damaged, and unknown-function genes. The resulting multiple-deletion strain, designated E. coli MDS40, has a 14% (about 700 genes) smaller genome than the parent strain, E. coli MG1655. The multiple-deletion and parent E. coli strains were cultured in fed-batch fermenters to high cell densities on minimal medium to simulate industrial conditions for evaluating growth and recombinant protein production characteristics. Recombinant protein production and by-product levels were quantified at different controlled growth rates. These results indicate that the multiple-deletion strain's growth behavior and recombinant protein productivity closely matched the parent stain. Thus, the multiple-deletion strain E. coli MDS40 provides a suitable foundation for further genomic reduction.
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Affiliation(s)
- Shamik S. Sharma
- Department of Chemical Engineering, Clemson University, Clemson, SC 29634
| | | | - Sarah W. Harcum
- Department of Bioengineering, Clemson University, Clemson, SC 29634
- To whom correspondence should be addressed: . Phone: (864) 656 6865 Fax: (864) 656 0567
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34
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Guapillo MR, Márquez MA, Benítez-Hess ML, Alvarez-Salas LM. A bacterial reporter system for the evaluation of antisense oligodeoxynucleotides directed against human papillomavirus type 16 (HPV-16). Arch Med Res 2006; 37:584-92. [PMID: 16740427 DOI: 10.1016/j.arcmed.2005.11.006] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/01/2005] [Accepted: 11/21/2005] [Indexed: 10/24/2022]
Abstract
BACKGROUND Antisense oligodeoxynucleotides (AS-ODNs) are a promising alternative for the cure of many diseases because of their in vivo specificity and stability. However, AS-ODNs have a strong dependence on the target mRNA structure making necessary extensive in vivo testing. There is, therefore, a need to develop assays to rapidly evaluate in vivo ODN performance. METHODS We report a simple and inexpensive bacterial reporter system for the rapid in vivo evaluation of AS-ODNs directed against human papillomavirus type 16 (HPV-16) based on the destruction of a chimeric CFP mRNA using the reported HPV-16 nt 410-445 target. RESULTS In vitro RNaseH assays confirmed target RNA accessibility after AS-ODN treatment. Expression of CFP in Escherichia coli BL21(DE3) with pGST-TSd2-CFP plasmid containing HPV-16 nt 410-445 target linked to CFP was blocked by transformed antisense PS-ODNs but not by two different scrambled ODN controls. CONCLUSIONS A correlation was observed between bacterial CFP downregulation with the HPV-16 E6/E7 mRNA downregulation and the inhibition of anchorage-independent growth of HPV-16 containing cells suggesting that inhibition of HPV-16 E6/E7 expression by AS-ODNs directed against 410-445 target in cervical tumor cells can be tested in bacterial models.
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Affiliation(s)
- Mario R Guapillo
- Laboratorio de Terapia Génetica, Departamento de Genética y Biología Molecular, Centro de Investigación y de Estudios Avanzados, México, D.F., México
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35
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Kim YS, Cha HJ. Solubility dependency of co-expression effects of stress-induced protein Dps on foreign protein expression in Escherichia coli. Enzyme Microb Technol 2006. [DOI: 10.1016/j.enzmictec.2005.11.040] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/24/2022]
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36
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Nadri M, Trezzani I, Hammouri H, Dhurjati P, Longin R, Lieto J. Modeling and observer design for recombinant Escherichia coli strain. Bioprocess Biosyst Eng 2006; 28:217-25. [PMID: 16411071 DOI: 10.1007/s00449-005-0008-1] [Citation(s) in RCA: 12] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/10/2002] [Accepted: 01/28/2005] [Indexed: 11/29/2022]
Abstract
A mathematical model for recombinant bacteria which includes foreign protein production is developed. The experimental system consists of an Escherichia Coli strain and plasmid pIT34 containing genes for bioluminescence and production of a protein, beta-galactosidase. This recombinant strain is constructed to facilitate on-line estimation and control in a complex bioprocess. Several batch experiments are designed and performed to validate the developed model. The design of a model structure, the identification of the model parameters and the estimation problem are three parts of a joint design problem. A nonlinear observer is designed and an experimental evaluation is performed on a batch fermentation process to estimate the substrate consumption.
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Affiliation(s)
- M Nadri
- L.A.G.E.P., UMR CNRS 5007, Université Claude Bernard Lyon I, CPE-Lyon, Bât 308 G, 43 Bd du 11 Novembre 1918, 69622, Villeurbanne cedex, France
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37
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Barnard GC, McCool JD, Wood DW, Gerngross TU. Integrated recombinant protein expression and purification platform based on Ralstonia eutropha. Appl Environ Microbiol 2005; 71:5735-42. [PMID: 16204482 PMCID: PMC1265954 DOI: 10.1128/aem.71.10.5735-5742.2005] [Citation(s) in RCA: 63] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022] Open
Abstract
Protein purification of recombinant proteins constitutes a significant cost of biomanufacturing and various efforts have been directed at developing more efficient purification methods. We describe a protein purification scheme wherein Ralstonia eutropha is used to produce its own "affinity matrix," thereby eliminating the need for external chromatographic purification steps. This approach is based on the specific interaction of phasin proteins with granules of the intracellular polymer polyhydroxybutyrate (PHB). By creating in-frame fusions of phasins and green fluorescent protein (GFP) as a model protein, we demonstrated that GFP can be efficiently sequestered to the surface of PHB granules. In a second step, we generated a phasin-intein-GFP fusion, wherein the self-cleaving intein can be activated by the addition of thiols. This construct allowed for the controlled binding and release of essentially pure GFP in a single separation step. Finally, pure, active beta-galactosidase was obtained in a single step using the above described method.
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Affiliation(s)
- Gavin C Barnard
- Thayer School of Engineering, Department of Biological Sciences, and Department of Chemistry, Dartmouth College, 8000 Cummings Hall, Hanover, NH 03755, USA
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38
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Butera D, Piazza RMF, McLane MA, Chammas R, da Silva AMM. Molecular engineering of an EGFP/disintegrin-based integrin marker. Toxicon 2005; 46:178-84. [PMID: 15922386 DOI: 10.1016/j.toxicon.2005.04.003] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/24/2005] [Revised: 03/30/2005] [Accepted: 04/04/2005] [Indexed: 11/17/2022]
Abstract
Disintegrins are viper venom peptides, which bind integrins with high affinity (10(-8) M) and selectivity. Among them, eristostatin (Er) selectively binds and inhibits alphaIIbbeta3 integrin function. In this work we have engineered an enhanced green fluorescence protein (EGFP)-tagged Er as an alphaIIbbeta3 biomarker to be used in bioassays involving fluorescence detectors. For this, we have first constructed an EGFP bacterial expression vector, which resulted in a 6xHis tag-coding region followed by the EGFP gene and a 3' multiple cloning site (MCS) comprising nine restriction sites. This vector, termed pAZ, was used to clone the Er gene, resulting in a 32 kDa EGFP-Er fusion protein when expressed as characterized by SDS-PAGE and Western blot. Both EGFP-Er and EGFP (expressed from the empty pAZ vector) were purified by immobilized metal affinity chromatography (IMAC) and their fluorescence was measured showing similar values, thus suggesting that the Er portion is not affecting the EGFP activity. EGFP-Er, but not EGFP selectively bound to immobilized platelets as detected by confocal microscopy indicating the preservation of Er disintegrin activity and its potential use as a marker for alphaIIbbeta3 integrin. Our data suggest the use of the pAZ vector for expressing soluble EGFP-labeled proteins and the use of EGFP-fused disintegrins as markers for integrins.
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Affiliation(s)
- Diego Butera
- Laboratório de Imunopatologia, Instituto Butantan, Av. Vital Brasil, 1500, 05503-900 São Paulo, Brazil.
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39
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Cha HJ, Dalal NN, Bentley WE. Secretion of human interleukin-2 fused with green fluorescent protein in recombinant Pichia pastoris. Appl Biochem Biotechnol 2005; 126:1-11. [PMID: 16014994 DOI: 10.1007/s12010-005-0001-9] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/06/2004] [Revised: 07/14/2004] [Accepted: 04/01/2005] [Indexed: 11/29/2022]
Abstract
Methylotrophic yeast Pichia pastoris is convenient for the expression of eukaryotic foreign proteins owing to its potential for posttranslational modifications, protein folding, and facile culturing. In this work, human interleukin (hIL)-2 was successfully produced as a secreted fusion form in recombinant P. pastoris. By employing green fluorescent protein (GFP) as a monitoring fusion partner, clear identification of fusion protein expression and quantification of intracellular hIL-2 were possible even though there was no correlation between culture supernatant fluorescence and secreted hIL-2 owing to high media interference. Importantly, by the addition of casamino acids in basal medium, we were able to enhance threefold amount of secreted hIL-2, which was present both as a fusion and as a clipped fragment.
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Affiliation(s)
- Hyung Joon Cha
- Division of Molecular and Life Sciences, Department of Chemical Engineering, Pohang University of Science and Technology, Pohang 790-784, Korea.
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40
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Kang DG, Lim GB, Cha HJ. Functional periplasmic secretion of organophosphorous hydrolase using the twin-arginine translocation pathway in Escherichia coli. J Biotechnol 2005; 118:379-85. [PMID: 15993968 DOI: 10.1016/j.jbiotec.2005.05.002] [Citation(s) in RCA: 38] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/05/2004] [Revised: 05/03/2005] [Accepted: 05/12/2005] [Indexed: 11/30/2022]
Abstract
Recombinant Escherichia coli systems expressing organophosphorous hydrolase (OPH) have been proposed for biotransformation of toxic organophosphate compounds. However, whole cell biocatalyst systems are critically disadvantaged due to substrate diffusion limitations. To enhance whole cell biocatalytic efficiency, we engineered E. coli, for the first time, to secrete metal ion cofactor-requiring OPH into the periplasmic space using the twin-arginine translocation (Tat) pathway. In particular, the twin-arginine signal sequence of E. coli trimethylamine N-oxide (TMAO) reductase (TorA) was employed. Even though total OPH activity in the cell lysate fraction was lower in the periplasmic-secreting strain than in the control cytosolic-expressing strain, whole cell OPH activity was approximately 2.8-fold higher due to successful translocation of OPH into the periplasmic space. In addition, whole cell OPH activity in the periplasmic-secreting strain was far more stable than that in the cytosolic-expressing strain. Therefore, Tat-driven periplasmic-secreting E. coli can be successfully employed as efficient whole cell biocatalysts.
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Affiliation(s)
- Dong Gyun Kang
- Department of Chemical Engineering, Division of Molecular and Life Sciences, Pohang University of Science and Technology, Pohang 790-784, Republic of Korea
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41
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Su WW, Liu B, Lu WB, Xu NS, Du GC, Tan JL. Observer-based online compensation of inner filter effect in monitoring fluorescence of GFP-expressing plant cell cultures. Biotechnol Bioeng 2005; 91:213-26. [PMID: 15915511 DOI: 10.1002/bit.20510] [Citation(s) in RCA: 23] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
Abstract
The green fluorescent protein (GFP) isolated from the jellyfish Aequorea victoria is a very useful reporter for real-time bioprocess sensing. GFP culture fluorescence is a composite signal that can be influenced by factors such as culture autofluorescence, inner filter effect (IFE), and photobleaching. These factors complicate accurate estimation of GFP concentrations from the culture fluorescence. IFE is especially problematic when using GFP in monitoring transgenic plant cell suspension cultures, due to the aggregated nature of the cells and the high biomass concentration in these culture systems. Reported approaches for online compensation of IFE in monitoring culture NADH fluorescence or bioluminescence require online measurement of biomass density or culture turbidity/optical density, in addition to fluorescence/bioluminescence measurement. In this study, culture GFP fluorescence was used successfully to estimate GFP concentration and other important states in bioreactor culture of transgenic tobacco cells, while the influences of IFE and culture autofluorescence were rectified without the need for an additional biomass sensor. This was achieved by setting up a novel model-based state observer. First, we developed an improved model for a backscatter fluorescence probe that takes into account the influence of IFE and autofluorescence on reporting culture GFP concentration from online fluorescence. The state observer was then established using the extended Kalman filter (EKF), based on the fluorescence probe model, a dynamic state model of the plant cell bioreactor, and online GFP fluorescence measurement. Several versions of the observer were introduced to address practical requirements associated with monitoring GFP fluorescence of plant cell cultures. The proposed approach offers an effective means for online compensation of IFE to enable quantitative interpretation of the culture fluorescence signals for accurate reporting of GFP or GFP-fusion protein expression.
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Affiliation(s)
- Wei Wen Su
- Department of Molecular Biosciences and Bioengineering, University of Hawaii, Manoa, Hawaii 96822, USA.
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42
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Comparative production of human interleukin-2 fused with green fluorescent protein in several recombinant expression systems. Biochem Eng J 2005. [DOI: 10.1016/j.bej.2005.03.002] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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43
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Hisiger S, Jolicoeur M. A multiwavelength fluorescence probe: Is one probe capable for on-line monitoring of recombinant protein production and biomass activity? J Biotechnol 2005; 117:325-36. [PMID: 15890426 DOI: 10.1016/j.jbiotec.2005.03.004] [Citation(s) in RCA: 39] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/18/2004] [Revised: 03/16/2005] [Accepted: 03/18/2005] [Indexed: 11/16/2022]
Abstract
Monitoring cell culture performance requires maximizing the number and the quality of measured parameters and in situ 2D fluorescence spectroscopy could allow intensification of simultaneous data acquisition. The use of a multiwavelength fluorescence probe is proposed for monitoring GFP-producing cultures in bioreactor. The yeast Pichia pastoris and NSO mammalian cells were studied as model systems. Tryptophan, NAD(P)H and riboflavins (riboflavin, FMN, FAD) signals were effective for on-line yeast biomass estimation during the growth phase. During the GFP production phase, in situ measurements of the GFP concentration from the fluorescence probe were well correlated with off-line analyses. Tryptophan and NAD(P)H signals diverged from that of biomass during GFP production. With NSO mammalian cells, results showed that the culture parameters have to be optimized for the use of a fluorescence probe. The use of serum and phenol-red interfered with NAD(P)H and riboflavins fluorescence signals. Nevertheless, it appears that a multiwavelength probe could be useful for culture monitoring of biomass, cell activity and recombinant protein expression in an optimized culture medium.
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Affiliation(s)
- Steve Hisiger
- Canada Research Chair on the Development of Metabolic Engineering Tools, Bio-P2 Research Unit, Department of Chemical Engineering, Ecole Polytechnique de Montréal, P.O. Box 6079, Centre-ville Station, Montréal, Quebec, Canada
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44
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Reichmuth DS, Blanch HW, Keasling JD. Dibenzothiophene biodesulfurization pathway improvement using diagnostic GFP fusions. Biotechnol Bioeng 2005; 88:94-9. [PMID: 15389482 DOI: 10.1002/bit.20220] [Citation(s) in RCA: 24] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
Abstract
The dibenzothiophene biodesulfurization pathway has shown significant potential for improving the processing of sulfur-containing fossil fuels. However, the rate of desulfurization is limited by the last enzyme in the pathway, DszB. Genetic constructs designed to produce increased DszB activity were not functional due to low production of DszB, even when using a consensus ribosome binding site. To increase DszB production, the untranslated region 5' of dszB was mutated using degenerate oligonucleotides and translational fusions with gfp to detect increased translation of dszB. After screening only 96 mutants, several showed increased green fluorescence and two showed increased DszB activity. When cotransformed with the full dszABC operon, the mutant dszB increased the rate of desulfurization ninefold relative to that using the native dszB.
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Affiliation(s)
- David S Reichmuth
- Department of Chemical Engineering, University of California, Berkeley, CA 94720, USA
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45
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Idicula-Thomas S, Balaji PV. Understanding the relationship between the primary structure of proteins and its propensity to be soluble on overexpression in Escherichia coli. Protein Sci 2005; 14:582-92. [PMID: 15689506 PMCID: PMC2279285 DOI: 10.1110/ps.041009005] [Citation(s) in RCA: 110] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/17/2023]
Abstract
Solubility of proteins on overexpression in Escherichia coli is a manifestation of the net effect of several sequence-dependent and sequence-independent factors. This study aims to delineate the relationship between the primary structure and solubility on overexpression. The amino acid sequences of proteins reported to be soluble or to form inclusion bodies on overexpression in E. coli under normal growth conditions were analyzed. The results show a positive correlation between thermostability and solubility of proteins, and an inverse correlation between the in vivo half-life of proteins and solubility. The amino acid (Asn, Thr, Tyr) composition and the tripeptide frequency of the protein were also found to influence its solubility on overexpression. The amino acids that were seen to be present in a comparatively higher frequency in inclusion body-forming proteins have a higher sheet propensity, whereas those that are seen more in soluble proteins have a higher helix propensity; this is indicative of a possible correlation between sheet propensity and inclusion body formation. Thus, the present analysis shows that thermostability, in vivo half-life, Asn, Thr, and Tyr content, and tripeptide composition of a protein are correlated to the propensity of a protein to be soluble on overexpression in E. coli. The precise mechanism by which these properties affect the solubility status of the overexpressed protein remains to be understood.
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Affiliation(s)
- Susan Idicula-Thomas
- School of Biosciences and Bioengineering, Indian Institute of Technology Bombay, Powai, Mumbai 400 076, India
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46
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Abdullah N, Chase HA. Removal of poly-histidine fusion tags from recombinant proteins purified by expanded bed adsorption. Biotechnol Bioeng 2005; 92:501-13. [PMID: 16080185 DOI: 10.1002/bit.20633] [Citation(s) in RCA: 25] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
Abstract
Enzymatic methods have been used to cleave the C- or N-terminus polyhistidine tags from histidine tagged proteins following expanded bed purification using immobilized metal affinity chromatography (IMAC). This study assesses the use of Factor Xa and a genetically engineered exopeptidase dipeptidyl aminopeptidase-1 (DAPase-1) for the removal of C-terminus and N-terminus polyhistidine tags, respectively. Model proteins consisting of maltose binding protein (MBP) having a C- or N-terminal polyhistidine tag were used. Digestion of the hexahistidine tag of MBP-His(6) by Factor Xa and HT15-MBP by DAPase-1 was successful. The time taken to complete the conversion of MBP-His(6) to MBP was 16 h, as judged by SDS-PAGE and Western blots against anti-His antibody. When the detagged protein was purified using subtractive IMAC, the yield was moderate at 71% although the overall recovery was high at 95%. Likewise, a yield of 79% and a recovery of 97% was obtained when digestion was performed with using "on-column" tag digestion. On-column tag digestion involves cleavage of histidine tag from polyhistidine tagged proteins that are still bound to the IMAC column. Digestion of an N-terminal polyhistidine tag from HT15-MBP (1 mg/mL) by the DAPase-I system was superior to the results obtained with Factor Xa with a higher yield and recovery of 99% and 95%, respectively. The digestion by DAPase-I system was faster and was complete at 5 h as opposed to 16 h for Factor Xa. The detagged MBP proteins were isolated from the digestion mixtures using a simple subtractive IMAC column procedure with the detagged protein appearing in the flowthrough and washing fractions while residual dipeptides and DAPase-I (which was engineered to exhibit a poly-His tail) were adsorbed to the column. FPLC analysis using a MonoS cation exchanger was performed to understand and monitor the progress and time course of DAPase-I digestion of HT15-MBP to MBP. Optimization of process variables such as temperature, protein concentration, and enzyme activity was developed for the DAPase-I digesting system on HT15-MBP to MBP. In short, this study proved that the use of either Factor Xa or DAPase-I for the digestion of polyhistidine tags is simple and efficient and can be carried out under mild reaction conditions.
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Affiliation(s)
- N Abdullah
- Department of Chemical and Environmental Engineering, University Putra Malaysia, Serdang, Malaysia
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Barnard GC, Henderson GE, Srinivasan S, Gerngross TU. High level recombinant protein expression in Ralstonia eutropha using T7 RNA polymerase based amplification. Protein Expr Purif 2004; 38:264-71. [PMID: 15555942 DOI: 10.1016/j.pep.2004.09.001] [Citation(s) in RCA: 42] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/23/2004] [Revised: 09/02/2004] [Indexed: 11/30/2022]
Abstract
We report further development of a novel recombinant protein expression system based on the Gram-negative bacterium, Ralstonia eutropha. In this study, we were able to express soluble, active, organophosphohydrolase (OPH), a protein that is prone to inclusion body formation in Escherichia coli, at titers greater than 10 g/L in high cell density fermentation. This represents a titer that is approximately 100-fold greater than titers previously reported in E. coli for this enzyme. R. eutropha strains expressing OPH were generated in two cloning steps. First, the T7 RNA polymerase gene was placed under the control of the strong, inducible phaP promoter and integrated into the phaP locus of R. eutropha NCIMB 40124. Second, a single copy of the oph gene under control of the T7 promoter was randomly integrated into the chromosome using a transposon cloning vector.
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Affiliation(s)
- Gavin C Barnard
- Thayer School of Engineering & Department of Biological Sciences, Dartmouth College, 8000 Cummings Hall, Hanover, NH 03755, USA
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Jones JJ, Bridges AM, Fosberry AP, Gardner S, Lowers RR, Newby RR, James PJ, Hall RM, Jenkins O. Potential of real-time measurement of GFP-fusion proteins. J Biotechnol 2004; 109:201-11. [PMID: 15063628 DOI: 10.1016/j.jbiotec.2003.10.039] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/16/2002] [Revised: 06/09/2003] [Accepted: 10/14/2003] [Indexed: 11/30/2022]
Abstract
Building on the basic design concepts of Randers-Eichhorn [Biotechnol. Bioeng. 55 (1997) 921], an on-line, real-time robust, steam sterilisable optical sensor for monitoring green fluorescent protein (GFP) has been developed. A general cloning vector for fusion expression proteins was constructed, allowing expression of both GFP and the target protein as a fusion. Cultivations were carried out at the 20l scale with the signal from the sensor being relayed directly to the control system of the bioreactors. The production of GFP was then measured on-line, the signal was interfaced directly with other controlling parameters, thereby allowing the microbial process to be controlled directly based on recombinant protein expression. A positive expression correlation between on-line and off-line data was obtained. Protein accretion measured off-line was quantified using both LC-MS and plate reader assays. The potential of such a sensor for many aspects of process development is considerable and we have developed a working system which allows the optimisation of production conditions, for example, linking pH control directly to the fusion protein. Results are also presented that illustrate GFP does not alter the cultivation characteristics of the target protein when compared to the native construct. Whether GFP expressed as a fusion influences the solubility of the target protein is also discussed.
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Affiliation(s)
- Jo J Jones
- Gene Expression and Protein Biochemistry, GlaxoSmithKline, New Frontiers Science Park, Coldharbour Road, Harlow, Essex, CM19 5AD, UK.
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Comparative production of green fluorescent protein under co-expression of bacterial hemoglobin inEscherichia coli W3110 using different culture scales. BIOTECHNOL BIOPROC E 2004. [DOI: 10.1007/bf02942343] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
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Seo JH, Li L, Yeo JS, Cha HJ. Baculoviral polyhedrin as a novel fusion partner for formation of inclusion body in Escherichia coli. Biotechnol Bioeng 2004; 84:467-73. [PMID: 14574705 DOI: 10.1002/bit.10798] [Citation(s) in RCA: 14] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
Abstract
Baculoviral polyhedrin, which originated from Autographa californica nuclear polyhedrosis virus (AcNPV), was employed for the first time as a novel fusion partner for expression of foreign proteins in an Escherichia coli system. We characterized the expression of recombinant polyhedrin protein fused to green fluorescent protein (GFP). The polyhedrin fusion protein ( approximately 58 kDa) was successfully expressed as an insoluble inclusion body comprising approximately 30% of the total cellular protein. The E. coli expressing polyhedrin-GFP fusion protein showed higher cell growth ( approximately 1.8-fold) and higher GFP yield ( approximately 3.5-fold) than the strain expressing soluble single GFP. Interestingly, the polyhedrin fusion portion showed almost the same characteristics as the native baculoviral polyhedrin; it was rapidly solubilized under alkaline conditions, similar to the conditions found in the insect midgut. In addition, the polyhedrin fusion portion was rapidly digested by alkaline proteases in insect Plutella xylostella midgut as well as by alpha-chymotrypsin, a protease that has similar properties to insect midgut polyhedra-associated alkaline proteases. These unique properties suggest that baculoviral polyhedrin might be an advantageous fusion partner for production of foreign proteins, especially harmful proteins, in E. coli expression systems.
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Affiliation(s)
- Jeong Hyun Seo
- Department of Chemical Engineering, Pohang University of Science and Technology, Pohang 790-784, South Korea
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