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Ribeiro J, Luís MÂ, Rodrigues B, Santos FM, Mesquita J, Boto R, Tomaz CT. Cryogels and Monoliths: Promising Tools for Chromatographic Purification of Nucleic Acids. Gels 2024; 10:198. [PMID: 38534616 DOI: 10.3390/gels10030198] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/17/2024] [Revised: 03/09/2024] [Accepted: 03/11/2024] [Indexed: 03/28/2024] Open
Abstract
The increasing demand for highly pure biopharmaceuticals has put significant pressure on the biotechnological industry to innovate in production and purification processes. Nucleic acid purification, crucial for gene therapy and vaccine production, presents challenges due to the unique physical and chemical properties of these molecules. Meeting regulatory standards necessitates large quantities of biotherapeutic agents of high purity. While conventional chromatography offers versatility and efficiency, it suffers from drawbacks like low flow rates and binding capacity, as well as high mass transfer resistance. Recent advancements in continuous beds, including monoliths and cryogel-based systems, have emerged as promising solutions to overcome these limitations. This review explores and evaluates the latest progress in chromatography utilizing monolithic and cryogenic supports for nucleic acid purification.
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Affiliation(s)
- João Ribeiro
- CICS-UBI-Health Sciences Research Centre, University of Beira Interior, 6201-506 Covilhã, Portugal
- Department of Chemistry, University of Beira Interior, Rua Marquês de Ávila e Bolama, 6201-001 Covilhã, Portugal
| | - Marco  Luís
- CICS-UBI-Health Sciences Research Centre, University of Beira Interior, 6201-506 Covilhã, Portugal
- Department of Chemistry, University of Beira Interior, Rua Marquês de Ávila e Bolama, 6201-001 Covilhã, Portugal
| | - Bruno Rodrigues
- CICS-UBI-Health Sciences Research Centre, University of Beira Interior, 6201-506 Covilhã, Portugal
- Department of Chemistry, University of Beira Interior, Rua Marquês de Ávila e Bolama, 6201-001 Covilhã, Portugal
| | - Fátima Milhano Santos
- Functional Proteomics Laboratory, Centro Nacional de Biotecnología, Consejo Superior de Investigaciones Científicas (CSIC), Calle Darwin 3, Campus de Cantoblanco, 28049 Madrid, Spain
| | - Joana Mesquita
- CICS-UBI-Health Sciences Research Centre, University of Beira Interior, 6201-506 Covilhã, Portugal
| | - Renato Boto
- CICS-UBI-Health Sciences Research Centre, University of Beira Interior, 6201-506 Covilhã, Portugal
- Department of Chemistry, University of Beira Interior, Rua Marquês de Ávila e Bolama, 6201-001 Covilhã, Portugal
| | - Cândida Teixeira Tomaz
- CICS-UBI-Health Sciences Research Centre, University of Beira Interior, 6201-506 Covilhã, Portugal
- Department of Chemistry, University of Beira Interior, Rua Marquês de Ávila e Bolama, 6201-001 Covilhã, Portugal
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2
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Matos T, Hoying D, Kristopeit A, Wenger M, Joyce J. Continuous multi-membrane chromatography of large viral particles. J Chromatogr A 2023; 1705:464194. [PMID: 37419021 DOI: 10.1016/j.chroma.2023.464194] [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: 04/09/2023] [Revised: 06/30/2023] [Accepted: 07/02/2023] [Indexed: 07/09/2023]
Abstract
Continuous multi-column chromatography (CMCC) has been successfully implemented to address biopharmaceutical biomolecule instability, to improve process efficiency, and to reduce facility footprint and capital cost. This paper explores the implementation of a continuous multi-membrane chromatography (CMMC) process, using four membrane units, for a large viral particle in just few weeks. CMMC improves the efficiency of the chromatography step by enabling higher loads with smaller membranes for multiple cycles of column use and enables steady-state continuous bioprocessing. The separation performance of CMMC was compared to a conventional batch chromatographic capture step used at full manufacturing scale. The product step yield was 80% using CMMC versus 65% in batch mode while increasing slightly the relative purity. Furthermore, the total amount of membrane area required for the CMMC approach was approximately 10% of the area needed for batch operation, while realizing similar processing times. Since CMMC uses smaller membrane sizes, it can take advantage of the high flow rates achievable for membrane chromatography that are not typically possible at larger membrane scales due to skid flow rate limitations. As such, CMMC offers the potential for more efficient and cost-effective purification trains.
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Affiliation(s)
- Tiago Matos
- Vaccine Bioprocess Research and Development, Merck & Co., Inc., West Point, PA 19486, United States.
| | - David Hoying
- Vaccine Bioprocess Research and Development, Merck & Co., Inc., West Point, PA 19486, United States
| | - Adam Kristopeit
- Vaccine Bioprocess Research and Development, Merck & Co., Inc., West Point, PA 19486, United States
| | - Marc Wenger
- Vaccine Bioprocess Research and Development, Merck & Co., Inc., West Point, PA 19486, United States
| | - Joseph Joyce
- Vaccine Bioprocess Research and Development, Merck & Co., Inc., West Point, PA 19486, United States
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3
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Talebnia F, Pushparajah D, Chandrasekaran S, Hersch SJ, Nafissi N, Slavcev R. Application of an electro elution system for direct purification of linear covalently closed DNA fragments. J Chromatogr B Analyt Technol Biomed Life Sci 2023; 1218:123622. [PMID: 36842293 DOI: 10.1016/j.jchromb.2023.123622] [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: 11/14/2022] [Revised: 01/23/2023] [Accepted: 01/25/2023] [Indexed: 02/10/2023]
Abstract
Gene therapy is a powerful treatment modality. Non-viral gene therapy vectors power one arm of this important approach, due to their enhanced safety profile compared to their viral counterparts. New non-viral approaches continue to be developed, but purification can bottleneck the scaleup and cost-effectiveness and quality of some of these advanced vectors. We require more advanced purification and separation techniques compared to conventional methods to maximize resolution in a scalable manner. The Prep Cell system is a continuous electro elution system that contains a circular gel casting tube where DNA mixtures can be run through and subsequently migrate into an elution chamber, to be eluted by a peristaltic pump. This DNA separation and purification process confers advantages over other conventional methods, including i) the elimination of multiple downstream purification process requirements; ii) its ability to be applied in mid-scale settings, and iii), its high-resolution power. In this study, we assessed the ability of this Prep Cell Model 491 system to purify a novel type of non-viral linear covalently closed (LCC) DNA minivector (ministring DNA) from its precursor parent plasmid DNA and process by-product DNA species by analyzing for effective separation via agarose gel electrophoresis, recovery yield, single enzyme digestion, and quality control assessments. Overall, effective separation and resolution of mini-DNA vectors was obtained using the Prep Cell system, conferring its potential to be applied towards mid-scale purification of DNA vectors for a variety of research, and eventually, clinical applications.
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Affiliation(s)
- F Talebnia
- Mediphage Bioceuticals, Inc. 661 University Avenue, Suite 1300, MaRS West Tower, Toronto, ON M5G0B7, Canada
| | - D Pushparajah
- University of Waterloo, 200 University Avenue West, Waterloo, ON N2L 3G1, Canada
| | - S Chandrasekaran
- Mediphage Bioceuticals, Inc. 661 University Avenue, Suite 1300, MaRS West Tower, Toronto, ON M5G0B7, Canada
| | - S J Hersch
- Mediphage Bioceuticals, Inc. 661 University Avenue, Suite 1300, MaRS West Tower, Toronto, ON M5G0B7, Canada
| | - N Nafissi
- Mediphage Bioceuticals, Inc. 661 University Avenue, Suite 1300, MaRS West Tower, Toronto, ON M5G0B7, Canada.
| | - R Slavcev
- Mediphage Bioceuticals, Inc. 661 University Avenue, Suite 1300, MaRS West Tower, Toronto, ON M5G0B7, Canada; University of Waterloo, 200 University Avenue West, Waterloo, ON N2L 3G1, Canada.
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4
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Černigoj U, Vidič J, Ferjančič A, Sinur U, Božič K, Mencin N, Martinčič Celjar A, Gagnon P, Štrancar A. Guanidine improves DEAE anion exchange-based analytical separation of plasmid DNA. Electrophoresis 2021; 42:2619-2625. [PMID: 34569093 DOI: 10.1002/elps.202100210] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/06/2021] [Revised: 09/04/2021] [Accepted: 09/17/2021] [Indexed: 11/10/2022]
Abstract
Elution of strong and weak anion exchangers with sodium chloride gradients is commonly employed for analysis of sample mixtures containing different isomers of plasmid DNA. Gradient elution of a weak anion exchanger (diethylaminoethyl) in the presence of guanidine hydrochloride (Gdn) roughly doubles resolution between open-circular (oc) and supercoiled (sc) isomers. It also improves resolution among sc, linear, and multimeric/aggregated forms. Sharper elution peaks with less tailing increase sensitivity about 30%. However, elution with an exclusively Gdn gradient to 900 mM causes more than 10% loss of plasmid. Elution with a sodium chloride gradient while maintaining Gdn at a level concentration of 300 mM achieves close to 100% recovery of sc plasmid while maintaining the separation improvements achieved by exclusively Gdn elution. Corresponding improvements in separation performance are not observed on a strong (quaternary amine) anion exchanger. Other chaotropic salts do not produce a favorable result on either exchanger, nor does the inclusion of surfactants or EDTA. Selectivity of the diethylaminoethyl-Gdn method is orthogonal to electrophoresis, but with better quantification than agarose electrophoresis, better quantitative accuracy than CE, and resolution approaching CE.
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Affiliation(s)
- Urh Černigoj
- BIA Separations d.o.o., a Sartorius company, Ajdovščina, Slovenia
| | - Jana Vidič
- BIA Separations d.o.o., a Sartorius company, Ajdovščina, Slovenia
| | - Ana Ferjančič
- BIA Separations d.o.o., a Sartorius company, Ajdovščina, Slovenia
| | - Urša Sinur
- BIA Separations d.o.o., a Sartorius company, Ajdovščina, Slovenia
| | - Klemen Božič
- BIA Separations d.o.o., a Sartorius company, Ajdovščina, Slovenia
| | - Nina Mencin
- BIA Separations d.o.o., a Sartorius company, Ajdovščina, Slovenia
| | | | - Pete Gagnon
- BIA Separations d.o.o., a Sartorius company, Ajdovščina, Slovenia
| | - Aleš Štrancar
- BIA Separations d.o.o., a Sartorius company, Ajdovščina, Slovenia
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Alves CPA, Prazeres DMF, Monteiro GA. Minicircle Biopharmaceuticals–An Overview of Purification Strategies. FRONTIERS IN CHEMICAL ENGINEERING 2021. [DOI: 10.3389/fceng.2020.612594] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/02/2023] Open
Abstract
Minicircles are non-viral delivery vectors with promising features for biopharmaceutical applications. These vectors are plasmid-derived circular DNA molecules that are obtained in vivo in Escherichia coli by the intramolecular recombination of a parental plasmid, which generates a minicircle containing the eukaryotic therapeutic cassette of interest and a miniplasmid containing the prokaryotic backbone. The production process results thus in a complex mixture, which hinders the isolation of minicircle molecules from other DNA molecules. Several strategies have been proposed over the years to meet the challenge of purifying and obtaining high quality minicircles in compliance with the regulatory guidelines for therapeutic use. In minicircle purification, the characteristics of the strain and parental plasmid used have a high impact and strongly affect the purification strategy that can be applied. This review summarizes the different methods developed so far, focusing not only on the purification method itself but also on its dependence on the upstream production strategy used.
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6
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Valente JFA, Queiroz JA, Sousa F. Dilemma on plasmid DNA purification: binding capacity vs selectivity. J Chromatogr A 2020; 1637:461848. [PMID: 33421679 DOI: 10.1016/j.chroma.2020.461848] [Citation(s) in RCA: 13] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/13/2020] [Revised: 12/21/2020] [Accepted: 12/23/2020] [Indexed: 10/22/2022]
Abstract
Plasmid DNA chromatography is a powerful field in constant development and evolution. The use of this technique is considered mandatory in the production of an efficient and safe formulation to be applied for plasmid-mediated gene therapy. Concerning this, the search for an ideal chromatographic support/ligand combination motivated scientist to pursue a continuous improvement on the plasmid chromatography performance, looking for a progression on the ligands and supports used. The present review explores the different approaches used over time to purify plasmid DNA, ambitioning both high recovery and high purity levels. Overall, it is presented a critical discussion relying on the relevance of the binding capacity versus selectivity of the supports.
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Affiliation(s)
- J F A Valente
- CICS-UBI - Health Sciences Research Centre, Universidade da Beira Interior, Avenida Infante D. Henrique, 6200-506Covilhã, Portugal; CDRSP-IPLEIRIA - Centre for Rapid and Sustainable Product Development, Instituto Politécnico de Leiria, Rua de Portugal - Zona Industrial, 2430-028Marinha Grande, Portugal
| | - J A Queiroz
- CICS-UBI - Health Sciences Research Centre, Universidade da Beira Interior, Avenida Infante D. Henrique, 6200-506Covilhã, Portugal
| | - F Sousa
- CICS-UBI - Health Sciences Research Centre, Universidade da Beira Interior, Avenida Infante D. Henrique, 6200-506Covilhã, Portugal.
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7
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Kazarian AA, Barnhart W, Campuzano IDG, Cabrera J, Fitch T, Long J, Sham K, Wu B, Murray JK. Purification of guanine-quadruplex using monolithic stationary phase under ion-exchange conditions. J Chromatogr A 2020; 1634:461633. [PMID: 33189959 DOI: 10.1016/j.chroma.2020.461633] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/07/2020] [Revised: 10/17/2020] [Accepted: 10/19/2020] [Indexed: 02/07/2023]
Abstract
The current study investigates a method for purification of the G-quadruplex secondary structure, naturally formed by a guanine-rich 21-mer oligonucleotide strand using a monolithic convective interaction media-quaternary amine (CIM-QA) column under ion-exchange conditions. The monolithic support was initially evaluated on a preparative scale against a highly efficient TSKgel SuperQ-5PW ion-exchange support designed for oligonucleotide purification. The CIM analogue demonstrated clear advantages over the particle-based support on the basis of rapid separation times, while also affording high purity of the G-quadruplex. Various parameters were investigated including the type of mobile phase anion, cation, pH and injection load to induce and control quadruplex formation, as well as enhance chromatographic separation and final purity. Potassium afforded the most prominent quadruplex formation, yet sodium allowed for the highest resolution and purity to be achieved with a 30 mg injection on an 8 ml CIM-QA monolithic column. This method was applied to purify in excess of 300 mg of the quadruplex, with excellent retention time precision of under 1% RSD. Native mass spectrometry was utilized to confirm the identity of the intact G-quadruplex under non-denaturing conditions, while ion-pairing reversed-phase methods confirmed the presence of the single-stranded oligonucleotide in high purity (92%) under denaturing conditions. The key advantage of the purification method enables isolation of the G-quadruplex in its native state on a milli-gram scale, allowing structural characterization to further our knowledge of its role and function. The G-quadruplex can also be subsequently denaturated at elevated temperature causing single strand formation if additional reactions are to be pursued, such as annealing to form a duplex, and evaluation in in vitro or in vivo studies.
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Affiliation(s)
| | - Wesley Barnhart
- Amgen Research, Amgen, Inc. One Amgen Center Drive, Thousand Oaks, CA, 91320, USA
| | - Iain D G Campuzano
- Amgen Research, Amgen, Inc. One Amgen Center Drive, Thousand Oaks, CA, 91320, USA
| | - Jeremy Cabrera
- Amgen Research, Amgen, Inc. One Amgen Center Drive, Thousand Oaks, CA, 91320, USA
| | - Theodore Fitch
- Amgen Research, Amgen, Inc. One Amgen Center Drive, Thousand Oaks, CA, 91320, USA
| | - Jason Long
- Amgen Research, Amgen, Inc. One Amgen Center Drive, Thousand Oaks, CA, 91320, USA
| | - Kelvin Sham
- Amgen Research, Amgen, Inc. One Amgen Center Drive, Thousand Oaks, CA, 91320, USA
| | - Bin Wu
- Amgen Research, Amgen, Inc. One Amgen Center Drive, Thousand Oaks, CA, 91320, USA
| | - Justin K Murray
- Amgen Research, Amgen, Inc. One Amgen Center Drive, Thousand Oaks, CA, 91320, USA
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8
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Silva-Santos AR, Rosa SS, Prazeres DMF, Azevedo AM. Purification of Plasmid DNA by Multimodal Chromatography. Methods Mol Biol 2020; 2197:193-205. [PMID: 32827138 DOI: 10.1007/978-1-0716-0872-2_10] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/25/2023]
Abstract
Multimodal (MM) chromatography can be described as a chromatographic method that uses more than one mode of interaction between the target molecule and the ligand to achieve a particular separation. Owing to its advantages over traditional chromatography, such as higher selectivity and capacity, its application for the purification of biomolecules with therapeutic interest has been widely studied. The potential of MM chromatography for the purification of plasmid DNA has been demonstrated. In this chapter, a downstream process for the purification of supercoiled plasmid DNA using MM chromatography with two different ligands-Capto™ adhere and PPA HyperCell™-is described. In both the cases, the purification process yields a high purity and highly homogeneous sc plasmid product.
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Affiliation(s)
- A Rita Silva-Santos
- Department of Bioengineering, Institute for Bioengineering and Biosciences, Instituto Superior Técnico, Universidade de Lisboa, Lisbon, Portugal
| | - Sara Sousa Rosa
- Department of Bioengineering, Institute for Bioengineering and Biosciences, Instituto Superior Técnico, Universidade de Lisboa, Lisbon, Portugal
| | - Duarte Miguel F Prazeres
- Department of Bioengineering, Institute for Bioengineering and Biosciences, Instituto Superior Técnico, Universidade de Lisboa, Lisbon, Portugal
| | - Ana M Azevedo
- Department of Bioengineering, Institute for Bioengineering and Biosciences, Instituto Superior Técnico, Universidade de Lisboa, Lisbon, Portugal.
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9
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Schneier M, Razdan S, Miller AM, Briceno ME, Barua S. Current technologies to endotoxin detection and removal for biopharmaceutical purification. Biotechnol Bioeng 2020; 117:2588-2609. [PMID: 32333387 DOI: 10.1002/bit.27362] [Citation(s) in RCA: 48] [Impact Index Per Article: 12.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/30/2019] [Revised: 04/20/2020] [Accepted: 04/22/2020] [Indexed: 12/21/2022]
Abstract
Endotoxins are the major contributors to the pyrogenic response caused by contaminated pharmaceutical products, formulation ingredients, and medical devices. Recombinant biopharmaceutical products are manufactured using living organisms, including Gram-negative bacteria. Upon the death of a Gram-negative bacterium, endotoxins (also known as lipopolysaccharides) in the outer cell membrane are released into the lysate where they can interact with and form bonds with biomolecules, including target therapeutic compounds. Endotoxin contamination of biologic products may also occur through water, raw materials such as excipients, media, additives, sera, equipment, containers closure systems, and expression systems used in manufacturing. The manufacturing process is, therefore, in critical need of methods to reduce and remove endotoxins by monitoring raw materials and in-process intermediates at critical steps, in addition to final drug product release testing. This review paper highlights a discussion on three major topics about endotoxin detection techniques, upstream processes for the production of therapeutic molecules, and downstream processes to eliminate endotoxins during product purification. Finally, we have evaluated the effectiveness of endotoxin removal processes from a perspective of high purity and low cost.
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Affiliation(s)
- Mason Schneier
- Department of Chemical and Biochemical Engineering, Missouri University of Science and Technology, Rolla, Missouri
| | - Sidharth Razdan
- Department of Chemical and Biochemical Engineering, Missouri University of Science and Technology, Rolla, Missouri
| | - Allison M Miller
- Department of Chemical and Biochemical Engineering, Missouri University of Science and Technology, Rolla, Missouri
| | - Maria E Briceno
- Department of Chemical and Biochemical Engineering, Missouri University of Science and Technology, Rolla, Missouri
| | - Sutapa Barua
- Department of Chemical and Biochemical Engineering, Missouri University of Science and Technology, Rolla, Missouri
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10
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John Ho LS, Fogel R, Limson JL. Generation and screening of histamine-specific aptamers for application in a novel impedimetric aptamer-based sensor. Talanta 2020; 208:120474. [DOI: 10.1016/j.talanta.2019.120474] [Citation(s) in RCA: 16] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/22/2019] [Revised: 10/11/2019] [Accepted: 10/12/2019] [Indexed: 01/29/2023]
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11
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Santos T, Pereira P, Queiroz JA, Cruz C, Sousa F. Plasmid production and purification: An integrated experiment-based biochemistry and biotechnology laboratory course. BIOCHEMISTRY AND MOLECULAR BIOLOGY EDUCATION : A BIMONTHLY PUBLICATION OF THE INTERNATIONAL UNION OF BIOCHEMISTRY AND MOLECULAR BIOLOGY 2019; 47:638-643. [PMID: 31390150 DOI: 10.1002/bmb.21290] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/07/2018] [Revised: 07/14/2019] [Accepted: 07/19/2019] [Indexed: 06/10/2023]
Abstract
This laboratory experiment describes the production and purification of plasmid DNA for undergraduate biochemistry and biotechnology courses. This experiment performed in a one-week period includes the protocols for plasmid pVAX1-LacZ production in Escherichia coli DH5α cells and subsequent purification of supercoiled pVAX1-LacZ. Firstly, the students use a growth medium that favors the replication of the plasmid resulting in a higher plasmid production during exponential growth. Afterwards, alkaline lysis is done to disrupt the bacterial cells and recover pVAX1-LacZ plasmid. Lastly, they perform the purification of pVAX1-LacZ supercoiled isoform by L-histidine chromatography, followed by agarose gel electrophoresis to characterize the separation of supercoiled isoform from contaminants. The proposed experiment provides an opportunity for students to acquire these skills that are routinely used in biochemistry and biotechnology laboratories. © 2019 International Union of Biochemistry and Molecular Biology, 47(6):638-643, 2019.
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Affiliation(s)
- Tiago Santos
- CICS-UBI-Centro de Investigação em Ciências da Saúde, Universidade da Beira Interior, Covilhã, Portugal
| | - Patrícia Pereira
- CICS-UBI-Centro de Investigação em Ciências da Saúde, Universidade da Beira Interior, Covilhã, Portugal
| | - João A Queiroz
- CICS-UBI-Centro de Investigação em Ciências da Saúde, Universidade da Beira Interior, Covilhã, Portugal
| | - Carla Cruz
- CICS-UBI-Centro de Investigação em Ciências da Saúde, Universidade da Beira Interior, Covilhã, Portugal
| | - Fani Sousa
- CICS-UBI-Centro de Investigação em Ciências da Saúde, Universidade da Beira Interior, Covilhã, Portugal
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12
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Silva-Santos AR, Alves CP, Monteiro G, Azevedo AM, Prazeres DMF. Multimodal chromatography of supercoiled minicircles: A closer look into DNA-ligand interactions. Sep Purif Technol 2019. [DOI: 10.1016/j.seppur.2018.11.015] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/15/2023]
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13
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Matos T, Bülow L. Separation of Nucleic Acids Using Single- and Multimodal Chromatography. Curr Protein Pept Sci 2018; 20:49-55. [DOI: 10.2174/1389203718666171024112556] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/01/2017] [Revised: 07/01/2017] [Accepted: 09/22/2017] [Indexed: 12/23/2022]
Abstract
The needs for purified nucleic acids for preparative and analytical applications have increased
constantly, demanding for the development of new and more efficient methods for their recovery and
isolation. DNA molecules harbour some intrinsic chemical properties that render them suitable for
chromatographic separations. These include a negatively charged phosphate backbone as well as a hydrophobic
character originating mainly from the major groove of DNA which exposes the base pairs on
the surface of the molecule. In addition, single stranded DNA often allows for a free exposure of the hydrophobic
aromatic bases. In this review, multimodal chromatography (MMC) has been evaluated as an
alternative tool for complex separations of nucleic acids. MMC embraces more than one kind of interaction
between the chromatographic ligand and the target molecules. These resins have often proved superior
to conventional single-mode chromatographic materials for DNA isolation, including, e.g., the purification
of plasmid DNA from crude cell lysates and for the preparation of DNA fragments before or
after a polymerase chain reaction (PCR).
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Affiliation(s)
- Tiago Matos
- Pure and Applied Biochemistry, Chemical Center, Lund University, Lund, Sweden
| | - Leif Bülow
- Pure and Applied Biochemistry, Chemical Center, Lund University, Lund, Sweden
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14
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Abdulrahman A, Ghanem A. Recent advances in chromatographic purification of plasmid DNA for gene therapy and DNA vaccines: A review. Anal Chim Acta 2018; 1025:41-57. [PMID: 29801607 DOI: 10.1016/j.aca.2018.04.001] [Citation(s) in RCA: 31] [Impact Index Per Article: 5.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/20/2017] [Revised: 04/03/2018] [Accepted: 04/05/2018] [Indexed: 12/16/2022]
Abstract
The wide spread of infectious diseases have provoked the scientists to develop new types of vaccines. Among the different types of vaccines, the recently discovered plasmid DNA vaccines, have gained tremendous attentions in the last few decades as a modern approach of vaccination. The scientific interest in plasmid DNA vaccines is attributed to their prominent efficacy as they trigger not only the cellular immune response but also the humoral immune responses. Moreover, pDNA vaccines are easily to be stored, shipped and produced. However, the purification of the pDNA vaccines is a crucial step in their production and administration, which is usually conducted by different chromatographic techniques. This review summarizes the most recent chromatographic purification methods provided in the literature during the last five years following our last review in 2013, including affinity chromatography, hydrophobic interaction chromatography, ion exchange chromatography, multimodal chromatography, sample displacement chromatography and miscellaneous chromatographic methods.
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Affiliation(s)
- Ahmed Abdulrahman
- Chirality Program, Faculty of Science and Technology, University of Canberra, Australian Capital Territory (ACT), 2617, Australia
| | - Ashraf Ghanem
- Chirality Program, Faculty of Science and Technology, University of Canberra, Australian Capital Territory (ACT), 2617, Australia. http://www.chiralitygroup.com
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15
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Silva-Santos AR, Alves CP, Prazeres DMF, Azevedo AM. A process for supercoiled plasmid DNA purification based on multimodal chromatography. Sep Purif Technol 2017. [DOI: 10.1016/j.seppur.2017.03.042] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/19/2022]
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16
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Günal G, Kip Ç, Eda Öğüt S, İlhan H, Kibar G, Tuncel A. Comparative DNA isolation behaviours of silica and polymer based sorbents in batch fashion: monodisperse silica microspheres with bimodal pore size distribution as a new sorbent for DNA isolation. ARTIFICIAL CELLS NANOMEDICINE AND BIOTECHNOLOGY 2017; 46:178-184. [DOI: 10.1080/21691401.2017.1304404] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/15/2023]
Affiliation(s)
- Gülçin Günal
- Bioengineering Division, Hacettepe University, Ankara, Turkey
| | - Çiğdem Kip
- Chemical Engineering Department, Hacettepe University, Ankara, Turkey
| | - S. Eda Öğüt
- Bioengineering Division, Hacettepe University, Ankara, Turkey
| | - Hasan İlhan
- Division of Nanotechnology and Nanomedicine, Hacettepe University, Ankara, Turkey
| | - Güneş Kibar
- Bioengineering Division, Hacettepe University, Ankara, Turkey
| | - Ali Tuncel
- Bioengineering Division, Hacettepe University, Ankara, Turkey
- Division of Nanotechnology and Nanomedicine, Hacettepe University, Ankara, Turkey
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17
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Matos T, Mohamed ET, Queiroz JA, Bülow L. Capto™ Resins for Chromatography of DNA: A Minor Difference in Ligand Composition Greatly Influences the Separation of Guanidyl-Containing Fragments. Chromatographia 2016. [DOI: 10.1007/s10337-016-3148-3] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022]
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18
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Silva-Santos AR, Alves CP, Prazeres DMF, Azevedo AM. Separation of plasmid DNA topoisomers by multimodal chromatography. Anal Biochem 2016; 503:68-70. [DOI: 10.1016/j.ab.2016.03.012] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/26/2016] [Revised: 03/08/2016] [Accepted: 03/18/2016] [Indexed: 11/25/2022]
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19
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Bicho D, Caramelo-Nunes C, Sousa A, Sousa F, Queiroz J, Tomaz C. Purification of influenza deoxyribonucleic acid-based vaccine using agmatine monolith. J Chromatogr B Analyt Technol Biomed Life Sci 2016; 1012-1013:153-61. [DOI: 10.1016/j.jchromb.2015.12.036] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/24/2015] [Revised: 12/14/2015] [Accepted: 12/18/2015] [Indexed: 01/04/2023]
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20
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Bicho D, Santos B, Caramelo-Nunes C, Sousa A, Sousa F, Queiroz J, Tomaz C. Application of ethylenediamine monolith to purify a hemagglutinin influenza deoxyribonucleic acid-based vaccine. Sep Purif Technol 2015. [DOI: 10.1016/j.seppur.2015.09.046] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/28/2022]
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21
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Matos T, Silva G, Queiroz J, Bülow L. Preparative isolation of polymerase chain reaction products using mixed-mode chromatography. Anal Biochem 2015; 489:73-5. [DOI: 10.1016/j.ab.2015.08.009] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/03/2015] [Revised: 08/05/2015] [Accepted: 08/06/2015] [Indexed: 01/07/2023]
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22
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Černigoj U, Martinuč U, Cardoso S, Sekirnik R, Krajnc NL, Štrancar A. Sample displacement chromatography of plasmid DNA isoforms. J Chromatogr A 2015; 1414:103-9. [DOI: 10.1016/j.chroma.2015.08.035] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/10/2015] [Revised: 08/13/2015] [Accepted: 08/14/2015] [Indexed: 10/23/2022]
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23
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Cardoso S, Černigoj U, Lendero Krajnc N, Štrancar A. Chromatographic purification of plasmid DNA on hydrophobic methacrylate monolithic supports. Sep Purif Technol 2015. [DOI: 10.1016/j.seppur.2015.04.018] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
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24
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Sousa Â, Pereira P, Sousa F, Queiroz JA. Binding mechanisms for histamine and agmatine ligands in plasmid deoxyribonucleic acid purifications. J Chromatogr A 2014; 1366:110-9. [DOI: 10.1016/j.chroma.2014.09.031] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/12/2014] [Revised: 09/01/2014] [Accepted: 09/13/2014] [Indexed: 02/02/2023]
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25
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Cruz C, Sousa Â, Mota É, Sousa F, Queiroz JA. Quantitative analysis of histamine- and agmatine–DNA interactions using surface plasmon resonance. Int J Biol Macromol 2014; 70:131-7. [DOI: 10.1016/j.ijbiomac.2014.06.044] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/30/2014] [Revised: 06/23/2014] [Accepted: 06/24/2014] [Indexed: 10/25/2022]
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26
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Sousa A, Almeida A, Černigoj U, Sousa F, Queiroz J. Histamine monolith versatility to purify supercoiled plasmid deoxyribonucleic acid from Escherichia coli lysate. J Chromatogr A 2014; 1355:125-33. [DOI: 10.1016/j.chroma.2014.06.003] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/01/2014] [Revised: 05/29/2014] [Accepted: 06/02/2014] [Indexed: 12/28/2022]
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27
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Matos T, Queiroz JA, Bülow L. Plasmid DNA purification using a multimodal chromatography resin. J Mol Recognit 2014; 27:184-9. [DOI: 10.1002/jmr.2349] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/20/2013] [Revised: 11/25/2013] [Accepted: 12/02/2013] [Indexed: 11/09/2022]
Affiliation(s)
- Tiago Matos
- Department of Pure and Applied Biochemistry; Lund University; SE 22100 Lund Sweden
- CICS - Health Sciences Research Centre; University of Beira Interior; 6201-001 Covilhã Portugal
| | - João A. Queiroz
- CICS - Health Sciences Research Centre; University of Beira Interior; 6201-001 Covilhã Portugal
| | - Leif Bülow
- Department of Pure and Applied Biochemistry; Lund University; SE 22100 Lund Sweden
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Caramelo-Nunes C, Almeida P, Marcos J, Tomaz C. Aromatic ligands for plasmid deoxyribonucleic acid chromatographic analysis and purification: An overview. J Chromatogr A 2014; 1327:1-13. [DOI: 10.1016/j.chroma.2013.12.057] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/08/2013] [Revised: 12/19/2013] [Accepted: 12/20/2013] [Indexed: 12/25/2022]
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29
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Gabor B, Černigoj U, Barut M, Štrancar A. Reversible entrapment of plasmid deoxyribonucleic acid on different chromatographic supports. J Chromatogr A 2013; 1311:106-14. [DOI: 10.1016/j.chroma.2013.08.075] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/16/2013] [Revised: 08/02/2013] [Accepted: 08/19/2013] [Indexed: 12/11/2022]
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