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Pandey H, Tang DWT, Wong SH, Lal D. Gut Microbiota in Colorectal Cancer: Biological Role and Therapeutic Opportunities. Cancers (Basel) 2023; 15:cancers15030866. [PMID: 36765824 PMCID: PMC9913759 DOI: 10.3390/cancers15030866] [Citation(s) in RCA: 19] [Impact Index Per Article: 19.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/29/2022] [Revised: 01/23/2023] [Accepted: 01/24/2023] [Indexed: 02/03/2023] Open
Abstract
Colorectal cancer (CRC) is the second-leading cause of cancer-related deaths worldwide. While CRC is thought to be an interplay between genetic and environmental factors, several lines of evidence suggest the involvement of gut microbiota in promoting inflammation and tumor progression. Gut microbiota refer to the ~40 trillion microorganisms that inhabit the human gut. Advances in next-generation sequencing technologies and metagenomics have provided new insights into the gut microbial ecology and have helped in linking gut microbiota to CRC. Many studies carried out in humans and animal models have emphasized the role of certain gut bacteria, such as Fusobacterium nucleatum, enterotoxigenic Bacteroides fragilis, and colibactin-producing Escherichia coli, in the onset and progression of CRC. Metagenomic studies have opened up new avenues for the application of gut microbiota in the diagnosis, prevention, and treatment of CRC. This review article summarizes the role of gut microbiota in CRC development and its use as a biomarker to predict the disease and its potential therapeutic applications.
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Affiliation(s)
- Himani Pandey
- Redcliffe Labs, Electronic City, Noida 201301, India
| | - Daryl W. T. Tang
- School of Biological Sciences, Nanyang Technological University, Singapore 308232, Singapore
| | - Sunny H. Wong
- Centre for Microbiome Medicine, Lee Kong Chian School of Medicine, Nanyang Technological University, Singapore 308232, Singapore
- Correspondence: (S.H.W.); (D.L.)
| | - Devi Lal
- Department of Zoology, Ramjas College, University of Delhi, Delhi 110007, India
- Correspondence: (S.H.W.); (D.L.)
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2
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Almeida AM, Costa D, Simões AR, Queiroz JA, Sousa F, Sousa Â. Enhancement of a biotechnological platform for the purification and delivery of a human papillomavirus supercoiled plasmid DNA vaccine. N Biotechnol 2020; 59:1-9. [PMID: 32622863 DOI: 10.1016/j.nbt.2020.04.003] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/26/2019] [Revised: 03/30/2020] [Accepted: 04/13/2020] [Indexed: 01/21/2023]
Abstract
New biotechnological strategies are being explored, aimed at rapid and economic manufacture of large quantities of DNA vaccines with the required purity for therapeutic applications, as well as their correct delivery as biopharmaceuticals to target cells. This report describes the purification of supercoiled (sc) HPV-16 E6/E7 plasmid DNA (pDNA) vaccine from a bacterial lysate, using an arginine-based monolith, presenting a spacer arm in its configuration. To enhance the performance of the purification process, monolith modification with the spacer arm can improve accessibility of the arginine ligand. By using a low NaCl concentration at pH 7.0, a condition to eliminate the RNA impurity directly in the flow through was established. The pH increase to 7.5 allowed the elimination of non-functional pDNA isoforms, the sc pDNA being recovered by increasing the ionic strength. As well as a binding capacity of 2.53 mg/mL obtained with a pre-purified sc pDNA sample, the column also purified sc pDNA from high lysate loading, with capacities above 1 mg/mL. Due to the sample displacement phenomena, non-functional pDNA isoforms were eliminated throughout column loading, favoring the degree of purity of final sc pDNA of 93.3%-98.5%. Thereafter, purified sc pDNA was successfully encapsulated into CaCO3-gelatin nano-complexes. Delivery of the pDNA-carriers to THP-1 cells was assessed through pDNA cellular uptake evaluation and correct E6 expression was verified by mRNA and protein detection. A biotechnological platform was established for sc pDNA purification and delivery to dendritic cells, stimulating further in vivo studies.
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Affiliation(s)
- Ana M Almeida
- CICS-UBI - Health Sciences Research Centre, University of Beira Interior, Av. Infante D. Henrique, 6200-506 Covilhã, Portugal
| | - Diana Costa
- CICS-UBI - Health Sciences Research Centre, University of Beira Interior, Av. Infante D. Henrique, 6200-506 Covilhã, Portugal
| | - Ana R Simões
- CICS-UBI - Health Sciences Research Centre, University of Beira Interior, Av. Infante D. Henrique, 6200-506 Covilhã, Portugal
| | - João A Queiroz
- CICS-UBI - Health Sciences Research Centre, University of Beira Interior, Av. Infante D. Henrique, 6200-506 Covilhã, Portugal
| | - Fani Sousa
- CICS-UBI - Health Sciences Research Centre, University of Beira Interior, Av. Infante D. Henrique, 6200-506 Covilhã, Portugal
| | - Ângela Sousa
- CICS-UBI - Health Sciences Research Centre, University of Beira Interior, Av. Infante D. Henrique, 6200-506 Covilhã, Portugal.
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3
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Lopez A, Hansmannel F, Kokten T, Bronowicki JP, Melhem H, Sokol H, Peyrin-Biroulet L. Microbiota in digestive cancers: our new partner? Carcinogenesis 2017; 38:1157-1166. [DOI: 10.1093/carcin/bgx087] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/02/2017] [Accepted: 08/09/2017] [Indexed: 01/01/2023] Open
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4
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Gagnière J, Bonnin V, Jarrousse AS, Cardamone E, Agus A, Uhrhammer N, Sauvanet P, Déchelotte P, Barnich N, Bonnet R, Pezet D, Bonnet M. Interactions between microsatellite instability and human gut colonization by Escherichia coli in colorectal cancer. Clin Sci (Lond) 2017; 131:471-485. [PMID: 28093453 DOI: 10.1042/cs20160876] [Citation(s) in RCA: 31] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 08/29/2023]
Abstract
Recent studies suggest that colonization of colonic mucosa by pathogenic Escherichia coli could be involved in the development of colorectal cancer (CRC), especially through the production of genotoxins such as colibactin and/or by interfering with the DNA mismatch repair (MMR) pathway that leads to microsatellite instability (MSI). The present study, performed on 88 CRC patients, revealed a significant increase in E. coli colonization in the MSI CRC phenotype. In the same way, E. coli persistence and internalization were increased in vitro in MMR-deficient cells. Moreover, we demonstrated that colibactin-producing E. coli induce inhibition of the mutL homologue 1 (MLH1) MMR proteins, which could lead to genomic instability. However, colibactin-producing E. coli were more frequently identified in microsatellite stable (MSS) CRC. The present study suggests differences in the involvement of colibactin-producing E. coli in colorectal carcinogenesis according to the CRC phenotype. Further host–pathogen interactions studies should take into account CRC phenotypes.
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Affiliation(s)
- Johan Gagnière
- UMR 1071 Inserm/Université Clermont Auvergne, 63000 Clermont-Ferrand, France
- INRA USC-2018, 63000 Clermont-Ferrand, France
- Department of Digestive Surgery, CHU Clermont-Ferrand, 63000 Clermont-Ferrand, France
| | - Virginie Bonnin
- UMR 1071 Inserm/Université Clermont Auvergne, 63000 Clermont-Ferrand, France
- INRA USC-2018, 63000 Clermont-Ferrand, France
| | | | - Emilie Cardamone
- UMR 1071 Inserm/Université Clermont Auvergne, 63000 Clermont-Ferrand, France
- INRA USC-2018, 63000 Clermont-Ferrand, France
| | - Allison Agus
- UMR 1071 Inserm/Université Clermont Auvergne, 63000 Clermont-Ferrand, France
- INRA USC-2018, 63000 Clermont-Ferrand, France
- Department of Oncogenetic, Centre Jean Perrin, 63000 Clermont-Ferrand, France
| | - Nancy Uhrhammer
- Department of Oncogenetic, Centre Jean Perrin, 63000 Clermont-Ferrand, France
| | - Pierre Sauvanet
- UMR 1071 Inserm/Université Clermont Auvergne, 63000 Clermont-Ferrand, France
- INRA USC-2018, 63000 Clermont-Ferrand, France
- Department of Digestive Surgery, CHU Clermont-Ferrand, 63000 Clermont-Ferrand, France
| | - Pierre Déchelotte
- Department of Pathology, CHU Clermont-Ferrand, 63000 Clermont-Ferrand, France
| | - Nicolas Barnich
- UMR 1071 Inserm/Université Clermont Auvergne, 63000 Clermont-Ferrand, France
- INRA USC-2018, 63000 Clermont-Ferrand, France
| | - Richard Bonnet
- UMR 1071 Inserm/Université Clermont Auvergne, 63000 Clermont-Ferrand, France
- INRA USC-2018, 63000 Clermont-Ferrand, France
- Department of Bacteriology, CHU Clermont-Ferrand, 63000 Clermont-Ferrand, France
| | - Denis Pezet
- UMR 1071 Inserm/Université Clermont Auvergne, 63000 Clermont-Ferrand, France
- INRA USC-2018, 63000 Clermont-Ferrand, France
- Department of Digestive Surgery, CHU Clermont-Ferrand, 63000 Clermont-Ferrand, France
| | - Mathilde Bonnet
- UMR 1071 Inserm/Université Clermont Auvergne, 63000 Clermont-Ferrand, France
- INRA USC-2018, 63000 Clermont-Ferrand, France
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5
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Ferro S, Fabre I, Chenivesse X. Optimizing a Method for the Quantification by Quantitative Real-Time Polymerase Chain Reaction of Host Cell DNA in Plasmid Vector Batches Used in Human Gene Therapy. Hum Gene Ther Methods 2016; 27:159-70. [DOI: 10.1089/hgtb.2015.155] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/21/2022] Open
Affiliation(s)
- Serge Ferro
- Laboratory Controls Division, French National Agency for Medicines and Health Products Safety, Vendargues, France
| | - Isabelle Fabre
- Laboratory Controls Division, French National Agency for Medicines and Health Products Safety, Vendargues, France
| | - Xavier Chenivesse
- Laboratory Controls Division, French National Agency for Medicines and Health Products Safety, Vendargues, France
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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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7
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Gagnière J, Raisch J, Veziant J, Barnich N, Bonnet R, Buc E, Bringer MA, Pezet D, Bonnet M. Gut microbiota imbalance and colorectal cancer. World J Gastroenterol 2016; 22:501-518. [PMID: 26811603 PMCID: PMC4716055 DOI: 10.3748/wjg.v22.i2.501] [Citation(s) in RCA: 489] [Impact Index Per Article: 61.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 04/28/2015] [Revised: 09/06/2015] [Accepted: 10/20/2015] [Indexed: 02/06/2023] Open
Abstract
The gut microbiota acts as a real organ. The symbiotic interactions between resident micro-organisms and the digestive tract highly contribute to maintain the gut homeostasis. However, alterations to the microbiome caused by environmental changes (e.g., infection, diet and/or lifestyle) can disturb this symbiotic relationship and promote disease, such as inflammatory bowel diseases and cancer. Colorectal cancer is a complex association of tumoral cells, non-neoplastic cells and a large amount of micro-organisms, and the involvement of the microbiota in colorectal carcinogenesis is becoming increasingly clear. Indeed, many changes in the bacterial composition of the gut microbiota have been reported in colorectal cancer, suggesting a major role of dysbiosis in colorectal carcinogenesis. Some bacterial species have been identified and suspected to play a role in colorectal carcinogenesis, such as Streptococcus bovis, Helicobacter pylori, Bacteroides fragilis, Enterococcus faecalis, Clostridium septicum, Fusobacterium spp. and Escherichia coli. The potential pro-carcinogenic effects of these bacteria are now better understood. In this review, we discuss the possible links between the bacterial microbiota and colorectal carcinogenesis, focusing on dysbiosis and the potential pro-carcinogenic properties of bacteria, such as genotoxicity and other virulence factors, inflammation, host defenses modulation, bacterial-derived metabolism, oxidative stress and anti-oxidative defenses modulation. We lastly describe how bacterial microbiota modifications could represent novel prognosis markers and/or targets for innovative therapeutic strategies.
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8
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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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9
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Mamnoon B, Naserpour Farivar T, Kamyab AR, Ilghari D, Khamesipour A, Karimi Arzenani M. Quality Control of Widely Used Therapeutic Recombinant Proteins by a Novel Real-Time PCR Approach. IRANIAN BIOMEDICAL JOURNAL 2015; 20:56-62. [PMID: 26047906 PMCID: PMC4689282 DOI: 10.7508/ibj.2016.01.008] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
Background: Existence of bacterial host-cell DNA contamination in biopharmaceutical products is a potential risk factor for patients receiving these drugs. Hence, the quantity of contamination must be controlled under the regulatory standards. Although different methods such as hybridization assays have been employed to determine DNA impurities, these methods are labor intensive and rather expensive. In this study, a rapid real-time PCR test was served as a method of choice to quantify the E. coli host- cell DNA contamination in widely used recombinant streptokinase (rSK), and alpha interferon (IFN-α) preparations. Methods: A specific primer pair was designed to amplify a sequence inside the E. coli 16S rRNA gene. Serial dilutions of DNA extracted from E. coli host cells, along with DNA extracted from Active Pharmaceutical Ingredients of rSK, and IFN-α samples were subjected to an optimized real-time PCR assay based on SYBR Green chemistry. Results: The test enabled us to detect a small quantity of genomic DNA contamination as low as 0.0002 pg in recombinant protein-based drugs. For the first time, this study showed that DNA contamination in rSK and IFN-α preparation manufactured in Pasteur Institute of Iran is much lower than the safety limit suggested by the US FDA. Conclusion: Real-time PCR is a reliable test for rapid detection of host-cell DNA contamination, which is a major impurity of therapeutic recombinant proteins to keep manufacturers’ minds on refining drugs, and provides consumers with safer biopharmaceuticals.
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Affiliation(s)
- Babak Mamnoon
- Dept. of Molecular Medicine, Pasteur Institute of Iran, Tehran, Iran
| | | | - Ahmad Reza Kamyab
- 3Dept. of Biology, Science and Research Branch, Islamic Azad University, Tehran, Iran
| | - Dariush Ilghari
- Cellular and Molecular Research Center, Qazvin University of Medical Sciences, Qazvin, Iran
| | - Ali Khamesipour
- Center of Research and Training in Skin Diseases and Leprosy, Tehran University of Medical Sciences, Tehran, Iran
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10
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Gonçalves GAL, Prather KLJ, Monteiro GA, Carnes AE, Prazeres DMF. Plasmid DNA production with Escherichia coli GALG20, a pgi-gene knockout strain: fermentation strategies and impact on downstream processing. J Biotechnol 2014; 186:119-27. [PMID: 24995846 DOI: 10.1016/j.jbiotec.2014.06.008] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/01/2014] [Revised: 06/04/2014] [Accepted: 06/04/2014] [Indexed: 10/25/2022]
Abstract
The market development of plasmid biopharmaceuticals for gene therapy and DNA vaccination applications is critically dependent on the availability of cost-effective manufacturing processes capable of delivering large amounts of high-quality plasmid DNA (pDNA) for clinical trials and commercialization. The producer host strain used in these processes must be designed to meet the upstream and downstream processing challenges characteristic of large scale pDNA production. The goal of the present study was to investigate the effect of different glucose feeding strategies (batch and fed-batch) on the pDNA productivity of GALG20, a pgi Escherichia coli strain potentially useful in industrial fermentations, which uses the pentose phosphate pathway (PPP) as the main route for glucose metabolism. The parental strain, MG1655ΔendAΔrecA, and the common laboratory strain, DH5α, were used for comparison purposes and pVAX1GFP, a ColE1-type plasmid, was tested as a model. GALG20 produced 3-fold more pDNA (∼141 mg/L) than MG1655ΔendAΔrecA (∼48 mg/L) and DH5α (∼40 mg/L) in glucose-based fed-batch fermentations. The amount of pDNA in lysates obtained from these cells was also larger for GALG20 (41%) when compared with MG1655ΔendAΔrecA (31%) and DH5α (26%). However, the final quality of pDNA preparations obtained with a process that explores precipitation, hydrophobic interaction chromatography and size exclusion was not significantly affected by strain genotype. Finally, high cell density fed-batch cultures were performed with GALG20, this time using another ColE1-type plasmid, NTC7482-41H-HA, in pre-industrial facilities using glucose and glycerol. These experiments demonstrated the ability of GALG20 to produce high pDNA yields of the order of 2100-2200 mg/L.
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Affiliation(s)
- Geisa A L Gonçalves
- MIT-Portugal Program, Portugal; IBB - Institute for Biotechnology and Bioengineering, Centre for Biological and Chemical Engineering, Department of Bioengineering, Instituto Superior Técnico, Universidade de Lisboa, Av. Rovisco Pais, 1049-001 Lisboa, Portugal
| | - Kristala L J Prather
- MIT-Portugal Program, Portugal; Department of Chemical Engineering, Massachusetts Institute of Technology, Cambridge, MA, United States
| | - Gabriel A Monteiro
- MIT-Portugal Program, Portugal; IBB - Institute for Biotechnology and Bioengineering, Centre for Biological and Chemical Engineering, Department of Bioengineering, Instituto Superior Técnico, Universidade de Lisboa, Av. Rovisco Pais, 1049-001 Lisboa, Portugal
| | - Aaron E Carnes
- Nature Technology Corporation, Lincoln, NE, United States
| | - Duarte M F Prazeres
- MIT-Portugal Program, Portugal; IBB - Institute for Biotechnology and Bioengineering, Centre for Biological and Chemical Engineering, Department of Bioengineering, Instituto Superior Técnico, Universidade de Lisboa, Av. Rovisco Pais, 1049-001 Lisboa, Portugal.
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11
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Nunes C, Sousa Â, Nunes JC, Morão AM, Sousa F, Queiroz JA. Supercoiled plasmid DNA purification by integrating membrane technology with a monolithic chromatography. J Sep Sci 2014; 37:1229-36. [DOI: 10.1002/jssc.201301160] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/23/2013] [Revised: 03/05/2014] [Accepted: 03/05/2014] [Indexed: 11/08/2022]
Affiliation(s)
- Catherine Nunes
- CICS-UBI-Centro de Investigação em Ciências da Saúde; Universidade da Beira Interior; Covilhã Portugal
| | - Ângela Sousa
- CICS-UBI-Centro de Investigação em Ciências da Saúde; Universidade da Beira Interior; Covilhã Portugal
| | - José C. Nunes
- CICS-UBI-Centro de Investigação em Ciências da Saúde; Universidade da Beira Interior; Covilhã Portugal
| | - António M. Morão
- 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
| | - João A. Queiroz
- CICS-UBI-Centro de Investigação em Ciências da Saúde; Universidade da Beira Interior; Covilhã Portugal
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12
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Development of a phenyl membrane chromatography-based process yielding pharmaceutical grade plasmid deoxyribonucleic acid for mammalian cells transfection. J Chromatogr A 2014; 1337:67-74. [DOI: 10.1016/j.chroma.2014.02.024] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/12/2013] [Revised: 01/23/2014] [Accepted: 02/08/2014] [Indexed: 01/24/2023]
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13
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Soares A, Queiroz JA, Sousa F, Sousa A. Purification of human papillomavirus 16 E6/E7 plasmid deoxyribonucleic acid-based vaccine using an arginine modified monolithic support. J Chromatogr A 2013; 1320:72-9. [PMID: 24210303 DOI: 10.1016/j.chroma.2013.10.053] [Citation(s) in RCA: 34] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/31/2013] [Revised: 10/11/2013] [Accepted: 10/15/2013] [Indexed: 12/28/2022]
Abstract
The development of efficient plasmid DNA (pDNA) purification processes has fostered therapeutic applications like gene therapy and DNA vaccination. In fact, monolithic supports have emerged as interesting approaches to purify pDNA due to their excellent mass transfer properties and high binding capacity for large biomolecules. The present study describes a method that combines the high selectivity of arginine affinity ligands with the versatility of monoliths to efficiently purify the supercoiled (sc) plasmid HPV-16 E6/E7. Quality control tests indicated that the level of impurities (proteins, endotoxins, gDNA and RNA) in the final plasmid sample was in accordance with the guidelines proposed by regulatory agencies. Breakthrough experiments were designed to compare the dynamic binding capacity of pDNA in the conventional arginine-agarose matrix with the modified monolithic support. The arginine monolith capacity was substantially higher than the conventional arginine-agarose matrix at 10% of breakthrough under the flow rate and pDNA concentration used. Overall, given that the pDNA final product complies with regulatory specifications, this combined support can be the key to obtain an adequate non-viral vaccine against a HPV infection.
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Affiliation(s)
- A Soares
- CICS-UBI-Centro de Investigação em Ciências da Saúde, Universidade da Beira Interior, Av. Infante D. Henrique, 6200-506 Covilhã, Portugal
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Dynamic binding capacity and specificity of 3,8-diamino-6-phenylphenanthridine-Sepharose support for purification of supercoiled plasmid deoxyribonucleic acid. J Chromatogr A 2013; 1307:91-8. [DOI: 10.1016/j.chroma.2013.07.078] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/09/2013] [Revised: 07/20/2013] [Accepted: 07/22/2013] [Indexed: 11/21/2022]
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15
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De La Vega J, Braak BT, Azzoni AR, Monteiro GA, Prazeres DMF. Impact of plasmid quality on lipoplex-mediated transfection. J Pharm Sci 2013; 102:3932-41. [PMID: 23996350 DOI: 10.1002/jps.23709] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/24/2013] [Revised: 07/22/2013] [Accepted: 07/29/2013] [Indexed: 01/20/2023]
Abstract
This work investigates the impact of quality attributes (impurity content, plasmid charge, and compactness) of plasmid DNA isolated with different purification methodologies on the characteristics of lipoplexes prepared thereof (size, zeta potential, stability) and on their ability to transfect mammalian cells. A 3.7 kb plasmid with a green fluorescence protein (GFP) reporter gene, Lipofectamine®-based liposomes, and Chinese Hamster Ovary (CHO) cells were used as models. The plasmid was purified by hydrophobic interaction chromatography (HIC)/gel filtration, and with three commercial kits, which combine the use of chaotropic salts with silica membranes/glass fiber fleeces. The HIC-based protocol delivered a plasmid with the smallest hydrodynamic diameter (144 nm) and zeta potential (-46.5 mV), which is virtually free from impurities. When formulated with Lipofectamine®, this plasmid originated the smallest (146 nm), most charged (+13 mV), and most stable lipoplexes. In vitro transfection experiments further showed that these lipoplexes performed better in terms of plasmid uptake (∼500,000 vs. ∼100,000-200,000 copy number/cell), transfection efficiency (50% vs. 20%-40%), and GFP expression levels (twofold higher) when compared with lipoplexes prepared with plasmids isolated using commercial kits. Overall our observations highlight the potential impact that plasmid purification methodologies can have on the outcome of gene transfer experiments and trials.
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Affiliation(s)
- Jonathan De La Vega
- IBB-Institute for Biotechnology and Bioengineering, Centre for Biological and Chemical Engineering, Department of Bioengineering, Instituto Superior Técnico, Universidade Técnica de Lisboa, Lisboa, 1049-001, Portugal
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16
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Bonturi N, Radke VSCO, Bueno SMA, Freitas S, Azzoni AR, Miranda EA. Sodium citrate and potassium phosphate as alternative adsorption buffers in hydrophobic and aromatic thiophilic chromatographic purification of plasmid DNA from neutralized lysate. J Chromatogr B Analyt Technol Biomed Life Sci 2013; 919-920:67-74. [DOI: 10.1016/j.jchromb.2013.01.010] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/04/2012] [Revised: 12/26/2012] [Accepted: 01/13/2013] [Indexed: 11/30/2022]
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17
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Nunes JC, Morão AM, Nunes C, Pessoa de Amorim MT, Escobar IC, Queiroz JA. Plasmid DNA recovery from fermentation broths by a combined process of micro- and ultrafiltration: Modeling and application. J Memb Sci 2012. [DOI: 10.1016/j.memsci.2012.04.055] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/07/2023]
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18
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Caramelo-Nunes C, Gabriel M, Almeida P, Marcos J, Tomaz C. Purification of plasmid DNA from clarified and non-clarified Escherichia coli lysates by berenil pseudo-affinity chromatography. J Chromatogr B Analyt Technol Biomed Life Sci 2012; 904:81-7. [DOI: 10.1016/j.jchromb.2012.07.023] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/04/2012] [Revised: 07/16/2012] [Accepted: 07/19/2012] [Indexed: 12/20/2022]
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19
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Studies on the adsorption of cell impurities from plasmid-containing lysates to phenyl boronic acid chromatographic beads. J Chromatogr A 2011; 1218:8629-37. [DOI: 10.1016/j.chroma.2011.10.004] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/23/2011] [Revised: 09/08/2011] [Accepted: 10/01/2011] [Indexed: 11/17/2022]
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20
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Sousa A, Tomaz C, Sousa F, Queiroz J. Successful application of monolithic innovative technology using a carbonyldiimidazole disk to purify supercoiled plasmid DNA suitable for pharmaceutical applications. J Chromatogr A 2011; 1218:8333-43. [DOI: 10.1016/j.chroma.2011.09.033] [Citation(s) in RCA: 32] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/27/2011] [Revised: 09/12/2011] [Accepted: 09/14/2011] [Indexed: 02/03/2023]
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Impact of lysine-affinity chromatography on supercoiled plasmid DNA purification. J Chromatogr B Analyt Technol Biomed Life Sci 2011; 879:3507-15. [DOI: 10.1016/j.jchromb.2011.09.032] [Citation(s) in RCA: 25] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/15/2011] [Revised: 09/12/2011] [Accepted: 09/16/2011] [Indexed: 12/23/2022]
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Gomes AG, Azevedo AM, Aires-Barros MR, Prazeres DMF. Clearance of host cell impurities from plasmid-containing lysates by boronate adsorption. J Chromatogr A 2010; 1217:2262-6. [DOI: 10.1016/j.chroma.2010.02.015] [Citation(s) in RCA: 24] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/28/2009] [Revised: 02/03/2010] [Accepted: 02/08/2010] [Indexed: 12/01/2022]
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Plasmid purification by hydrophobic interaction chromatography using sodium citrate in the mobile phase. Sep Purif Technol 2009. [DOI: 10.1016/j.seppur.2008.04.001] [Citation(s) in RCA: 30] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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24
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Sousa F, Prazeres DMF, Queiroz JA. Improvement of transfection efficiency by using supercoiled plasmid DNA purified with arginine affinity chromatography. J Gene Med 2009; 11:79-88. [DOI: 10.1002/jgm.1272] [Citation(s) in RCA: 67] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022] Open
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25
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Yoshimoto Y, Yasukawa T, Mizutani F. Cisplatin-based DNA sensing with enhanced current response. Analyst 2009; 134:2113-7. [DOI: 10.1039/b906734e] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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Freitas S, Canário S, Santos JAL, Prazeres DMF. Alternatives for the intermediate recovery of plasmid DNA: Performance, economic viability and environmental impact. Biotechnol J 2008; 4:265-78. [DOI: 10.1002/biot.200800216] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
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Martins SAM, Prazeres DMF, Fonseca LP, Monteiro GA. Chemiluminescent bead-based hybridization assay for the detection of genomic DNA from E. coli in purified plasmid samples. Anal Bioanal Chem 2008; 391:2179-87. [PMID: 18478207 DOI: 10.1007/s00216-008-2142-5] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/11/2008] [Revised: 04/10/2008] [Accepted: 04/15/2008] [Indexed: 12/01/2022]
Abstract
A bead-based hybridization assay was developed for detection of traces of E. coli genomic DNA (gDNA) present in purified plasmid DNA (pDNA) samples. Standards of gDNA and pDNA samples were sheared by sonication and adsorbed onto aminopropyl controlled pore glass (CPG) particles (130 microm). A preliminary study was conducted to optimize the amount of DNA adsorbed on the particles. Results indicated that maximum attachment efficiency was obtained by adsorbing DNA for 2 h in 0.2 x SSC, pH 5.7. The DNA-bound particles were hybridized overnight with a 181-bp digoxigenin-labeled probe, specific for gDNA. Following a chemiluminescent detection protocol, signal intensities of the standards were plotted as a function of initial gDNA concentration. The calculated detection limit (LOD) was 1.4 pM of gDNA. The assay was able to detect gDNA in pure plasmid preparations at the 1% level even in the presence of 1,000-fold excess of noncomplementary target. Hybridization results were compared with a quantitative real-time PCR assay. Both methods afforded similar accurate results at the 95% confidence level.
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Affiliation(s)
- S A M Martins
- Institute for Biotechnology and Bioengineering, Centre for Biological and Chemical Engineering, Instituto Superior Técnico, Av. Rovisco Pais, 1049-001, Lisbon, Portugal
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