Plasmid DNA fermentation strategies: Influence on plasmid stability and cell physiology

Applied Microbiology and Biotechnology

Volumn 93, Issue 6, 2012, Pages 2571-2580

  Silva, Filomena ^a   Queiroz, João A ^a   Domingues, Fernanda C ^a  

^a UNIVERSITY OF BEIRA INTERIOR   (Portugal)

Author keywords

Batch; Cell physiology; Fed batch; Plasmid DNA; Segregational stability

Indexed keywords

BATCH; BATCH FERMENTATION; BIOPROCESS DESIGN; BIOPROCESS DEVELOPMENT; BIOPROCESSES; C/N RATIO; CELL PHYSIOLOGY; COPY NUMBER; EXPONENTIAL FEEDING; FED BATCHES; FED-BATCH FERMENTATION; FEED-RATES; FEEDING PROFILE; FERMENTATION CONDITIONS; HOST STRAIN; KEY PARAMETERS; METABOLIC STRESS; MONITORING TECHNIQUES; PERFORMANCE BASED; PHARMACEUTICAL GRADE PLASMID DNA; PLASMID DNA; PLASMID DNA (PDNA); PLASMID STABILITY; PROCESS PERFORMANCE; TWO PARAMETER; VIABLE CELLS;

BIOELECTRIC POTENTIALS; BIOMOLECULES; CYTOLOGY; FEEDING; FERMENTATION; PHYSIOLOGY; SYSTEM STABILITY;

DNA;

GLYCEROL; PLASMID DNA; BACTERIAL DNA; PEPTONE; TRYPTONES;

CELL ORGANELLE; FERMENTATION; MITOCHONDRIAL DNA; PHYSIOLOGY; PLASMID;

ARTICLE; BACTERIUM CULTURE; BIOMASS; BIOPROCESS; CELL FUNCTION; CONCENTRATION (PARAMETERS); COPY NUMBER VARIATION; DNA SYNTHESIS; FED BATCH FERMENTATION; FLOW CYTOMETRY; INOCULATION; MOLECULAR STABILITY; NONHUMAN; PROCESS DEVELOPMENT; REAL TIME POLYMERASE CHAIN REACTION; BATCH CELL CULTURE; CHEMISTRY; ESCHERICHIA COLI; EVALUATION; FERMENTATION; GENE DOSAGE; GENETICS; KINETICS; METABOLISM; METHODOLOGY; PLASMID;

BATCH CELL CULTURE TECHNIQUES; DNA, BACTERIAL; ESCHERICHIA COLI; FERMENTATION; GENE DOSAGE; GLYCEROL; KINETICS; PEPTONES; PLASMIDS;

EID: 84862280267     PISSN: 01757598     EISSN: 14320614     Source Type: Journal    
DOI: 10.1007/s00253-011-3668-6     Document Type: Article

References (53)

1. Abuzeid WM, Li D, O'Malley BW Jr (2011) Gene therapy for head and neck cancer. Adv Otorhinolaryngol 70:141-151
2. Betts JI, Doig SD, Baganz F (2006) Characterization and application of a miniature 10 mL stirred-tank bioreactor, showing scale-down equivalence with a conventional 7 L reactor. Biotechnol Prog 22 :681-688
3. Bohle K, Ross A (2011) Plasmid DNA production for pharmaceutical use: Role of specific growth rate and impact on process design. Biotechnol Bioeng 108(9):2099-2106
4. Bower DM, Prather KL (2009) Engineering of bacterial strains and vectors for the production of plasmid DNA. Appl Microbiol Biotechnol 82(5):805-813
5. Carapuça E, Azzoni AR, Prazeres DM, Monteiro GA, Mergulhão FJ (2007) Time-course determination of plasmid content in eukaryotic and prokaryotic cells using real-time PCR. Mol Biotechnol 37(2):120-126
6. Carnes AE (2005) Fermentation design for the manufacture of therapeutic plasmid DNA. BioProcess Intl 3:36-44
7. Carnes AE (2006) Fermentation process for continuous plasmid production (PCT/US60/764042). United States Patent and Trademark Office, Alexandria, VA, USA
8. Carnes AE, Hodgson CP, Williams JA (2006) Inducible Escherichia coli fermentation for increased plasmid DNA production. Biotechnol Appl Biochem 45(3):155-166
9. Carnes AE, Luke JM, Vincent JM, Schukar A, Anderson S, Hodgson CP, Williams JA (2011) Plasmid DNA fermentation strain and process-specific effects on vector yield, quality, and transgene expression. Biotechnol Bioeng 108(2):354-363
10. Chen W, Frazer PA (1996) Automated high-yield fermentation of plasmid DNA in Escherichia coli (US 5955323). United States Patent and Trademark Office, Alexandria, VA, USA
11. Chen W, Graham C, Ciccarelli RB (1997) Automated fed-batch fermentation with feed-back controls based on dissolved oxygen (DO) and pH for production of DNA vaccines. J Ind Microbiol Biotechnol 18(1):43-48
12. Danquah MK, Forde GM (2007) Growth medium selection and its economic impact on plasmid DNA production. J Biosci Bioeng 104(6):490-497
13. Danquah MK, Forde GM (2008) Development of a pilot-scale bacterial fermentation for plasmid-based biopharmaceutical production using a stoichiometric medium. Biotechnol Bioprocess Eng 13(2):158-167
14. Diogo MM, Queiroz JA, Prazeres DM (2003) Assessment of purity and quantification of plasmid DNA in process solutions using high-performance hydrophobic interaction chromatography. J Chromatogr A 998(1-2):109-117
15. Gahan ME, Webster DE, Wesselingh SL, Strugnell RA, Yang J (2009) Bacterial antigen expression is an important component in inducing an immune response to orally administered Salmonella-delivered DNA vaccines. PLoS One 4(6):e6062
16. Goyal D, Sahni G, Sahoo DK (2009) Enhanced production of recombinant streptokinase in Escherichia coli using fed-batch culture. Bioresour Technol 100(19):4468-4474
17. Heinemann JA, Cooper TF (2000) Post-segregational killing does not increase plasmid stability but acts to mediate the exclusion of competing plasmids. Proc Natl Acad Sci U S A 97(23):12643-12648
18. Hewitt CJ, Nebe-Von-Caron G (2001) An industrial application of multiparameter flow cytometry: Assessment of cell physiological state and its application to the study of microbial fermentations. Cytometry 44(3):179-187
19. Hewitt CJ, Nebe-von Caron G, Nienow AW, McFarlane CM (1999) The use of multi-parameter flow cytometry to compare the physiological response of Escherichia coli W3110 to glucose limitation during batch, fed-batch and continuous culture cultivations. J Biotechnol 75(2-3):251-264
20. Hewitt CJ, Nebe-Von Caron G, Axelsson B, McFarlane CM, Nienow AW (2000) Studies related to the scale-up of high-cell-density E. coli fed-batch fermentations using multiparameter flow cytometry: Effect of a changing microenvironment with respect to glucose and dissolved oxygen concentration. Biotechnol Bioeng 70(4):381-390
21. Johansson L, Liden G (2006) A study of long-term effects on plasmidcontaining Escherichia coli in carbon-limited chemostat using 2Dfluorescence spectrofluorimetry. Biotechnol Prog 22(4):1132-1139
22. Jones KL, Kim SW, Keasling JD (2000) Low-copy plasmids can perform as well as or better than high-copy plasmids for metabolic engineering of bacteria. Metab Eng 2(4):328-338
23. Kawase Y, Ladage D, Hajjar RJ (2011) Rescuing the failing heart by targeted gene transfer. J Am Coll Cardiol 57(10):1169-1180
24. Kilonzo PM, Margaritis A, Bergougnou MA (2009) Plasmid stability and kinetics of continuous production of glucoamylase by recombinant Saccharomyces cerevisiae in an airlift bioreactor. J Ind Microbiol Biotechnol 36(9):1157-1169
25. Kim YH, Han KY, Lee K, Lee J (2005) Proteome response of Escherichia coli fed-batch culture to temperature downshift. Appl Microbiol Biotechnol 68(6):786-793
26. Listner K, Bentley L, Okonkowski J, Kistler C, Wnek R, Caparoni A, Junker B, Robinson D, Salmon P, Chartrain M (2006) Develop-ment of a highly productive and scalable plasmid DNA production platform. Biotechnol Prog 22(5):1335-1345
27. Mairhofer J, Cserjan-Puschmann M, Striedner G, Nobauer K, Razzazi-Fazeli E, Grabherr R (2010) Marker-free plasmids for gene therapeutic applications-lack of antibiotic resistance gene substantially improves the manufacturing process. J Biotechnol 146(3):130-137
28. O'Kennedy RD, Baldwin C, Keshavarz-Moore E (2000) Effects of growth medium selection on plasmid DNA production and initial processing steps. J Biotechnol 76(2-3):175-183
29. O'Kennedy RD, Ward JM, Keshavarz-Moore E (2003) Effects of fermentation strategy on the characteristics of plasmid DNA production. Biotechnol Appl Biochem 37(1):83-90
30. Okonkowski J, Kizer-Bentley L, Listner K, Robinson D, Chartrain M (2005) Development of a robust, versatile, and scalable inoculum train for the production of a DNA vaccine. Biotechnol Prog 21 :1038-1047
31. Oliveira PH, Prather KJ, Prazeres DM, Monteiro GA (2009) Structural instability of plasmid biopharmaceuticals: Challenges and implications. Trends Biotechnol 27(9):503-511
32. O'Mahony K, Freitag R, Hilbrig F, Müller P, Schumacher I (2007) Strategies for high titre plasmid DNA production in Escherichia coli DH5 alpha. Process Biochem 42(7):1039-1049
33. O'Neill MJ, Bourre L, Melgar S, O'Driscoll CM (2011) Intestinal delivery of non-viral gene therapeutics: Physiological barriers and preclinical models. Drug Discov Today 16(5-6):203-218
34. Ow DSW, Nissom PM, Philp R, Oh SKW, Yap MGS (2006) Global transcriptional analysis of metabolic burden due to plasmid maintenance in Escherichia coli DH5 alpha during batch fermentation. Enzyme Microb Technol 39(3):391-398
35. Passarinha LA, Diogo MM, Queiroz JA, Monteiro GA, Fonseca LP, Prazeres DMF (2006) Production of ColE1 type plasmid by Escherichia coli DH5 alpha cultured under nonselective conditions. J Microbiol Biotechnol 16(1):20-24
36. Passarinha LA, Bonifacio MJ, Queiroz JA (2009) Application of a fedbatch bioprocess for the heterologous production of hSCOMT in Escherichia coli. J Microbiol Biotechnol 19(9):972-981
37. Phue JN, Lee SJ, Trinh L, Shiloach J (2008) Modified Escherichia coli B (BL21), a superior producer of plasmid DNA compared with Escherichia coli K (DH5 alpha). Biotechnol Bioeng 101 :831-836
38. Ricci JCD, Hernandez ME (2000) Plasmid effects on Escherichia coli metabolism. Crit Rev Biotechnol 20(2):79-108
39. Rozkov A, Avignone-Rossa CA, Ertl PF, Jones P, O'Kennedy RD, Smith JJ, Dale JW, Bushell ME (2004) Characterization of the metabolic burden on Escherichia coli DH1 cells imposed by the presence of a plasmid containing a gene therapy sequence. Biotechnol Bioeng 88(7):909-915
40. Rozkov A, Larsson B, Gillstrom S, Bjornestedt R, Schmidt SR (2008) Large-scale production of endotoxin-free plasmids for transient expression in mammalian cell culture. Biotechnol Bioeng 99 :557-566
41. Schmid G, Schlaeger EJ, Wipf B (2001) Non-GMP plasmid production for transient transfection in bioreactors. Cytotechnology 35(3):157-164
42. Shene C, Andrews BA, Asenjo JA (2003) Study of recombinant microorganism populations characterized by their plasmid content per cell using a segregated model. Bioprocess Biosyst Eng 25(6):333-340
43. Silva F, Passarinha L, Sousa F, Queiroz JA, Domingues FC (2009) Influence of growth conditions on plasmid DNA production. J Microbiol Biotechnol 19(11):1408-1414
44. Silva F, Lourenço O, Pina-Vaz C, Rodrigues AG, Queiroz JA, Domingues FC (2010) The use of DRAQ5 to monitor intracellular DNA in Escherichia coli by flow cytometry. J Fluoresc 20(4):907-914
45. Silva F, Lourenço O, Maia C, Queiroz JA, Domingues FC (2011) Impact of plasmid induction strategy on overall plasmid DNA yield and E. coli physiology using flow cytometry and real-time PCR. Process Biochem 46(1):174-181
46. Singer A, Eiteman MA, Altman E (2009) DNA plasmid production in different host strains of Escherichia coli. J Ind Microbiol Biotechnol 36(4):521-530
47. Skulj M, Okrslar V, Jalen S, Jevsevar S, Slanc P, Strukelj B, Menart V (2008) Improved determination of plasmid copy number using quantitative real-time PCR for monitoring fermentation processes. Microb Cell Fact 7:6-17
48. Sousa F, Freitas S, Azzoni AR, Prazeres DM, Queiroz J (2006) Selective purification of supercoiled plasmid DNA from clarified cell lysates with a single-agarose chromatography step. Biotechnol Appl Biochem 45(3):131-140
49. Wang Z, Xiang L, Shao J, Wegrzyn A, Wegrzyn G (2006) Effects of the presence of ColE1 plasmid DNA in Escherichia coli on the host cell metabolism. Microb Cell Fact 5:34-51
50. Williams SG, Cranenburgh RM, Weiss AME, Wrighton CJ, Sherratt DJ, Hanak JAJ (1998) Repressor titration: A novel system for selection and stable maintenance of recombinant plasmids. Nucleic Acids Res 26(9):2120-2124
51. Williams JA, Luke J, Langtry S, Anderson S, Hodgson CP, Carnes AE (2009) Generic plasmid DNA production platform incorporating low metabolic burden seed-stock and fed-batch fermentation processes. Biotechnol Bioeng 103(6):1129-1143
52. Xu J, Li W, Wu J, Zhang Y, Zhu Z, Liu J, Hu Z (2006) Stability of plasmid and expression of a recombinant gonadotropin-releasing hormone (GnRH) vaccine in Escherichia coli. Appl Microbiol Biotechnol 73(4):780-788
53. Zou S, Scarfo K, Nantz MH, Hecker JG (2010) Lipid-mediated delivery of RNA is more efficient than delivery of DNA in nondividing cells. Int J Pharm 389(1-2):232-243