Heterogeneous oxygen availability affects the titer and topology but not the fidelity of plasmid DNA produced by Escherichia coli

Jaen KE, Sigala J-C, Olivares-Hernandez R, Niehaus K, Lara AR (2017)
BMC BIOTECHNOLOGY 17(1): 60.

Zeitschriftenaufsatz | Veröffentlicht | Englisch
 
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Autor*in
Jaen, Karim E.; Sigala, Juan-Carlos; Olivares-Hernandez, Roberto; Niehaus, KarstenUniBi; Lara, Alvaro R.
Abstract / Bemerkung
Background: Dissolved oxygen tension (DOT) is hardly constant and homogenously distributed in a bioreactor, which can have a negative impact in the metabolism and product synthesis. However, the effects of DOT on plasmid DNA (pDNA) production and quality have not been thoroughly investigated. In the present study, the effects of aerobic (DOT >= 30% air sat.), microaerobic (constant DOT = 3% air sat.) and oscillatory DOT (from 0 to 100% air sat.) conditions on pDNA production, quality and host performance were characterized. Results: Microaerobic conditions had little effect on pDNA production, supercoiled fraction and sequence fidelity. By contrast, oscillatory DOT caused a 22% decrease in pDNA production compared with aerobic cultures. Although in aerobic cultures the pDNA supercoiled fraction was 98%, it decreased to 80% under heterogeneous DOT conditions. The different oxygen availabilities had no effect on the fidelity of the produced pDNA. The estimated metabolic fluxes indicated substantial differences at the level of the pentose phosphate pathway and TCA cycle under different conditions. Cyclic changes in fermentative pathway fluxes, as well as fast shifts in the fluxes through cytochromes, were also estimated. Model-based genetic modifications that can potentially improve the process performance are suggested. Conclusions: DOT heterogeneities strongly affected cell performance, pDNA production and topology. This should be considered when operating or scaling-up a bioreactor with deficient mixing. Constant microaerobic conditions affected the bacterial metabolism but not the amount or quality of pDNA. Therefore, pDNA production in microaerobic cultures may be an alternative for bioreactor operation at higher oxygen transfer rates.
Stichworte
Dissolved oxygen; Plasmid DNA; Microaerobic cultures; Dynamic flux; balance; pDNA sequence fidelity
Erscheinungsjahr
2017
Zeitschriftentitel
BMC BIOTECHNOLOGY
Band
17
Ausgabe
1
Art.-Nr.
60
ISSN
1472-6750
Page URI
https://pub.uni-bielefeld.de/record/2913154

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Jaen KE, Sigala J-C, Olivares-Hernandez R, Niehaus K, Lara AR. Heterogeneous oxygen availability affects the titer and topology but not the fidelity of plasmid DNA produced by Escherichia coli. BMC BIOTECHNOLOGY. 2017;17(1): 60.
Jaen, K. E., Sigala, J. - C., Olivares-Hernandez, R., Niehaus, K., & Lara, A. R. (2017). Heterogeneous oxygen availability affects the titer and topology but not the fidelity of plasmid DNA produced by Escherichia coli. BMC BIOTECHNOLOGY, 17(1), 60. doi:10.1186/s12896-017-0378-x
Jaen, K. E., Sigala, J. - C., Olivares-Hernandez, R., Niehaus, K., and Lara, A. R. (2017). Heterogeneous oxygen availability affects the titer and topology but not the fidelity of plasmid DNA produced by Escherichia coli. BMC BIOTECHNOLOGY 17:60.
Jaen, K.E., et al., 2017. Heterogeneous oxygen availability affects the titer and topology but not the fidelity of plasmid DNA produced by Escherichia coli. BMC BIOTECHNOLOGY, 17(1): 60.
K.E. Jaen, et al., “Heterogeneous oxygen availability affects the titer and topology but not the fidelity of plasmid DNA produced by Escherichia coli”, BMC BIOTECHNOLOGY, vol. 17, 2017, : 60.
Jaen, K.E., Sigala, J.-C., Olivares-Hernandez, R., Niehaus, K., Lara, A.R.: Heterogeneous oxygen availability affects the titer and topology but not the fidelity of plasmid DNA produced by Escherichia coli. BMC BIOTECHNOLOGY. 17, : 60 (2017).
Jaen, Karim E., Sigala, Juan-Carlos, Olivares-Hernandez, Roberto, Niehaus, Karsten, and Lara, Alvaro R. “Heterogeneous oxygen availability affects the titer and topology but not the fidelity of plasmid DNA produced by Escherichia coli”. BMC BIOTECHNOLOGY 17.1 (2017): 60.

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Daten bereitgestellt von Europe PubMed Central.

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PMID: 29193870

38 References

Daten bereitgestellt von Europe PubMed Central.

Microbial nar-GFP cell sensors reveal oxygen limitations in highly agitated and aerated laboratory-scale fermentors.
Garcia JR, Cha HJ, Rao G, Marten MR, Bentley WE., Microb. Cell Fact. 8(), 2009
PMID: 19146688
Improved production of large plasmid DNA by enzyme-controlled glucose release
Galindo J, Barrón BL, Lara AR., 2016
Single-use bioreactors for microbial cultivation
Oosterhuis NMG, Neubauer P, Junne S., 2013
Living with heterogeneities in bioreactors: understanding the effects of environmental gradients on cells.
Lara AR, Galindo E, Ramirez OT, Palomares LA., Mol. Biotechnol. 34(3), 2006
PMID: 17284782
Effects of dissolved oxygen shock on the stability of recombinant Escherichia coli containing plasmid pKN401.
Hopkins DJ, Betenbaugh MJ, Dhurjati P., Biotechnol. Bioeng. 29(1), 1987
PMID: 18561133
Effect of oxygen fluctuations on recombinant Escherichia coli fermentation.
Namdev PK, Irwin N, Thompson BG, Gray MR., Biotechnol. Bioeng. 41(6), 1993
PMID: 18609603
Production of ColE1 type plasmid by Escherichia coli DH5α cultured under nonselective conditions
Passarinha LA, Diogo MM, Queiroz JA, Monteiro GA, Fonseca LP, Prazeres DMF., 2006

AUTHOR UNKNOWN, 2007
Effect of DNA topology on the transfection efficiency of poly((2-dimethylamino)ethyl methacrylate)-plasmid complexes.
Cherng JY, Schuurmans-Nieuwenbroek NM, Jiskoot W, Talsma H, Zuidam NJ, Hennink WE, Crommelin DJ., J Control Release 60(2-3), 1999
PMID: 10425339
One-step inactivation of chromosomal genes in Escherichia coli K-12 using PCR products.
Datsenko KA, Wanner BL., Proc. Natl. Acad. Sci. U.S.A. 97(12), 2000
PMID: 10829079
What is flux balance analysis?
Orth JD, Thiele I, Palsson BO., Nat. Biotechnol. 28(3), 2010
PMID: 20212490
Enhanced hydrogen production from formic acid by formate hydrogen lyase-overexpressing Escherichia coli strains.
Yoshida A, Nishimura T, Kawaguchi H, Inui M, Yukawa H., Appl. Environ. Microbiol. 71(11), 2005
PMID: 16269707
A greedy algorithm for aligning DNA sequences.
Zhang Z, Schwartz S, Wagner L, Miller W., J. Comput. Biol. 7(1-2), 2000
PMID: 10890397
A time-efficient linear-space local similarity algorithm
Huang X, Miller W., 1991
Analysis of plasmid samples on a microchip.
Ding L, Williams K, Ausserer W, Bousse L, Dubrow R., Anal. Biochem. 316(1), 2003
PMID: 12694731
Transition of Escherichia coli from aerobic to micro-aerobic conditions involves fast and slow reacting regulatory components.
Partridge JD, Sanguinetti G, Dibden DP, Roberts RE, Poole RK, Green J., J. Biol. Chem. 282(15), 2007
PMID: 17307737
Dynamic flux balance analysis of diauxic growth in Escherichia coli.
Mahadevan R, Edwards JS, Doyle FJ 3rd., Biophys. J. 83(3), 2002
PMID: 12202358
Application of dynamic flux balance analysis to an industrial Escherichia coli fermentation.
Meadows AL, Karnik R, Lam H, Forestell S, Snedecor B., Metab. Eng. 12(2), 2009
PMID: 19646545
Norvaline is accumulated after a down-shift of oxygen in Escherichia coli W3110.
Soini J, Falschlehner C, Liedert C, Bernhardt J, Vuoristo J, Neubauer P., Microb. Cell Fact. 7(), 2008
PMID: 18940002
Trace element associated reduction of norleucine and norvaline accumulation during oxygen limitation in a recombinant Escherichia coli fermentation.
Biermann M, Linnemann J, Knupfer U, Vollstadt S, Bardl B, Seidel G, Horn U., Microb. Cell Fact. 12(), 2013
PMID: 24261588
Direct and indirect use of GFP whole cell biosensors for the assessment of bioprocess performances: design of milliliter scale-down bioreactors.
Brognaux A, Thonart P, Delvigne F, Neubauer P, Twizere JC, Francis F, Gorret N., Biotechnol. Prog. 29(1), 2012
PMID: 23124973
Toward efficient microaerobic processes using engineered Escherichia coli W3110 strains
Pablos TE, Olivares R, Sigala JC, Ramírez OT, Lara AR., 2016
Adaptive responses to oxygen limitation in Escherichia coli.
Spiro S, Guest JR., Trends Biochem. Sci. 16(8), 1991
PMID: 1957353
The cytochrome bd respiratory oxygen reductases
Borisov VB, Gennis RB, Hemp J, Verkhovsky MI., 1807
Control of bacterial DNA supercoiling.
Drlica K., Mol. Microbiol. 6(4), 1992
PMID: 1313943
Cellular Roles of DNA Topoisomerases: A molecular perspective
Wang JC., 2002
DNA supercoiling depends on the phosphorylation potential in Escherichia coli.
van Workum M, van Dooren SJ, Oldenburg N, Molenaar D, Jensen PR, Snoep JL, Westerhoff HV., Mol. Microbiol. 20(2), 1996
PMID: 8733233
A cell engineering strategy to enhance supercoiled plasmid DNA production for gene therapy.
Hassan S, Keshavarz-Moore E, Ward J., Biotechnol. Bioeng. 113(9), 2016
PMID: 26928284
Transposon leads to contamination of clinical pDNA vaccine
Van I, Gomez-Eerland R, van JH, Oosterhuis K, Schumacher TN, Haanen JBAG, Beijnen JH, Nuijen B., 2013
Evidence that the insertion events of IS2 transposition are biased towards abrupt compositional shifts in target DNA and modulated by a diverse set of culture parameters.
Goncalves GA, Oliveira PH, Gomes AG, Prather KL, Lewis LA, Prazeres DM, Monteiro GA., Appl. Microbiol. Biotechnol. 98(15), 2014
PMID: 24769900
Mutation detection in plasmid-based biopharmaceuticals.
Oliveira PH, Prather KL, Prazeres DM, Monteiro GA., Biotechnol J 6(4), 2011
PMID: 21328546
Growth-rate recovery of Escherichia coli cultures carrying a multicopy plasmid, by engineering of the pentose-phosphate pathway.
Flores S, de Anda-Herrera R, Gosset G, Bolivar FG., Biotechnol. Bioeng. 87(4), 2004
PMID: 15286986

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