Abstract
Microaerobic fermentation has been shown to improve lactose transport and recombinant protein production in Escherichia coli. Mechanistic correlation between lactose and dissolved oxygen has been studied and it has been demonstrated that E. coli can switch its genetic machinery upon fluctuations in dissolved oxygen levels and thereby impact lactose transport, resulting in product formation. Continuous induction of lactose in microaerobic fermentation led to a 3.3-fold improvement in product titre of rLTNF oligomer and a 1.8-fold improvement in product titre of rSymlin oligomer as compared with traditional aerobic fermentation. Transcriptome profiling indicated that ribosome synthesis, lactose transport and amino acid synthesis genes were upregulated during microaerobic fermentation. Besides, novel lactose transporter setB was examined and it was observed that lactose uptake rate was 1.4-fold higher in microaerobic fermentation. The results indicate that microaerobic fermentation can offer a superior alternative for industrial production of recombinant therapeutics, industrial enzymes and metabolites in E. coli.
Key points
• Microaerobic fermentation results in significantly improved protein production
• Lactose transport, ribosome synthesis and amino acid synthesis are enhanced
• Product titre improves by 1.8–3.3-fold
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References
Alexeeva S, Hellingwerf KJ, de Mattos MJT (2002) Quantitative assessment of oxygen availability: perceived aerobiosis and its effect on flux distribution in the respiratory chain of Escherichia coli. J Bacteriol 184:1402–1406. https://doi.org/10.1128/JB.184.5.1402-1406.2002
Bettenbrock K, Bai H, Ederer M, Green J, Hellingwerf KJ, Holcombe M, Kunz S, Rolfe MD, Sanguinetti G, Sawodny O (2014) Towards a systems level understanding of the oxygen response of Escherichia coli. Adv Microb Physiol 64. Elsevier:65–114
Blommel PG, Becker KJ, Duvnjak P, Fox BG (2007) Enhanced bacterial protein expression during auto-induction obtained by alteration of lac repressor dosage and medium composition. Biotechnol Prog 23:585–598. https://doi.org/10.1021/bp070011x
Choi JH, Keum KC, Lee SY (2006) Production of recombinant proteins by high cell density culture of Escherichia coli. Chem Eng 61:876–885. https://doi.org/10.1016/j.ces.2005.03.031
de Marco A, De Marco V (2004) Bacteria co-transformed with recombinant proteins and chaperones cloned in independent plasmids are suitable for expression tuning. J Biotechnol 109:45–52. https://doi.org/10.1016/j.jbiotec.2003.10.025
Durnin G, Clomburg J, Yeates Z, Alvarez PJ, Zygourakis K, Campbell P, Gonzalez R (2009) Understanding and harnessing the microaerobic metabolism of glycerol in Escherichia coli. Biotechnol Bioeng 103:148–161. https://doi.org/10.1002/bit.22246
Ghazi A, Therisod H, Shechter E (1983) Comparison of lactose uptake in resting and energized Escherichia coli cells: high rates of respiration inactivate the lac carrier. J Bacteriol 154:92–103. https://doi.org/10.1128/JB.154.1.92-103.1983
Gourse RL, Gaal T, Bartlett MS, Appleman JA, Ross W (1996) rRNA transcription and growth rate–dependent regulation of ribosome synthesis in Escherichia coli. Annu Rev Microbiol 50:645–677. https://doi.org/10.1146/annurev.micro.50.1.645
Haddadin FT, Harcum SW (2005) Transcriptome profiles for high-cell-density recombinant and wild-type Escherichia coli. Biotechnol Bioeng 90:127–153. https://doi.org/10.1002/bit.20340
Harcum SW, Bentley WE (1999) Heat-shock and stringent responses have overlapping protease activity in Escherichia coli. Appl Biochem Biotechnol 80:23–37. https://doi.org/10.1385/abab:80:1:23
He Y, Chen Y, Morris DL, Lee D-Y, Tjandra N (2020) Bax expression is optimal at low oxygen tension and constant agitation. Protein Expr Purif 165:105501. https://doi.org/10.1016/j.pep.2019.105501
Hebbi V, Pandi K, Kumar D, Komives C, Rathore AS (2018) Process for production and purification of lethal toxin neutralizing factor (LTNF) from E. coli and its economic analysis. J Chem Technol Biotechnol 93:959–967. https://doi.org/10.1002/jctb.5537
Hoffmann F, Rinas U (2004) Stress induced by recombinant protein production in Escherichia coli. Physiological stress responses in bioprocesses. Springer, pp 73-92. https://doi.org/10.1007/b93994
Jaén KE, Velazquez D, Delvigne F, Sigala J-C, Lara AR (2019a) Engineering E. coli for improved microaerobic pDNA production. Bioprocess Biosyst Eng 42(9):1457–1466. https://doi.org/10.1007/s00449-019-02142-5
Jaén KE, Velázquez D, Sigala JC, Lara AR (2019b) Design of a microaerobically inducible replicon for high-yield plasmid DNA production. Biotechnol Bioeng 116(10):2514–2525. https://doi.org/10.1002/bit.27091
Jazini M, Herwig C (2014) Two-compartment processing as a tool to boost recombinant protein production. Eng Life Sci 14(2):118–128. https://doi.org/10.1002/elsc.201300038
Kennedy EP (1970) Chapter IV: the lactose permease system of Escherichia coli. Pam Gill J:49–92. https://doi.org/10.1101/0.49-92
Kilikian B, Suárez I, Liria C, Gombert AK (2000) Process strategies to improve heterologous protein production in Escherichia coli under lactose or IPTG induction. Process Biochem 35:1019–1025. https://doi.org/10.1016/S0032-9592(00)00137-0
Komives CF, Sanchez EE, Rathore AS, White B, Balderrama M, Suntravat M, Cifelli A, Joshi V (2017) Opossum peptide that can neutralize rattlesnake venom is expressed in Escherichia coli. Biotechnol Prog 33:81–86. https://doi.org/10.1002/btpr.2386
Konz JO, King J, Cooney CL (1998) Effects of oxygen on recombinant protein expression. Biotechnol Prog 14:393–409. https://doi.org/10.1021/bp980021l
Lange J, Takors R, Blombach B (2017) Zero-growth bioprocesses: a challenge for microbial production strains and bioprocess engineering. Eng Life Sci 17:27–35. https://doi.org/10.1002/elsc.201600108
Lara AR, Jaén KE, Sigala J-C, Regestein L, Büchs J (2017) Evaluation of microbial globin promoters for oxygen-limited processes using Escherichia coli. J Biol Eng 11(1):39. https://doi.org/10.1186/s13036-017-0082-3
Lara AR, Jaén KE, Folarin O, Keshavarz-Moore E, Büchs J (2019a) Effect of the oxygen transfer rate on oxygen-limited production of plasmid DNA by Escherichia coli. Biochem Eng J 150:107303. https://doi.org/10.1016/j.bej.2019.107303
Lara AR, Velázquez D, Penella I, Islas F, González-De la Rosa CH, Sigala J-C (2019b) Design of a synthetic miniR1 plasmid and its production by engineered Escherichia coli. Bioprocess Biosyst Eng 42(8):1391–1397. https://doi.org/10.1007/s00449-019-02129-2
Lim H-K, Lee S-U, Chung S-I, Jung K-H, Seo J-H (2004) Induction of the T7 promoter using lactose for production of recombinant plasminogen kringle 1-3 in Escherichia coli. J Microbiol Biotechnol 14:225–230
Liu JY, Miller PF, Gosink M, Olson ER (1999) The identification of a new family of sugar efflux pumps in Escherichia coli. Mol Microbiol 31:1845–1851. https://doi.org/10.1046/j.1365-2958.1999.01321.x
Livak KJ, Schmittgen TD (2001) Analysis of relative gene expression data using real-time quantitative PCR and the 2− ΔΔCT method. Methods 25:402–408. https://doi.org/10.1006/meth.2001.1262
Mahalik S, Sharma AK, Mukherjee KJ (2014) Genome engineering for improved recombinant protein expression in Escherichia coli. Microb Cell Factories 13:177. https://doi.org/10.1186/s12934-014-0177-1
Mitchell W, Saffen D, Roseman S (1987) Sugar transport by the bacterial phosphotransferase system. In vivo regulation of lactose transport in Escherichia coli by IIIGlc, a protein of the phosphoenolpyruvate: glycose phosphotransferase system. J Biol Chem 262:16254–16260
Muir M, Williams L, Ferenci T (1985) Influence of transport energization on the growth yield of Escherichia coli. J Bacteriol 163:1237–1242
Ow DS-W, Lim DY-X, Nissom PM, Camattari A, Wong VV-T (2010) Co-expression of Skp and FkpA chaperones improves cell viability and alters the global expression of stress response genes during scFvD1. 3 production. Microb Cell Factories 9:22. https://doi.org/10.1186/1475-2859-9-22
Pablos TE, Olivares R, Sigala JC, Ramírez OT, Lara AR (2016) Toward efficient microaerobic processes using engineered Escherichia coli W3110 strains. Eng Life Sci 16:588–597. https://doi.org/10.1002/elsc.201500129
Pao SS, Paulsen IT, Saier MH (1998) Major facilitator superfamily. Microbiol Mol Biol Rev 62:1–34
Partridge JD, Sanguinetti G, Dibden DP, Roberts RE, Poole RK, Green J (2007) Transition of Escherichia coli from aerobic to micro-aerobic conditions involves fast and slow reacting regulatory components. J Biol Chem 282:11230–11237. https://doi.org/10.1074/jbc.M700728200
Paulsen IT, Brown MH, Skurray RA (1996) Proton-dependent multidrug efflux systems. Microbiol Mol Biol Rev 60:575–608
Rao DVK, Ramu CT, Rao JV, Narasu ML, Rao AKSB (2008) Impact of dissolved oxygen concentration on some key parameters and production of rhG-CSF in batch fermentation. J Ind Microbiol Biotechnol 35:991–1000. https://doi.org/10.1007/s10295-008-0374-1
Reizer J, Saier M (1983) Involvement of lactose enzyme II of the phosphotransferase system in rapid expulsion of free galactosides from Streptococcus pyogenes. J Bacteriol 156:236–242
Schweder T, Lin H, Jurgen B, Breitenstein A, Riemschneider S, Khalameyzer V, Gupta A, Buttner K, Neubauer P (2002) Role of the general stress response during strong overexpression of a heterologous gene in Escherichia coli. Appl Microbiol Biotechnol 58:330–337. https://doi.org/10.1007/s00253-001-0904-5
Shiloach J, Fass R (2005) Growing E. coli to high cell density—a historical perspective on method development. Biotechnol Adv 23:345–357. https://doi.org/10.1016/j.biotechadv.2005.04.004
Shojaosadati SA, Varedi Kolaei SM, Babaeipour V, Farnoud AM (2008) Recent advances in high cell density cultivation for production of recombinant protein. Iran J Biotechnol 6:63–84
Studier FW (2005) Protein production by auto-induction in high-density shaking cultures. Protein Expr Purif 41:207–234. https://doi.org/10.1016/j.pep.2005.01.016
Acknowledgements
The authors would like to acknowledge Prof. Claire Komives, San Jose State University, USA, for gifting us the (rLTNF) clone.
Funding
This work was financially supported by Department of Biotechnology, Ministry of Science and Technology, under schemes of Centre of Excellence for Biopharmaceutical Technology (BT/COE/34/SP15097/2015) and Indo-US Joint Proposals in the area of low-cost medical devices (BT/PR17497/MED/15/146/2016).
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KAP, ASC and ASR conceived and designed research. KAP and ASC conducted experiments. ASC and JAG contributed to transcriptomic data analysis. KAP, ASC and JAG wrote the first draft. ASR was responsible for project supervision, acquiring funding and creating the final version of the manuscript. All authors read and approved the manuscript.
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Pandi, K., Chauhan, A.S., Gupta, J.A. et al. Microaerobic fermentation alters lactose metabolism in Escherichia coli. Appl Microbiol Biotechnol 104, 5773–5785 (2020). https://doi.org/10.1007/s00253-020-10652-6
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DOI: https://doi.org/10.1007/s00253-020-10652-6