Difference between revisions of "Part:BBa K5246038"

Revision as of 19:58, 1 October 2024

Usage and Biology

WecB is a UDP-N-acetylglucosamine 2-epimerase that catalyzes the first step in UDP-ManNAcUA(UDP-ManNAcUA) biosynthesis. UDP-ManNAcUA is one of the building blocks for the cell surface polysaccharide enterobacterial common antigen (ECA). WecB synthesizes one of the essential sugars for ECA, and deleting the wecA gene impairs the ECA synthesis pathway in E.coli, therefore lipopolysaccharides containing it are not produced. UDP-ManNAcUA is hypothetically one of the monosaccharides in polysaccharides produced by C. crescentus. We wanted to impair the synthesis of UDP-ManNAcUA to learn about the composition of our polysaccharide. BL21(DE3) is an E.coli expression strain suitable for the expression of non-toxic heterologous genes. The BL21(DE3) strain has a lambda DE3 prophage that allows for the expression of T7 RNA polymerase with IPTG. This strain is an E. coli B derivative that lacks the lon and OmpT proteases, which help preserve foreign proteins from degradation.

BL21(DE3) ΔWecB

Introduction

Vilnius-Lithuania iGEM 2024 project Synhesion aspires to create biodegradable and environmentally friendly adhesives. We were inspired by bacteria, which naturally produce adhesives made from polysaccharides. Two bacteria from aquatic environments - Caulobacter crescentus and Hirschia baltica - harness 12 protein synthesis pathways to produce sugars, anchoring them to the surfaces. We aimed to transfer the polysaccharide synthesis pathway to industrially used Escherichia coli bacteria to produce adhesives. Our team concomitantly focused on creating a novel E. coli strain for more efficient production of adhesives.

This is a part of the complete holdfast polymerization and export apparatus BBa_K5246046 used in Vilnius-Lithuania iGEM 2024 project "Synhesion" https://2024.igem.wiki/vilnius-lithuania/. This part can also be used separately for polysaccharide export, but this feature needs more characterization.

Strain description

Escherichia coli BL21(DE3) protein expression strain derived from Escherichia coli B strain. It produces recombinant proteins under the control of T7 RNA polymerase [1]. This strain lacks the proteases Lon and OmpT, which reduces the likelihood of recombinant protein degradation [2]. This strain is resistant to phage T1 (fhuA2), which improves survival and growth of the cells [3].

Usage and Biology

Biology

The enterobacterial common antigen (ECA) is an outer membrane glycolipid shared by all members of the Enterobacteriaceae and is restricted to this family. It is a glycophospholipid located in the outer leaflet of the outer membrane, composed of an L-glycerophosphatidyl residue linked to an aminosugar heteropolymer [4]. The carbohydrate consists of trisaccharide repeat units of N-acetyl-α-D-glucosamine, N-acetyl-β-D-mannosaminuronate, and N-acetylthomosamine [5]. The function of this molecule has remained largely unknown, partly because the biosynthesis pathways for ECA, O-antigen, and peptidoglycan overlap and partly because there are three forms of ECA that cannot currently be genetically separated [6]. Current research suggests that its function is to maintain outer membrane stability and immunogenicity, and it is involved in biofilm formation [7],[8],[9].

WecB is UDP-N-acetylglucosamine 2-epimerase that synthesizes UDP-ManNAc - a precursor substrate for the biosynthesis of ECA on an outer membrane. The enzyme catalyzes the first step in UDP-ManNAc biosynthesis, the reversible epimerization at the C-2 position between UDP-N-acetylglucosamine (UDP-GlcNAc) and UDP-N-acetylmannosamine (UDP-ManNAc) [11].

Eliminating the wecB gene results in ECA and lipopolysaccharide 08-side chain inactivation without causing high-stress levels [12].

Usage

<Escherichia coli BL21(DE3) protein expression strain is used to produce recombinant proteins under the control of T7 RNA polymerase [1]. BL21(DE3) is widely used in both research and industrial settings. It is particularly popular due to its high efficiency in producing recombinant proteins. More specifically, it is widely used as medical diagnostic reagents in human healthcare, including vaccines, drugs, or antibodies, and in biochemical analysis[13].

Knocking out the wecB gene [14]. BL21(DE3)∆wecB strain could be used to investigate the ECA pathway further and the cell interactions with other cells or bacteriophages. This strain could be used in biotechnology as cells with altered surface properties. Biofilms are increasingly recognized as a critical global issue in many industries and come out with economic costs. Biofilms contaminate manufacturing equipment and pharmaceuticals, compromising product quality and safety. Biofilms can foul heat exchangers, pipelines, and other industrial equipment, leading to decreased performance and increased energy consumption. A strain with reduced biofilm formation could save power consumption and finances [15]. On top of that, exposed glycan structures often serve as initial receptors for host - N4 bacteriophage - recognition. Subsequent binding to a terminal or secondary receptor directly on the cell surface triggers irreversible adsorption and injection of the phage genome. [16] N4 bacteriophage infects industrially grown bacteria. Eliminating recognition antigens on these bacteria could provide them additional resistance to N4 phage infection. [17].

In our project, Synhesion, we aimed to produce an efficient polysaccharide in E. coli by introducing a new synthesis pathway. Additionally, the exact composition of this polysaccharide was not known. By disabling the wecB gene in E.coli and thereby inhibiting the production of N-acetylmannosaminuronic acid, we could investigate whether this monosaccharide is a component of the C. crescentus holdfast.

Sequence and Features

Functional Parameters

Experimental characterization

To create an ECA pathway deficient E. coli BL21(DE3)∆wecA strain, we used a homology recombineering Red/ET recombination system. Our edited colonies had kanamycin-resistance cassettes as markers in the edited region, and we tested them by colony PCR (Fig 1.). We could distinguish edited and non-edited colonies by size: PCR’ed non-edited region 1577 bp and with edited region 1844 bp.

References

1. Langenscheid, J., Killmann, H., & Braun, V. (2004). A FhuA mutant of Escherichia coli is infected by phage T1 independent of TonB. FEMS Microbiology Letters, 234(1), 133–137. https://doi.org/10.1016/j.femsle.2004.03.019
2. Reduction of protein degradation by use of protease-deficient mutants in cell-free protein synthesis system of Escherichia coli. (2002). Journal of Bioscience and Bioengineering, 93(1), 19–25. https://doi.org/10.1016/S1389-1723(02)80007-X
3. Davis, B. M., & Waldor, M. K. (2009). Genome sequences of Escherichia coli B strains REL606 and BL21(DE3). Journal of Molecular Biology, 394(4), 1026–1036. https://doi.org/10.1016/j.jmb.2009.09.052
4. Rick, P. D., Hubbard, G. L., & Barr, K. (1994). Role of the rfe gene in the synthesis of the O8 antigen in Escherichia coli K-12. Journal of Bacteriology, 176(9), 2877–2884. https://doi.org/10.1128/jb.176.9.2877-2884.1994
5. Klena, J. D., & Schnaitman, C. A. (1993). Function of the rfb gene cluster and the rfe gene in the synthesis of O antigen by Shigella dysenteriae 1. Molecular Microbiology, 9(2), 393–402. https://doi.org/10.1111/j.1365-2958.1993.tb01705.x
6. Alexander, D. C., & Valvano, M. A. (1994). Role of the rfe gene in the biosynthesis of the Escherichia coli O7-specific lipopolysaccharide and other O-specific polysaccharides containing N-acetylglucosamine. Journal of Bacteriology, 176(22), 7079–7084. https://doi.org/10.1128/jb.176.22.7079-7084.1994
7. Sala, R. F., Morgan, P. M., & Tanner, M. E. (1996). Journal of the American Chemical Society, 118(12), 3033–3034. https://doi.org/10.1021/ja960266z
8. Jorgenson, M. A., Kannan, S., Laubacher, M. E., & Young, K. D. (2016). Dead-end intermediates in the enterobacterial common antigen pathway induce morphological defects in Escherichia coli by competing for undecaprenyl phosphate. Molecular Microbiology, 100(1), 1–14. https://doi.org/10.1111/mmi.13304
9. Zeidan, A. A., Poulsen, V. K., Janzen, T., Buldo, P., Derkx, P. M. F., Øregaard, G., & Neves, A. R. (2017). Polysaccharide production by lactic acid bacteria: From genes to industrial applications. FEMS Microbiology Reviews, 41(Suppl_1), S168–S200. https://doi.org/10.1093/femsre/fux017
10. Rai, A. K., Carr, J. F., Bautista, D. E., Wang, W., & Mitchell, A. M. (2021). ElyC and cyclic enterobacterial common antigen regulate synthesis of phosphoglyceride-linked enterobacterial common antigen. mBio, 12(5), e02846-21. https://doi.org/10.1128/mBio.02846-21
11. Sala, R. F., Morgan, P. M., & Tanner, M. E. (1996). Enzyme-catalyzed formation of stable enolates: Mechanism of the reaction catalyzed by GDP-mannose 3,5-epimerase. Journal of the American Chemical Society, 118(12), 3033–3034. https://doi.org/10.1021/ja960266z
12. Nobrega, F. L., Vlot, M., de Jonge, P. A., Drost, M., & Brouns, S. J. J. (2018). Targeting mechanisms of tailed bacteriophages. Nature Reviews Microbiology, 16(12), 760–773. https://doi.org/10.1038/s41579-018-0070-8
13. McPartland, J., & Rothman-Denes, L. B. (2009). The tail sheath of bacteriophage N4 interacts with the Escherichia coli receptor. Journal of Bacteriology, 191(2), 525–532. https://doi.org/10.1128/JB.01423-08
14. Rick, P. D., Hubbard, G. L., & Barr, K. (1994). Role of the rfe gene in the synthesis of the O8 antigen in Escherichia coli K-12. Journal of Bacteriology, 176(9), 2877–2884. https://doi.org/10.1128/jb.176.9.2877-2884.1994
15. Klena, J. D., & Schnaitman, C. A. (1993). Function of the rfb gene cluster and the rfe gene in the synthesis of O antigen by Shigella dysenteriae 1. Molecular Microbiology, 9(2), 393–402. https://doi.org/10.1111/j.1365-2958.1993.tb01705.x
16. Alexander, D. C., & Valvano, M. A. (1994). Role of the rfe gene in the biosynthesis of the Escherichia coli O7-specific lipopolysaccharide and other O-specific polysaccharides containing N-acetylglucosamine. Journal of Bacteriology, 176(22), 7079–7084. https://doi.org/10.1128/jb.176.22.7079-7084.1994
17. Sala, R. F., Morgan, P. M., & Tanner, M. E. (1996). Journal of the American Chemical Society, 118(12), 3033–3034. https://doi.org/10.1021/ja960266z