Abstract
Recombinant fluorescent fusion proteins are fundamental to advancing many aspects of protein science. Such proteins are typically used to enable the visualization of functional proteins in experimental systems, particularly cell biology. An important problem in biotechnology is the production of functional, soluble proteins. Here we report the use of mCherry-fusions of soluble, cysteine-rich, Leptospira-secreted exotoxins in the PF07598 gene family, the so-called virulence modifying (VM) proteins. The mCherry fusion proteins facilitated the visual detection of pink colonies of the VM proteins (LA3490 and LA1402) and following them through lysis and sequential chromatography steps. CD-spectroscopy analysis confirmed the stability and robustness of the mCherry-fusion protein, with a structure comparable to AlphaFold structural predictions. LA0591, a unique member of the PF07598 gene family that lacks N-terminal ricin B-like domains, was produced without mCherry tag that strengthens the recombinant protein production protocol without fusion protein as well. The current study provides the approaches for the synthesis of 50–125 kDa soluble, cysteine-rich, high-quality fast protein liquid chromatography (FPLC)-purified protein, with and without a mCherry tag. The use of mCherry-fusion proteins enables a streamlined, efficient process of protein production and qualitative and quantitative downstream analytical and functional studies. Approaches for troubleshooting and optimization were evaluated to overcome difficulties in recombinant protein expression and purification, demonstrating biotechnology utility in accelerating recombinant protein production.
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Data Availability
The datasets used and analyzed during the current study are available from the corresponding author upon reasonable request.
References
Bessette PH, Aslund F, Beckwith J, Georgiou G (1999) Efficient folding of proteins with multiple disulfide bonds in the Escherichia coli cytoplasm. Proc Natl Acad Sci USA 96(24):13703–13708
Kaur J, Kumar A, Kaur J (2018) Strategies for optimization of heterologous protein expression in E. coli: roadblocks and reinforcements. Int J Biol Macromol 106:803–822
Gileadi O (2017) Recombinant protein expression in E. coli: a historical perspective. Methods Mol Biol 1586:3–10
Baneyx F (1999) Recombinant protein expression in Escherichia coli. Curr Opin Biotechnol 10(5):411–421
Rosano GL, Ceccarelli EA (2014) Recombinant protein expression in Escherichia coli: advances and challenges. Front Microbiol 5:172
Ferrer M, Chernikova TN, Yakimov MM, Golyshin PN, Timmis KN (2003) Chaperonins govern growth of Escherichia coli at low temperatures. Nat Biotechnol 21(11):1266–1267
Hui CY, Guo Y, Zhang W, Huang XQ (2018) Rapid monitoring of the target protein expression with a fluorescent signal based on a dicistronic construct in Escherichia coli. AMB Express 8(1):81
Basu A, Li X, Leong SS (2011) Refolding of proteins from inclusion bodies: rational design and recipes. Appl Microbiol Biotechnol 92(2):241–251
Gaciarz A, Khatri NK, Velez-Suberbie ML, Saaranen MJ, Uchida Y, Keshavarz-Moore E et al (2017) Efficient soluble expression of disulfide bonded proteins in the cytoplasm of Escherichia coli in fed-batch fermentations on chemically defined minimal media. Microb Cell Fact 16(1):108
Saida F, Uzan M, Odaert B, Bontems F (2006) Expression of highly toxic genes in E. coli: special strategies and genetic tools. Curr Protein Pept Sci 7(1):47–56
Chudakov DM, Matz MV, Lukyanov S, Lukyanov KA (2010) Fluorescent proteins and their applications in imaging living cells and tissues. Physiol Rev 90(3):1103–1163
Shaner NC, Campbell RE, Steinbach PA, Giepmans BN, Palmer AE, Tsien RY (2004) Improved monomeric red, orange and yellow fluorescent proteins derived from Discosoma sp. red fluorescent protein. Nat Biotechnol 22(12):1567–1572
Shaner NC, Steinbach PA, Tsien RY (2005) A guide to choosing fluorescent proteins. Nat Methods 2(12):905–909
Fouts DE, Matthias MA, Adhikarla H, Adler B, Amorim-Santos L, Berg DE et al (2016) What makes a bacterial species pathogenic?: comparative genomic analysis of the genus Leptospira. PLoS Negl Trop Dis 10(2):e0004403
Lehmann JS, Fouts DE, Haft DH, Cannella AP, Ricaldi JN, Brinkac L et al (2013) Pathogenomic inference of virulence-associated genes in Leptospira interrogans. PLoS Negl Trop Dis 7(10):e2468. https://doi.org/10.1371/journal.pntd.0002468
Lehmann JS, Matthias MA, Vinetz JM, Fouts DE (2014) Leptospiral pathogenomics. Pathogens 3(2):280–308
Chaurasia R, Marroquin AS, Vinetz JM, Matthias MA (2022) Pathogenic Leptospira evolved a unique gene family comprised of ricin B-like lectin domain-containing cytotoxins. Front Microbiol 13:859680
Chaurasia R, Salovey A, Guo X, Desir G, Vinetz JM (2022) Vaccination with Leptospira interrogans PF07598 gene family-encoded virulence modifying proteins protects mice from severe leptospirosis and reduces bacterial load in the liver and kidney. Front Cell Infect Microbiol 12:926994
Cong ATQ, Witter TL, Schellenberg MJ (2022) High-efficiency recombinant protein purification using mCherry and YFP nanobody affinity matrices. Protein Sci 31(9):e4383
Rana MS, Wang X, Banerjee A (2018) An improved strategy for fluorescent tagging of membrane proteins for overexpression and purification in mammalian cells. Biochemistry 57(49):6741–6751
LaVallie ER, Lu Z, Diblasio-Smith EA, Collins-Racie LA, McCoy JM (2000) Thioredoxin as a fusion partner for production of soluble recombinant proteins in Escherichia coli. Methods Enzymol 326:322–340
Correddu D, Montano Lopez JJ, Vadakkedath PG, Lai A, Pernes JI, Watson PR et al (2019) An improved method for the heterologous production of soluble human ribosomal proteins in Escherichia coli. Sci Rep 9(1):8884
Yasukawa T, Kanei-Ishii C, Maekawa T, Fujimoto J, Yamamoto T, Ishii S (1995) Increase of solubility of foreign proteins in Escherichia coli by coproduction of the bacterial thioredoxin. J Biol Chem 270(43):25328–25331
Loughran ST, Bree RT, Walls D (2017) Purification of polyhistidine-tagged proteins. Methods Mol Biol 1485:275–303
Blome MC, Petro KA, Schengrund CL (2010) Surface plasmon resonance analysis of ricin binding to plasma membranes isolated from NIH 3T3 cells. Anal Biochem 396(2):212–216
Dawson RM, Paddle BM, Alderton MR (1999) Characterization of the Asialofetuin microtitre plate-binding assay for evaluating inhibitors of ricin lectin activity. J Appl Toxicol 19(5):307–312
Falach R, Sapoznikov A, Gal Y, Elhanany E, Evgy Y, Shifman O et al (2020) The low density receptor-related protein 1 plays a significant role in ricin-mediated intoxication of lung cells. Sci Rep 10(1):9007
Chaurasia R, Vinetz JM (2023) In silico prediction of molecular mechanisms of toxicity mediated by the leptospiral PF07598 gene family-encoded virulence-modifying proteins. Front Mol Biosci 9:1092197
Laemmli UK (1970) Cleavage of structural proteins during the assembly of the head of bacteriophage T4. Nature 227(5259):680–685
Massiah MA, Wright KM, Du H (2016) Obtaining soluble folded proteins from inclusion bodies using sarkosyl, triton X-100, and CHAPS: application to LB and M9 minimal media. Curr Protoc Protein Sci 84:6
Pina AS, Lowe CR, Roque AC (2014) Challenges and opportunities in the purification of recombinant tagged proteins. Biotechnol Adv 32(2):366–381
Lauretti-Ferreira F, Teixeira AAR, Giordano RJ, da Silva JB, Abreu PAE, Barbosa AS et al (2022) Characterization of a virulence-modifying protein of Leptospira interrogans identified by shotgun phage display. Front Microbiol 13:1051698
Saida F (2007) Overview on the expression of toxic gene products in Escherichia coli. Curr Protoc Protein Sci 50:5–19
Stewart EJ, Aslund F, Beckwith J (1998) Disulfide bond formation in the Escherichia coli cytoplasm: an in vivo role reversal for the thioredoxins. EMBO J 17(19):5543–5550
Derman AI, Prinz WA, Belin D, Beckwith J (1993) Mutations that allow disulfide bond formation in the cytoplasm of Escherichia coli. Science 262(5140):1744–1747
Qin M, Wang W, Thirumalai D (2015) Protein folding guides disulfide bond formation. Proc Natl Acad Sci USA 112(36):11241–11246
Singh SM, Panda AK (2005) Solubilization and refolding of bacterial inclusion body proteins. J Biosci Bioeng 99(4):303–310
Moghadam M, Ganji A, Varasteh A, Falak R, Sankian M (2015) Refolding process of cysteine-rich proteins: chitinase as a model. Rep Biochem Mol Biol 4(1):19–24
Mayer M, Buchner J (2004) Refolding of inclusion body proteins. Methods Mol Med 94:239–254
Bhatwa A, Wang W, Hassan YI, Abraham N, Li XZ, Zhou T (2021) Challenges associated with the formation of recombinant protein inclusion bodies in Escherichia coli and strategies to address them for industrial applications. Front Bioeng Biotechnol 9:630551
Carrio MM, Villaverde A (2001) Protein aggregation as bacterial inclusion bodies is reversible. FEBS Lett 489(1):29–33
Singhvi P, Saneja A, Srichandan S, Panda AK (2020) Bacterial inclusion bodies: a treasure trove of bioactive proteins. Trends Biotechnol 38(5):474–486
Ryabova NA, Marchenkov VV, Marchenkova SY, Kotova NV, Semisotnov GV (2013) Molecular chaperone GroEL/ES: unfolding and refolding processes. Biochemistry (Mosc) 78(13):1405–1414
Palmer I, Wingfield PT (2004) Preparation and extraction of insoluble (inclusion-body) proteins from Escherichia coli. Curr Protoc Protein Sci 70:6–3
Carrio M, Gonzalez-Montalban N, Vera A, Villaverde A, Ventura S (2005) Amyloid-like properties of bacterial inclusion bodies. J Mol Biol 347(5):1025–1037
Przybycien TM, Dunn JP, Valax P, Georgiou G (1994) Secondary structure characterization of beta-lactamase inclusion bodies. Protein Eng 7(1):131–136
Garcia-Fruitos E, Gonzalez-Montalban N, Morell M, Vera A, Ferraz RM, Aris A et al (2005) Aggregation as bacterial inclusion bodies does not imply inactivation of enzymes and fluorescent proteins. Microb Cell Fact 4:27
Ke N, Berkmen M (2014) Production of disulfide-bonded proteins in Escherichia coli. Curr Protoc Mol Biol 108:16–21
Salinas G, Pellizza L, Margenat M, Flo M, Fernandez C (2011) Tuned Escherichia coli as a host for the expression of disulfide-rich proteins. Biotechnol J 6(6):686–699
Vieira DS, Chaurasia R, Vinetz JM (2022) Comparison of the PF07598-encoded virulence-modifying proteins of L. interrogans and L. borgpetersenii. Trop Med Infect Dis 8(1):14
Acknowledgements
We would like to thank Dr. Ewa Folta-Stogniew, Director of Biophysics Resource Keck Laboratory, and Dr. James W Murphy, Research Scientist, Yale University for their critical suggestions in CD-spectroscopy. We acknowledge the W. M. Keck Foundation Biotechnology Resource Laboratory at Yale University.
Funding
This work was supported by grants from the United States Public Health Service through National Institutes of Health grants R01AI108276 and U19AI115658, and the Americas Foundation.
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Conceptualization: RC, JV. Data curation and formal analysis: RC. Funding acquisition: JV. Investigation: RC, CL, KH, DSV, JV. Methodology: RC, JV. Resources: JV. Supervision: JV. Visualization: RC, CL, KH, DSV, JV. Writing—original draft: RC. Writing—review and editing: RC, CL, KH, DSV, JV.
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10930_2023_10152_MOESM1_ESM.tiff
Supplementary file1 Figure S1. Optimization of expression and purification of mCherry-LA3490. The pellet of clone expressing mCherry-LA3490 was solubilized using various approaches, and the purification was performed using the standard protocol mentioned in the experimental procedures. (a) Lane 1 shows induced supernatant which was obtained upon solubilization in CelLytic™ B Cell Lysis Reagent. Lane 2 shows induced supernatant solubilized in lysis buffer containing 20 mM Tris–HCl + 150 mM NaCl + 1% TritonX-100. Lanes 3- and 4 show induced supernatant solubilized in CelLytic™ B Cell Lysis Reagent containing 0.1% and 0.01% TritonX-100 respectively. Induced soluble fraction solubilized in CelLytic™ B Cell Lysis Reagent containing 0.1% TritonX-100, was used to purify the LA3490 proteins. The eluted fractions were analyzed on 4–12% bis–tris SDS-PAGE (right panel). F and W1-3 represent flow through and washes. E1-E5 is the eluate fractions. (b) The recombinant clone of mCherry-LA3490 producing pellet was solubilized in CelLytic™ B Cell Lysis Reagent containing 0.01% TritonX-100 and 1 mM CHAPS. IP and IS represent induced pellet and induced supernatant. F and W1-2 represent flow through and wash. E1-E10 is the eluate fractions. (c) The pellet was solubilized in lysis buffer 100 mM NaH2PO4, 10 mM Tris–HCl pH 7.4 containing 8 M Urea followed by sonication and separation of the pellet (IP) and supernatant (IS) fractions. In addition, the pellet was solubilized in lysis buffer 20 mM Tris–HCl + 150 mM NaCl containing 2% or 5% sarkosyl. The induced soluble fraction solubilized with 5% sarkosyl was subjected to purification using AKTA pure and eluted fractions were analyzed on 4–12% bis–tris SDS-PAGE (right panel). W shows wash, and E1-E8 represents eluted fractions. M represents the molecular weight marker. (TIFF 4423 KB)
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Chaurasia, R., Liang, C., How, K. et al. Production and Purification of Cysteine-Rich Leptospiral Virulence-Modifying Proteins with or Without mCherry Fusion. Protein J 42, 792–801 (2023). https://doi.org/10.1007/s10930-023-10152-2
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DOI: https://doi.org/10.1007/s10930-023-10152-2