The lipolytic activity of LipJ, a stress-induced enzyme, is regulated by its C-terminal adenylate cyclase domain
Abstract
Aim: The confirmation of lipolytic activity and role of Rv1900c in the Mycobacterium physiology Methods:rv1900c/N-terminus domain (rv1900NT) were cloned in pET28a/Escherichia coli, purified by affinity chromatography and characterized. Results: A zone of clearance on tributyrin-agar and activity with pNP-decanoate confirmed the lipolytic activity of Rv1900c. The Rv1900NT demonstrated higher enzyme specific activity, Vmax and kcat, but Rv1900c was more thermostable. The lipolytic activity of Rv1900c decreased in presence of ATP. Mycobacterium smegmatis expressed rv1900c/rv1900NT-altered colony morphology, growth, cell surface properties and survival under stress conditions. The effect was more prominent with Rv1900NT as compared with Rv1900c. Conclusion: The study confirmed the lipolytic activity of Rv1900c and suggested its regulation by the adenylate cyclase domain and role in the intracellular survival of bacteria.
Lay abstract
Tuberculosis (TB) remains the top contagious/infectious killer in the world. It is caused by the bacteria Mycobacterium tuberculosis. The bacteria resides/replicates in the immune cell that normally has to eradicate infectious microorganisms. Though the treatment of TB is available, the emergence of drug-resistant bacteria is of major concern. The treatment of drug-resistant TB has been reported to be more difficult due to lengthy and complex treatment regimens. Therefore, there is an urgent need for new and better drugs to treat TB/drug-resistant TB. For this purpose understanding the role of each protein in the physiology of mycobacteria is required. Lipids play a critical role in the intracellular survival of this pathogen in the host. Our study demonstrated that LipJ supported the intracellular survival of bacteria. Therefore, it could be a potential drug target.
Graphical abstract
Papers of special note have been highlighted as: • of interest; •• of considerable interest
References
- 1. WHO. Global tuberculosis report 2018 (2018). https://apps.who.int/iris/handle/10665/274453
- 2. WHO. Global tuberculosis report 2019 (2020). https://www.who.int/publications/i/item/global-tuberculosis-report-2019
- 3. WHO. Tuberculosis report 2017 global (2017). https://www.who.int/teams/global-tuberculosis-programme/tb-reports
- 4. Deciphering the biology of Mycobacterium tuberculosis from the complete genome sequence. Nature 393(6685), 537–544 (1998).
- 5. . Characterization of an extracellular protein, Rv1076 from M. tuberculosis with a potential role in humoral response. Int. J. Biol. Macromol. 101, 621–629 (2017).
- 6. . Virulence factors of methicillin resistant Staphylococcus aureus (MRSA) isolated from burn patients. Inter. J. Curr. Microbiol. Appl. Sci. 4, 898–906 (2015).
- 7. . Hydrolytic enzymes as virulence factors of Candida albicans. Mycoses 48(6), 365–377 (2005).
- 8. . Importance of secreted lipases for virulence of the phytopathogenic fungus Fusarium graminearum (2008).
- 9. . Cell wall associated factors of Mycobacterium tuberculosis as major virulence determinants: current perspectives in drugs discovery and design. Curr. Drug Targets 18(16), 1904–1918 (2017).
- 10. . Rv0518, a nutritive stress inducible GDSL lipase, of Mycobacterium tuberculosis, enhanced intracellular survival of bacteria by cell wall modulation. Int. J. Biol. Macromol. 135, 180–195 (2019).
- 11. . Lipid metabolism and intracellular bacterial virulence: key to next-generation therapeutics. Future Microbiol. 13(11), 1301–1328 (2018).
- 12. . Mycobacterial cell wall biosynthesis: a multifaceted antibiotic target. Parasitology 145(2), 11–33 (2018).
- 13. . LipC (Rv0220) is an immunogenic cell surface esterase of Mycobacterium tuberculosis. Infect. Immun. 80(1), 243–253 (2012).
- 14. . Molecular characterization of oxidative stress-inducible LipD of Mycobacterium tuberculosis H37Rv. Curr. Microbiol. 68(3), 387–396 (2014).
- 15. . Expression and characterization of the carboxyl esterase Rv3487c from Mycobacterium tuberculosis. Protein Expr. Purif. 42(1), 59–66 (2005).
- 16. . Determination of the minimal acid-inducible promoter region of the lipF gene from Mycobacterium tuberculosis. Gene 395(1–2), 22–28 (2007).
- 17. . Characterization of a novel esterase Rv1497 of Mycobacterium tuberculosis H37Rv demonstrating β-lactamase activity. Enzyme Microb. Technol. 82, 180–190 (2016).
- 18. . Characterization of LipN (Rv2970c) of Mycobacterium tuberculosis H37Rv and its probable role in xenobiotic degradation. J. Cell. Biochem. 117(2), 390–401 (2016).
- 19. . PE11 (Rv1169c) selectively alters fatty acid components of Mycobacterium smegmatis and host cell interleukin-6 level accompanied with cell death. Front. Microbiol. 6, 613 (2015).
- 20. . Cyclic AMP signalling in mycobacteria: redirecting the conversation with a common currency. Cell. Microbiol. 13(3), 349–358 (2011).
- 21. . A survey of nucleotide cyclases in actinobacteria: unique domain organization and expansion of the class III cyclase family in Mycobacterium tuberculosis. Int. J. Genomics 5(1), 17–038 (2004). • Previously published data of Rv1900c.
- 22. . Origin of asymmetry in adenylyl cyclases: structures of Mycobacterium tuberculosis Rv1900c. EMBO J. 24(4), 663–673 (2005). • Describes the protocol to determine pellicle/biofilm formation and survival under various stress conditions.
- 23. PE11, a PE/PPE family protein of Mycobacterium tuberculosis is involved in cell wall remodeling and virulence. Sci. Rep. 6(1), 1–16 (2016). •• Multiple sequence alignment and homology-based structure modeling of proteins.
- 24. The Pfam protein families database: towards a more sustainable future. Nucleic Acids Res. 44(D1), D279–D285 (2016).
- 25. . Deciphering key features in protein structures with the new ENDscript server. Nucleic Acids Res. 42(W1), W320–W324 (2014).
- 26. Fast, scalable generation of high-quality protein multiple sequence alignments using Clustal Omega. Mol. Sys. Bio. 7(1), 539 (2011).
- 27. . Functional characterization of hypothetical proteins of Mycobacterium tuberculosis with possible esterase/lipase signature: a cumulative in silico and in vitro approach. J. Biomol. Struct. Dyn. 35(6), 1226–1243 (2017).
- 28. . I-TASSER server for protein 3D structure prediction. BMC Bioinform. 9(1), 40 (2008).
- 29. Pfam: the protein families database. Nucleic Acids Res. 42(D1), D222–D230 (2013). • Biochemical characterization of protein.
- 30. Characterization of an acid inducible lipase Rv3203 from Mycobacterium tuberculosis H37Rv. Mol. Biol. Rep. 41(1), 285–296 (2014).
- 31. . Pymol: an open-source molecular graphics tool. CCP4 Newsletter on Protein Crystallography 40(1), 82–92 (2002).
- 32. . Rv2037c, a stress induced conserved hypothetical protein of Mycobacterium tuberculosis, is a phospholipase: role in cell wall modulation and intracellular survival. Int. J. Biol. Macromol. 153, 817–835 (2020). • Resistance to antibiotic.
- 33. . Cell wall inhibitors increase the accumulation of rifampicin in Mycobacterium tuberculosis. Access Microbiol. 1(1), e000006 (2019).
- 34. . An optimal distance cutoff for contact-based protein structure networks using side-chain centers of mass. Sci. Rep. 7(1), 1–11 (2017). •• Describes the role of adenyl cyclase domain in M. tuberculosis, M. smegmatis and E. coli.
- 35. . The structure of a pH-sensing mycobacterial adenylyl cyclase holoenzyme. Science 308(5724), 1020–1023 (2005).
- 36. . Stimulation by cyclic AMP and ppGpp of chloramphenicol acetyl transferase synthesis. Nat. New Biol. 241(112), 237–239 (1973).
- 37. . Cyclic AMP regulation of protein lysine acetylation in Mycobacterium tuberculosis. Nat. Struct. Mol. Biol. 19(8), 811 (2012).
- 38. . Principles and Applications of Fluorescence Spectroscopy. John Wiley & Sons, Oxford, UK (2008).• Describes the role of lipolytic enzymes in life cycle of M. tuberculosis.
- 39. . Mycobacterium tuberculosis: success through dormancy. FEMS Microbiol. Rev. 36(3), 514–532 (2012).
- 40. Lipolytic enzymes in Mycobacterium tuberculosis. Appl. Microbiol. Biotechnol. 78(5), 741–749 (2008).
- 41. A highly conserved transcriptional repressor controls a large regulon involved in lipid degradation in Mycobacterium smegmatis and Mycobacterium tuberculosis. Mol. Microbiol. 65(3), 684–699 (2007).
- 42. . Lipid hydrolizing enzymes in virulence: Mycobacterium tuberculosis as a model system. Critical Rev. Microbiol. 36(3), 259–269 (2010).
- 43. . Molecular characterization of oxidative stress-inducible LipD of Mycobacterium tuberculosis H37Rv. Curr. Microbiol. 68(3), 387–396 (2014).
- 44. LipF increases rifampicin and streptomycin sensitivity in a Mycobacterium tuberculosis surrogate. BMC Microbiol. 20(1), 1–8 (2020).
- 45. . Rv0646c, an esterase from M. tuberculosis, up-regulates the host immune response in THP-1 macrophages cells. Mol. Cell. Biochem. 447(1–2), 189–202 (2018).
- 46. . mesT, a unique epoxide hydrolase, is essential for optimal growth of Mycobacterium tuberculosis in the presence of styrene oxide. Future Microbiol. 12(6), 527–546 (2017).
- 47. . Rv0774c, an iron stress inducible, extracellular esterase is involved in immune-suppression associated with altered cytokine and TLR2 expression. Int. J. Med. Microbiol. 307(2), 126–138 (2017).
- 48. . Rv1288, a two domain, cell wall anchored, nutrient stress inducible carboxyl-esterase of Mycobacterium tuberculosis, modulates cell wall lipid. Front. Cell. Infect. Microbiol. 8, 421 (2018).
- 49. . Down-regulation of PE11, a cell wall associated esterase, enhances the biofilm growth of Mycobacterium tuberculosis and reduces cell wall virulence lipid levels. Microbiology 163(1), 52–61 (2017).
- 50. . Adenylyl cyclase Rv1264 from Mycobacterium tuberculosis has an autoinhibitory N-terminal domain. J. Biol. Chem. 277(18), 15271–15276 (2002).
- 51. . Protein secondary structure and circular dichroism: a practical guide. Proteins: Structure, Function, and Bioinformatics. 7(3), 205–214 (1990).
- 52. . Hyperthermophilic enzymes: sources, uses, and molecular mechanisms for thermostability. Microbiol. Mol. Biol. Rev. 65(1), 1–43 (2001).
- 53. Dynamic life and death interactions between Mycobacterium smegmatis and J774 macrophages. Cell. Microbiol. 8(6), 939–960 (2006).
- 54. . Bacterial proteins with cleaved or uncleaved signal peptides of the general secretory pathway. J. Proteomics 75(2), 502–510 (2011).
- 55. ‘SignalP-5.0’. http://www.cbs.dtu.dk/services/SignalP/
- 56. . cAMP-regulated protein lysine acetylases in mycobacteria. J. Biol. Chem. 285(32), 24313–24323 (2010). •• Stated that M. tuberculosis altered cell surface propeties resulted in increased survival under stress conditions.
- 57. . The cell surface-exposed glycopeptidolipids confer a selective advantage to the smooth variants of Mycobacterium smegmatis in vitro. FEMS Microbiol. Lett. 290(1), 39–44 (2009).
- 58. Mycobacterium tuberculosis PE_PGRS41 enhances the intracellular survival of M. smegmatis within macrophages via blocking innate immunity and inhibition of host defense. Sci. Rep. 7(1), 46716 (2017).
- 59. . Overexpression of Rv2788 increases Mycobacterium stresses survival. Microbiol. Res. 195, 51–59 (2017).
- 60. . Mycobacterium tuberculosis and lipids: insights into molecular mechanisms from persistence to virulence. J. Res. Med. Sci. 23(63), (2018).
- 61. . Fatty acid biosynthesis in Mycobacterium tuberculosis: lateral gene transfer, adaptive evolution, and gene duplication. Proc. Natl Acad. Sci. USA 100(18), 10320–10325 (2003).