Skip to main content

Thank you for visiting nature.com. You are using a browser version with limited support for CSS. To obtain the best experience, we recommend you use a more up to date browser (or turn off compatibility mode in Internet Explorer). In the meantime, to ensure continued support, we are displaying the site without styles and JavaScript.

  • Article
  • Published:

Application of Mycobacterium smegmatis as a surrogate to evaluate drug leads against Mycobacterium tuberculosis

Abstract

Discovery of new anti-tuberculosis (TB) drugs is a time-consuming process due to the slow-growing nature of Mycobacterium tuberculosis (Mtb). A requirement of biosafety level 3 (BSL-3) facility for performing research associated with Mtb is another limitation for the development of TB drug discovery. In our screening of BSL-1 Mycobacterium spp. against a battery of TB drugs, M. smegmatis (ATCC607) exhibits good agreement with its drug susceptibility against the TB drugs under a low-nutrient culture medium (0.5% Tween 80 in Middlebrook 7H9 broth). M. smegmatis (ATCC607) enters its dormant form in 14 days under a nutrient-deficient condition (a PBS buffer), and shows resistance to a majority of TB drugs, but shows susceptibility to amikacin, capreomycin, ethambutol, and rifampicin (with high concentrations) whose activities against non-replicating (or dormant) Mtb were previously validated.

This is a preview of subscription content, access via your institution

Access options

Buy this article

Prices may be subject to local taxes which are calculated during checkout

Fig. 1
Fig. 2
Fig. 3

Similar content being viewed by others

References

  1. Lauzardo M, Peloquin CA. Tuberculosis therapy for 2016 and beyond. Exp Opin Pharm. 2016;17:1859–72.

    Google Scholar 

  2. Siricilla S, Mitachi K, Wan B, Franzblau SG, Kurosu M. Discovery of a capuramycin analog that kills nonreplicating Mycobacterium tuberculosis and its synergistic effects with translocase I inhibitors. J Antibiot. 2015;68:271–8.

    CAS  PubMed  Google Scholar 

  3. Keri RS, Sasidhar BS, Nagaraja BM, Santos AM. Recent progress in the drug development of coumarin derivatives as potent antituberculosis agents. Eur J Med Chem. 2015;100:257–69.

    CAS  PubMed  Google Scholar 

  4. Muniyan R, Gurunathan J. Antimycobacterial activity of potential plant metabolites with emphasis on management of drug resistant Mycobacterium tuberculosis strains. Res J Biotech. 2017;12:75–86.

    CAS  Google Scholar 

  5. Liu J, Ren HP. Tuberculosis: current treatment and new drug development. Anti-Infect Agents Med Chem. 2006;5:331–44.

    CAS  Google Scholar 

  6. Tomioka H, Namba K. Development of antituberculous drugs: current status and future prospects. Tuberculosis. 2006;81:753–74.

    PubMed  Google Scholar 

  7. Chatelain E, Ioset JR. Drug discovery and development for neglected diseases: the DNDi model. Drug Des Devel Ther. 2011;5:175–81.

    PubMed  PubMed Central  Google Scholar 

  8. Moran M. A breakthrough in R&D for neglected diseases: new ways to get the drugs we need. PLoS Med. 2005;2:e302.

    PubMed  PubMed Central  Google Scholar 

  9. Mitachi K, Yun HG, Gillman CD, Skorupinska-Tudek K, Swiezewska E, Clemons WM, Kurosu M. Substrate tolerance of bacterial glycosyltransferase MurG: novel fluorescence-based assays. ACS Infect Dis. 2019; in press. https://doi.org/10.1021/acsinfecdis.9b00242.

  10. Lemieux MR, Siricilla S, Mitachi K, Eslamimehr S, Wang Y, Yang D, Pressly JD, Kong Y, Park F, Franzblau SG, Kurosu M. An antimycobacterial pleuromutilin analogue effective against dormant bacilli. Bioorg Med Chem. 2018;26:4787–96.

    CAS  PubMed  PubMed Central  Google Scholar 

  11. Kurosu M. Vitamin K2 biosynthesis: drug targets for new antibacterials. Vitamin K2: vital for health and wellbeing. Gordeladze J. (ed.). IntechOpen, 2017. p. 281–95.

  12. Mitachi K, Yun HG, Kurosu SM, Eslamimehr S, Lemieux MR, Klaic L, Clemons WM, Kurosu M. Novel FR-900493 analogues that inhibit the outgrowth of Clostridium difficile spores. ACS Omega. 2018;3:1726–39.

    CAS  PubMed  PubMed Central  Google Scholar 

  13. Mitachi K, Aleiwi BA, Schneider CM, Siricilla S, Kurosu M. Stereocontrolled total synthesis of muraymycin D1 having a dual mode of action against Mycobacterium tuberculosis. J Am Chem Soc. 2016;138:12975–80.

    CAS  PubMed  PubMed Central  Google Scholar 

  14. Mitachi K, Siricilla S, Yang D, Kong Y, Skorupinska-Tudek K, Swiezewska E, Franzblau SG, Kurosu M. Fluorescence-based assay for polyprenyl phosphate-GlcNAc-1-phosphate transferase (WecA) and identification of novel antimycobacterial WecA inhibitors. Anal Biochem. 2016;512:78–90.

    CAS  PubMed  PubMed Central  Google Scholar 

  15. Siricilla S, Mitachi K, Skorupinska-Tudek K, Swiezewska E, Kurosu M. Biosynthesis of a water-soluble lipid I analogue and a convenient assay for translocase I. Anal Biochem. 2014;461:36–45.

    CAS  PubMed  PubMed Central  Google Scholar 

  16. Debnath J, Siricilla S, Wan B, Crick DC, Lenaerts AJ, Franzblau SG, Kurosu M. Discovery of selective menaquinone biosynthesis inhibitors against Mycobacterium tuberculosis. J Med Chem. 2012;55:3739–55.

    CAS  PubMed  PubMed Central  Google Scholar 

  17. Kurosu M, Crick DC. MenA is a promising drug target for developing novel lead molecules to combat Mycobacterium tuberculosis. Med Chem. 2009;5:197–207.

    CAS  PubMed  PubMed Central  Google Scholar 

  18. Kurosu M, Narayanasamy P, Biswas K, Dhiman R, Crick DC. Discovery of 1,4-dihydroxy-2-naphthoate prenyltransferase inhibitors: New drug leads for multidrug-resistant Gram-positive pathogens. J Med Chem. 2007;50:3973–5.

    CAS  PubMed  PubMed Central  Google Scholar 

  19. Namouchi A, Cimino M, Favre-Rochex S, Charles P, Gicqul B. Phenotypic and genomic comparison of Mycobacterium aurum and surrogate model species to Mycobacterium tuberculosis: implications for drug. BMC Genomics. 2017;l18:530/1–9.

    Google Scholar 

  20. Agrawal P, Miryala S, Varshney U. Use of Mycobacterium smegmatis deficient in ADP-ribosyltransferase as surrogate for Mycobacterium tuberculosis in drug testing and mutation analysis. PLoS ONE. 2015;10:e0122076/1–13.

    CAS  Google Scholar 

  21. Chaturvedi V, Dwivedi N, Tripathi RP, Sinha S. Evaluation of Mycobacterium smegmatis as a possible surrogate screen for selecting molecules active against multi-drug resistant Mycobacterium tuberculosis. J Gen Appl Microbiol. 2007;53:333–7.

    CAS  PubMed  Google Scholar 

  22. Quan S, Venter H, Dabbs ER. Ribosylative inactivation of rifampin by Mycobacterium smegmatis is a principal contributor to its low susceptibility to this antibiotic. Antimicrob Agents Chemother. 1997;41:2456–60.

    CAS  PubMed  PubMed Central  Google Scholar 

  23. Franzblau SG, Witzig RS, Mclaughlin JC, Torres P, Madico G, Hernandez A, Degnan MT, Cook MB, Quenzer VK, Ferguson RM, Gilman RH. Rapid, low-technology MIC determination with clinical Mycobacterium tuberculosis isolates by using the microplate Alamar Blue assay. J Clin Microbiol. 1998;36:362–6.

    CAS  PubMed  PubMed Central  Google Scholar 

  24. Heifets L. MIC as a quantitative measurement of the susceptibility of Mycobacterium avium strains to seven antituberculosis drugs. Antimicrob Agents Chemother. 1988;32:1131–6.

    CAS  PubMed  PubMed Central  Google Scholar 

  25. Khanna A, Raj VS, Tarai B, Sood R, Pareek PK, Upadhyay DJ, Sharma P, Rattan A, Saini KS, Singh H. Emergence and molecular characterization of extensively drug-resistant Mycobacterium tuberculosis clinical isolates from the Delhi region in India. Antimicrob Agents Chemother. 2010;54:4789–93.

    CAS  PubMed  PubMed Central  Google Scholar 

  26. Sorrentino F, Gonzalez del RR, Zheng X, Matilla JP, Gomez PT, Hoyos MM, Herran MEP, Losana AM, Av-Gay Y. Development of an intracellular screen for new compounds able to inhibit Mycobacterium tuberculosis growth in human macrophages. Antimicrob Agents Chemother. 2016;60:640–5.

    CAS  PubMed  Google Scholar 

  27. Wu X, Yang J, Tan G, Liu H, Liu Y, Guo Y, Gao R, Wan B, Yu F. Drug resistance characteristics of Mycobacterium tuberculosis isolates from patients with tuberculosis to 12 antituberculous drugs in China. Front Cell Infect Microbiol. 2019;9:345.

    CAS  PubMed  PubMed Central  Google Scholar 

  28. Phelan J, Maitra A, Gupta A, Bhakta S, McNerney R, Coll F, Nair M, Pain A, Clark TG. The draft genome of Mycobacterium aurum, a potential model organism for investigating drugs against Mycobacterium tuberculosis and Mycobacterium leprae. Int J Mycobacteriol. 2015;4:207–16.

    PubMed  Google Scholar 

  29. Heinrichs MT, May RJ, Heider F, Reimers T, Sy SKB, Peloquin CA, Derendorf H. Mycobacterium tuberculosis Strains H37ra and H37rv have equivalent minimum inhibitory concentrations to most antituberculosis drugs. Int J Mycobacteriol. 2018;7:156–61.

    CAS  PubMed  Google Scholar 

  30. Collins L, Franzblau SG. Microplate alamar blue assay versus BACTEC 460 system for high-throughput screening of compounds against Mycobacterium tuberculosis and Mycobacterium avium. Antimicrob Agents Chemother. 1997;41:1004–9.

    CAS  PubMed  PubMed Central  Google Scholar 

  31. Rodrigues L, Villellas C, Bailo R, Viveiros M, Aínsa JA. Role of the mmr efflux pump in drug resistance in Mycobacterium tuberculosis. Antimicrob Agents Chemother. 2013;57:751–7.

    CAS  PubMed  PubMed Central  Google Scholar 

  32. Ollinger J, Bailey MA, Moraski GC, Casey A, Florio S, Alling T, Miller MJ, Parish T. A dual read-out assay to evaluate the potency of compounds active against Mycobacterium tuberculosis. PLoS ONE. 2013;8:e60531/1–9.

    Google Scholar 

  33. Mitchison DA, Zhang Y. Recent developments in the study of pyrazinamide: an update. Prog Resp Res. 2011;40:32–43.

    CAS  Google Scholar 

  34. Zhang Y, Wade MM, Scorpio A, Zhang H, Sun Z. Mode of action of pyrazinamide: disruption of Mycobacterium tuberculosis membrane transport and energetics by pyrazinoic acid. J Antimicrob Chemother. 2003;52:790–5.

    PubMed  Google Scholar 

  35. Mitachi K, Kurosu SM, Eslamimehr S, Lemieux MR, Ishizaki Y, Clemons WM, Kurosu M. Semi-synthesis of an anticancer DPAGT1 inhibitor from a muraymycin biosynthetic intermediate. Org Lett. 2019;21:876–9.

    CAS  PubMed  PubMed Central  Google Scholar 

  36. Kurosu M. Structure-based drug discovery by targeting N-glycan biosynthesis, dolichyl-phosphate N-acetylglucosaminephosphotransferase. Future Med Chem. 2019;11:927–33.

    CAS  PubMed  PubMed Central  Google Scholar 

  37. Klinkenberg LG, Sutherland LA, Bishai WR, Karakousis PC. Metronidazole lacks activity against Mycobacterium tuberculosis in an in vivo hypoxic granuloma model of latency. J Infect Dis. 2008;198:275–83.

    CAS  PubMed  PubMed Central  Google Scholar 

  38. Zhu JH, Wang BW, Pan M, Zeng YN, Rego H, Javid B. Rifampicin can induce antibiotic tolerance in mycobacteria via paradoxical changes in rpoB transcription. Nat Comm. 2018;9:1–13.

    Google Scholar 

  39. Drobniewski FA, Wilson SM. The rapid diagnosis of isoniazid and rifampicin resistance in Mycobacterium tuberculosis—a molecular story. J Med Microbiol. 1998;47:189–96.

    CAS  PubMed  Google Scholar 

  40. Moure R, Espanol M, Tudo G, Vicente E, Coll P, Gonzalez-Martin J, Mick V, Salvado M, Alcaide F. Characterization of the embB gene in Mycobacterium tuberculosis isolates from Barcelona and rapid detection of main mutations related to ethambutol resistance using a low-density DNA array. J Antimicrob Chemother. 2014;69:947–54.

    CAS  PubMed  Google Scholar 

  41. Hazbon MH, Bobadilla del VM, Guerrero MI, Varma-Basil M, Filliol I, Cavatore M, Colangeli R, Safi H, Billman-Jacobe H, Lavender C, Fyfe J, Garcia-Garcia L, Davidow A, Brimacombe M, Leon CI, Porras T, Bose M, Chaves F, Eisenach KD, Sifuentes-Osornio J, Ponce de LA, Cave MD, Alland D. Role of embB codon 306 mutations in Mycobacterium tuberculosis revisited: a novel association with broad drug resistance and IS6110 clustering rather than ethambutol resistance. Antimicrob Agents Chemother. 2005;49:3794–802.

    CAS  PubMed  PubMed Central  Google Scholar 

  42. Telenti A, Philipp WJ, Sreevatsan S, Bernasconi C, Stockbauer KE, Wieles B, Musser JM, Jacobs WR. The emb operon, a gene cluster of Mycobacterium tuberculosis involved in resistance to ethambutol. Nat Med. 1997;3:567–70.

    CAS  PubMed  Google Scholar 

  43. Sirgel FA, Tait M, Warren RM, Streicher EM, Boettger EC, van Helden PD, Gey van Pittius NC, Coetzee G, Hoosain EY, Chabula-Nxiweni M, Hayes C, Victor TC, Trollip A. Mutations in the rrs A1401G gene and phenotypic resistance to amikacin and capreomycin in Mycobacterium tuberculosis. Micro Drug Resist. 2012;18:193–7.

    CAS  Google Scholar 

  44. Fu LM, Shinnick TM. Genome-wide exploration of the drug action of capreomycin on Mycobacterium tuberculosis using Affymetrix oligonucleotide GeneChips. J Infect. 2007;54:277–84.

    PubMed  Google Scholar 

  45. Ho YM, Sun YJ, Wong SY, Lee ASG. Contribution of dfrA and inhA mutations to the detection of isoniazid-resistant Mycobacterium tuberculosis isolates. Antimicrob Agents Chemother. 2009;53:4010–2.

    CAS  PubMed  PubMed Central  Google Scholar 

  46. Timmins GS, Deretic V. Mechanisms of action of isoniazid. Mol Microbiol. 2006;62:1220–7.

    CAS  PubMed  Google Scholar 

  47. Vilchèze C, Jacobs WR. The mechanism of isoniazid killing: clarity through the scope of genetics. Annu Rev Microbiol. 2007;61:35–50.

    PubMed  Google Scholar 

  48. The National Center for Biotechnology Information. www.ncbi.nlm.nih.gov.

  49. Imai T, Watanabe K, Mikami Y, Yazawa K, Ando A, Nagata Y, Morisaki N, Hashimoto Y, Furihata K, Dabbs ER. Identification and characterization of a new intermediate in the ribosylative inactivation pathway of rifampin by Mycobacterium smegmatis. Micro Drug Resist. 1999;5:259–64.

    CAS  Google Scholar 

  50. Kurosu M. Cell wall biosynthesis and latency during tuberculosis infections In: Cirillo J, Kong Y, editors. Tuberculosis host-pathogen interactions. Cham: Springer; 2019. p. 1–21.

  51. Mazurek J, Ignatowicz L, Kallenius G, Svenson SB, Pawlowski A, Hamasur B. Divergent effects of mycobacterial cell wall glycolipids on maturation and function of human monocyte-derived dendritic cells. PLoS ONE. 2012;7:e42515.

    CAS  PubMed  PubMed Central  Google Scholar 

  52. Wayne LG, Hayes LG. An in vitro model for sequential study of shiftdown of Mycobacterium tuberculosis through two stages of nonreplicating persistence. Infect Immun. 1996;64:2062–9.

    CAS  PubMed  PubMed Central  Google Scholar 

  53. Anuchin AM, Mulyukin AL, Suzina NE, Duda VI, El-Registan GI, Kaprelyants AS. Dormant forms of Mycobacterium smegmatis with distinct morphology. Microbiology. 2009;155:1071–9.

    CAS  PubMed  Google Scholar 

  54. Chen X, Hashizume H, Tomishige T, Nakamura I, Matsuba M, Fujiwara M, Kitamoto R, Hanaki E, Ohba Y, Matsumoto M. Delamanid kills dormant mycobacteria in vitro and in a guinea pig model of tuberculosis. Antimicrob Agents Chemother. 2017;61:e02402/1–11.

    CAS  Google Scholar 

  55. Heifets L, Simon J, Pham V. Capreomycin is active against non-replicating M. tuberculosis. Ann Clin Microbiol Antimicrob. 2005;4:6.

    PubMed  PubMed Central  Google Scholar 

  56. Fattorini L, Piccaro G, Mustazzolu A, Giannoni F. Targeting dormant bacilli to fight tuberculosis. Mediterr J Hematol Infect Dis. 2013;5:e2013072.

    PubMed  PubMed Central  Google Scholar 

  57. Munsiff SS, Kambili CA, Shama D. Rifapentine for the treatment of pulmonary tuberculosis. Clin Infect Dis. 2006;43:1468–75.

    CAS  PubMed  Google Scholar 

  58. Raghunandanan S, Jose L, Kumar RA. Dormant Mycobacterium tuberculosis converts isoniazid to the active drug in a Wayne’s model of dormancy. J Antibiot. 2018;71:939–49.

    CAS  PubMed  Google Scholar 

  59. Karakousis PC, Williams EP, Bishai WR. Altered expression of isoniazid-regulated genes in drug-treated dormant Mycobacterium tuberculosis. J Antimicrob Chem. 2008;61:323–31.

    CAS  Google Scholar 

  60. de Steenwinkel JEM, de Knegt GJ, ten Kate MT, van Belkum A, Verbrugh HA, Kremer K, van Soolingen D, Bakker-Woudenberg IAJM. Time-kill kinetics of anti-tuberculosis drugs, and emergence of resistance, in relation to metabolic activity of Mycobacterium tuberculosis. J Antimicrob Chemother. 2010;65:2582–9.

    PubMed  Google Scholar 

  61. Issar S. Mycobacterium tuberculosis pathogenesis and molecular determinants of virulence. Clin Microbiol Rev. 2003;16:463–96.

    Google Scholar 

  62. Chung GAC, Aktar ZJS, Duncan K. High-throughput screen for detecting antimycobacterial agents. Antimicrob Agents Chemother. 1995;39:2235–8.

    CAS  PubMed  PubMed Central  Google Scholar 

  63. Salfinger M, Heifets LB. Determination of pyrazinamide MICs for Mycobacterium tuberculosis at different pHs by the radiometric method. Antimicrob Agents Chemother. 1988;32:1002–4.

    CAS  PubMed  PubMed Central  Google Scholar 

  64. Murray JF, Hopewell PC, Schraufnagel DE. Treatment of tuberculosis. A historical perspective. Ann Am Thorac Soc. 2015;12:1749–59.

    PubMed  Google Scholar 

  65. Filippini P, Iona E, Piccaro G, Peyron P, Neyrolles O, Fattorini L. Activity of drug combinations against dormant Mycobacterium tuberculosis. Antimicrob Agents Chemother. 2010;54:2712–5.

    CAS  PubMed  PubMed Central  Google Scholar 

  66. Iacobino A, Piccaro G, Giannoni F, Mustazzolu A, Fattorini L. Mycobacterium tuberculosis is selectively killed by rifampin and rifapentine in hypoxia at neutral pH. Antimicrob Agents Chemother. 2017;61:e02296-16/1–4.

    Google Scholar 

Download references

Acknowledgements

The National Institutes of Health is greatly acknowledged for financial support of this work (Grant GM114611). MK thanks UTRF (University of Tennessee Health Science Center) for generous financial support (Innovation award R079700292). NMR data were obtained on instruments supported by the NIH Shared Instrumentation Grant. The following reagent was obtained through BEI Resources, NIAID, NIH: Mycobacterium tuberculosis, Strain H37Rv. JY thanks the support of Cystic Fibrosis Foundation Award (JI1810). This article is dedicated to the memory of Dr Isao Kitagawa, Professor Emeritus of pharmaceutical sciences at Osaka University, an inspirational scientist.

Author information

Authors and Affiliations

Authors

Corresponding author

Correspondence to Michio Kurosu.

Ethics declarations

Conflict of interest

The authors declare that they have no conflict of interest.

Additional information

Publisher’s note Springer Nature remains neutral with regard to jurisdictional claims in published maps and institutional affiliations.

Supplementary information

Rights and permissions

Reprints and permissions

About this article

Check for updates. Verify currency and authenticity via CrossMark

Cite this article

Lelovic, N., Mitachi, K., Yang, J. et al. Application of Mycobacterium smegmatis as a surrogate to evaluate drug leads against Mycobacterium tuberculosis. J Antibiot 73, 780–789 (2020). https://doi.org/10.1038/s41429-020-0320-7

Download citation

  • Received:

  • Revised:

  • Accepted:

  • Published:

  • Issue Date:

  • DOI: https://doi.org/10.1038/s41429-020-0320-7

This article is cited by

Search

Quick links