Cited by 61Tuberculosis Research and EpidemiologyMicroRNA in disease regulationMycobacterium research and diagnosis

Mycobacterium tuberculosis Modulates miR-106b-5p to Control Cathepsin S Expression Resulting in Higher Pathogen Survival and Poor T-Cell Activation

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Pires, David, Bernard, Elliott M., Pombo, João Palma, Carmo, Nuno, Fialho, Catarina, Gutierrez, Maximiliano Gabriel, Bettencourt, Paulo, Anes, Elsa·2017·Frontiers in Immunology

Abstract

The success of tuberculosis (TB) bacillus, M. tuberculosis (Mtb), relies on the ability to survive in host cells and escape to immune surveillance and activation. We recently demonstrated that Mtb manipulation of host lysosomal cathepsins in macrophages leads to decreased enzymatic activity and pathogen survival. In addition, while searching for microRNAs involved in post-transcriptional gene regulation during mycobacteria infection of human macrophages, we found that selected microRNAs such as miR-106b-5p were specifically up-regulated by pathogenic mycobacteria. Here, we show that miR-106b-5p is actively manipulated by Mtb to ensure its survival in macrophages. Using an in silico prediction approach, we identified miR-106b-5p with a potential binding to the 3'-untranslated region (3'-UTR) of cathepsin S (CtsS) mRNA. We demonstrated by luminescence-based methods that miR-106b-5p indeed targets CTSS mRNA resulting in protein translation silencing. Moreover, miR-106b-5p gain-of-function experiments lead to a decreased CtsS expression favoring Mtb intracellular survival. By contrast, a miR-106b-5p loss-of-function in infected cells was concomitant with increased CtsS expression, with significant intracellular killing of Mtb and T-cell activation. Modulation of miR-106b-5p did not impact necrosis, apoptosis or autophagy arguing that miR-106b-5p directly targeted CtsS expression as a way for Mtb to avoid exposure to degradative enzymes in the endocytic pathway. Altogether, our data suggest that manipulation of miR-106b-5p as a potential target for host-directed therapy for Mtb infection.

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  • miR-106-5p is upregulated by Mtb infection in macrophages and targets cathepsin S mRNA, decreasing lysosomal activity.

    “miR-106-5p, a microRNA upregulated by Mtb infection in macrophages and targets cathepsin S (CtsS) mRNA, thus decreasing lysosomal activity [136,198].”

    From MicroRNAs as Regulators of Phagocytosis (2022) · cites this paper as [136]

    The Results section (‘Mtb Induces the Expression of miR-106b-5p in Human Mø’) reports upregulation during infection, and the Abstract reports that miR-106b-5p targets CtsS mRNA. The cited paper identifies the microRNA as miR-106b-5p, not miR-106-5p, and reports reduced CtsS activity and endolysosomal proteolysis rather than a general decrease in lysosomal activity. (LLM, conf=0.87)

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Research works printed but not linked: 48

  1. [2]Armstrong JA Hart PD Phagosome-lysosome interactions in cultured macrophages infected with virulent tubercle bacilli. Reversal of the usual nonfusion pattern and observations on bacterial survival. J Exp Med (1975) 142: 1– 16. 10.1084/jem.142.1.1 807671 PMC2189870 · DOI
  2. [3]Clemens DL Horwitz MA Characterization of the Mycobacterium tuberculosis phagosome and evidence that phagosomal maturation is inhibited. J Exp Med (1995) 181: 257– 70. 10.1084/jem.181.1.257 7807006 PMC2191842 · DOI
  3. [5]Vergne I Chua J Singh SB Deretic V. Cell biology of Mycobacterium tuberculosis phagosome. Annu Rev Cell Dev Biol (2004) 20: 367– 94. 10.1146/annurev.cellbio.20.010403.114015 15473845 · DOI
  4. [6]Jordao L Bleck CKE Mayorga L Griffiths G Anes E. On the killing of mycobacteria by macrophages. Cell Microbiol (2008) 10: 529– 48. 10.1111/j.1462-5822.2007.01067.x 17986264 · DOI
  5. [7]Olson OC Joyce JA. Cysteine cathepsin proteases: regulators of cancer progression and therapeutic response. Nat Rev Cancer (2015) 15: 712– 29. 10.1038/nrc4027 26597527 · DOI
  6. [8]de Martino M Galli L Chiappini E. Reflections on the immunology of tuberculosis: will we ever unravel the skein? BMC Infect Dis (2014) 14(Suppl 1): S1. 10.1186/1471-2334-14-S1-S1 24564297 PMC4015689 · DOI
  7. [9]Pires D Marques J Pombo JP Carmo N Bettencourt P Neyrolles O Role of cathepsins in Mycobacterium tuberculosis survival in human macrophages. Sci Rep (2016) 6: 32247. 10.1038/srep32247 27572605 PMC5004184 · DOI
  8. [10]Wilkinson RDA Williams R Scott CJ Burden RE. Cathepsin S: therapeutic, diagnostic, and prognostic potential. Biol Chem (2015) 396: 867– 82. 10.1515/hsz-2015-0114 25872877 · DOI
  9. [11]Storm van’s Gravesande K Layne MD Ye Q Le L Baron RM Perrella MA IFN regulatory factor-1 regulates IFN-γ-dependent cathepsin S expression. J Immunol (2002) 168: 4488– 94. 10.4049/jimmunol.168.9.4488 11970993 · DOI
  10. [12]Costantino CM Ploegh HL Hafler DA. Cathepsin S regulates class II MHC processing in human CD4+ HLA-DR+ T cells. J Immunol (2009) 183: 945– 52. 10.4049/jimmunol.0900921 19553543 PMC2752291 · DOI
  11. [13]Driessen C Bryant RA Lennon-Duménil AM Villadangos JA Bryant PW Shi GP Cathepsin S controls the trafficking and maturation of MHC class II molecules in dendritic cells. J Cell Biol (1999) 147: 775– 90. 10.1083/jcb.147.4.775 10562280 PMC2156161 · DOI
  12. [14]Baena A Porcelli SA. Evasion and subversion of antigen presentation by Mycobacterium tuberculosis. Tissue Antigens (2009) 74: 189– 204. 10.1111/j.1399-0039.2009.01301.x 19563525 PMC2753606 · DOI
  13. [15]Pai RK Convery M Hamilton TA Boom WH Harding CV Inhibition of IFNγ-induced class II transactivator expression by a 19-kDa lipoprotein from Mycobacterium tuberculosis: a potential mechanism for immune evasion. J Immunol (2003) 171: 175– 84. 10.4049/jimmunol.171.1.175 12816996 · DOI
  14. [16]Sendide K Deghmane AE Pechkovsky D Av-Gay Y Talal A Hmama Z. Mycobacterium bovis BCG attenuates surface expression of mature class II molecules through IL-10-dependent inhibition of cathepsin S. J Immunol (2005) 175: 5324– 32. 10.4049/jimmunol.175.8.5324 16210638 · DOI
  15. [17]Chen K-L Chang W-SW Cheung CHA Lin C-C Huang C-C Yang Y-N Targeting cathepsin S induces tumor cell autophagy via the EGFR-ERK signaling pathway. Cancer Lett (2012) 317: 89– 98. 10.1016/j.canlet.2011.11.015 22101325 · DOI
  16. [18]Gutierrez MG Master SS Singh SB Taylor GA Colombo MI Deretic V. Autophagy is a defense mechanism inhibiting BCG and Mycobacterium tuberculosis survival in infected macrophages. Cell (2004) 119: 753– 66. 10.1016/j.cell.2004.11.038 15607973 · DOI · Paper page
  17. [19]Bartel DP. MicroRNAs: genomics, biogenesis, mechanism, and function. Cell (2004) 116: 281– 97. 10.1016/S0092-8674(04)00045-5 14744438 · DOI
  18. [20]Lu R Maduro M Li F Li HW Broitman-Maduro G Li WX Animal virus replication and RNAi-mediated antiviral silencing in Caenorhabditis elegans. Nature (2005) 436: 1040– 3. 10.1038/nature03870 16107851 PMC1388260 · DOI
  19. [21]O’Donnell KA Wentzel EA Zeller KI Dang CV Mendell JT. c-Myc-regulated microRNAs modulate E2F1 expression. Nature (2005) 435: 839– 43. 10.1038/nature03677 15944709 · DOI
  20. [23]Bettencourt P Marion S Pires D Santos LF Lastrucci C Carmo N Actin-binding protein regulation by microRNAs as a novel microbial strategy to modulate phagocytosis by host cells: the case of N-Wasp and miR-142-3p. Front Cell Infect Microbiol (2013) 3: 19. 10.3389/fcimb.2013.00019 23760605 PMC3672780 · DOI · Paper page
  21. [24]Dorhoi A Iannaccone M Farinacci M Faé KC Schreiber J Moura-Alves P MicroRNA-223 controls susceptibility to tuberculosis by regulating lung neutrophil recruitment. J Clin Invest (2013) 123: 4836– 48. 10.1172/JCI67604 24084739 PMC3809781 · DOI
  22. [25]Bettencourt P Pires D Anes E. Immunomodulating microRNAs of mycobacterial infections. Tuberculosis (2016) 97: 1– 7. 10.1016/j.tube.2015.12.004 26980489 · DOI
  23. [26]Lu C Chen J Xu HG Zhou X He Q Li YL MIR106B and MIR93 prevent removal of bacteria from epithelial cells by disrupting ATG16L1-mediated autophagy. Gastroenterology (2014) 146: 188– 99. 10.1053/j.gastro.2013.09.006 24036151 PMC3870037 · DOI
  24. [27]Wang C Peyron P Mestre O Kaplan G van Soolingen D Gao Q Innate immune response to Mycobacterium tuberculosis Beijing and other genotypes. PLoS ONE (2010) 5: e13594 10.1371/journal.pone.0013594 21049036 PMC2963601 · DOI
  25. [28]Anes E Kuhnel M Boss E Moniz-Pereira J Habermann A Griffiths G. Selected lipids activate phagosome actin assembly and maturation resulting in killing of pathogenic mycobacteria. Nat Cell Biol (2003) 5: 793– 802. 10.1038/ncb1036 12942085 · DOI
  26. [29]Schneider CA Rasband WS Eliceiri KW. NIH Image to ImageJ: 25 years of image analysis. Nat Methods (2012) 9: 671– 5. 10.1038/nmeth.2089 22930834 PMC5554542 · DOI · Paper page
  27. [30]Betel D Wilson M Gabow A Marks DS Sander C. The microRNA.org resource: targets and expression. Nucleic Acids Res (2008) 36: D149– 53. 10.1093/nar/gkm995 18158296 PMC2238905 · DOI
  28. [31]Wang X. miRDB: a microRNA target prediction and functional annotation database with a wiki interface. RNA (2008) 14: 1012– 7. 10.1261/rna.965408 18426918 PMC2390791 · DOI
  29. [32]Vejnar CE Zdobnov EM. miRmap: comprehensive prediction of microRNA target repression strength. Nucleic Acids Res (2012) 40: 11673– 83. 10.1093/nar/gks901 23034802 PMC3526310 · DOI
  30. [33]Krüger J Rehmsmeier M. RNAhybrid: microRNA target prediction easy, fast and flexible. Nucleic Acids Res (2006) 34: W451– 4. 10.1093/nar/gkl243 16845047 PMC1538877 · DOI · Paper page
  31. [34]Riese RJ Mitchell RN Villadangos JA Shi GP Palmer JT Karp ER Cathepsin S activity regulates antigen presentation and immunity. J Clin Invest (1998) 101: 2351– 63. 10.1172/JCI1158 9616206 PMC508824 · DOI
  32. [35]Pawar K Sharbati J Einspanier R Sharbati S. Mycobacterium bovis BCG interferes with miR-3619-5p control of cathepsin S in the process of autophagy. Front Cell Infect Microbiol (2016) 6: 27. 10.3389/fcimb.2016.00027 27014637 PMC4783571 · DOI
  33. [36]Mogilyansky E Rigoutsos I. The miR-17/92 cluster: a comprehensive update on its genomics, genetics, functions and increasingly important and numerous roles in health and disease. Cell Death Differ (2013) 20: 1603– 14. 10.1038/cdd.2013.125 24212931 PMC3824591 · DOI · Paper page
  34. [37]Behar SM Divangahi M Remold HG. Evasion of innate immunity by Mycobacterium tuberculosis: is death an exit strategy? Nat Rev Microbiol (2010) 8: 668– 74. 10.1038/nrmicro2387 20676146 PMC3221965 · DOI
  35. [38]Fairbairn IP. Macrophage apoptosis in host immunity to mycobacterial infections. Biochem Soc Trans (2004) 32: 496– 8. 10.1042/BST0320496 15157170 · DOI
  36. [39]Zhai Z Wu F Chuang AY Kwon JH. miR-106b fine tunes ATG16L1 expression and autophagic activity in intestinal epithelial HCT116 cells. Inflamm Bowel Dis (2013) 19: 2295– 301. 10.1097/MIB.0b013e31829e71cf 23899543 PMC4831870 · DOI
  37. [40]Zhai Z Wu F Dong F Chuang AY Messer JS Boone DL Human autophagy gene ATG16L1 is post-transcriptionally regulated by MIR142-3p. Autophagy (2014) 10: 468– 79. 10.4161/auto.27553 24401604 PMC4077885 · DOI
  38. [41]Pan L Li Y Jia L Qin Y Qi G Cheng J Cathepsin S deficiency results in abnormal accumulation of autophagosomes in macrophages and enhances Ang II-induced cardiac inflammation. PLoS One (2012) 7: e35315. 10.1371/journal.pone.0035315 22558139 PMC3340377 · DOI
  39. [42]Burgos-Portugal JA Mitchell HM Castaño-Rodríguez N Kaakoush NO. The role of autophagy in the intracellular survival of Campylobacter concisus. FEBS Open Bio (2014) 4: 301– 9. 10.1016/j.fob.2014.03.008 24918042 PMC4048850 · DOI
  40. [43]Behar SM Baehrecke EH Tuberculosis: autophagy is not the answer. Nature (2015) 528: 482– 3. 10.1038/nature16324 26649822 · DOI
  41. [45]Saitoh T Akira S. Regulation of inflammasomes by autophagy. J Allergy Clin Immunol (2016) 138: 28– 36. 10.1016/j.jaci.2016.05.009 27373323 · DOI
  42. [46]Kleinnijenhuis J Oosting M Plantinga TS van der Meer JWM Joosten LAB Crevel RV Autophagy modulates the Mycobacterium tuberculosis-induced cytokine response. Immunology (2011) 134: 341– 8. 10.1111/j.1365-2567.2011.03494.x 21978003 PMC3209573 · DOI
  43. [47]Bergsbaken T Fink SL Cookson BT Pyroptosis: host cell death and inflammation. Nat Rev Microbiol (2009) 7: 99– 109. 10.1038/nrmicro2070 19148178 PMC2910423 · DOI
  44. [48]Simeone R Bobard A Lippmann J Bitter W Majlessi L Brosch R Phagosomal rupture by Mycobacterium tuberculosis results in toxicity and host cell death. PLoS Pathog (2012) 8: e1002507. 10.1371/journal.ppat.1002507 22319448 PMC3271072 · DOI · Paper page
  45. [49]Sengupta S Naz S Das I Ahad A Padhi A Naik SK Mycobacterium tuberculosis EsxL inhibits MHC-II expression by promoting hypermethylation in class-II transactivator loci in macrophages. J Biol Chem (2017) 292: 6855– 68. 10.1074/jbc.M117.775205 28209712 PMC5409457 · DOI
  46. [50]Meng Q-L Liu F Yang X-Y Liu X-M Zhang X Zhang C Identification of latent tuberculosis infection-related microRNAs in human U937 macrophages expressing Mycobacterium tuberculosis Hsp16.3. BMC Microbiol (2014) 14: 37. 10.1186/1471-2180-14-37 24521422 PMC3925440 · DOI
  47. [51]Machelart A Song O-R Hoffmann E Brodin P Host-directed therapies offer novel opportunities for the fight against tuberculosis. Drug Discov Today (2017) 22: 1250– 7. 10.1016/j.drudis.2017.05.005 28533187 · DOI
  48. [53]Jones AT Sayers EJ. Cell entry of cell penetrating peptides: tales of tails wagging dogs. J Control Release (2012) 161: 582– 91. 10.1016/j.jconrel.2012.04.003 22516088 · DOI

Cited by

Sorted by citations

Authors
Pires, D., Bernard, E. M., Pombo, J. P., Carmo, N., Fialho, C., Gutierrez, M. G., Bettencourt, P., & Anes, E.
Affiliations
  • University of Lisbon (PT)
  • The Francis Crick Institute (GB)
Corresponding author
Anes, Elsa
Venue
Frontiers in Immunology
Published
2017-12-18
Volume
8
Pages
1819-1819
ISSN
1664-3224 (ISSN-L)
OpenAlex
W2772266294
Cited by
61
References
4
Citations by year
2026: 2 · 2025: 8 · 2024: 5 · 2023: 8 · 2022: 10 · 2021: 12 · 2020: 7 · 2019: 5 · 2018: 3
FWCI
3.16
Type
journal article
Language
en
Open access
Licence
cc-by
Locations
  • Frontiers in Immunology (publishedVersion, cc-by)
  • Europe PMC (PubMed Central) (publishedVersion, cc-by)
  • PubMed Central (publishedVersion, cc-by)
  • PubMed (publishedVersion)
  • DOAJ (DOAJ: Directory of Open Access Journals) (submittedVersion, cc-by-sa)
  • Figshare (submittedVersion, cc-by)
Funders
  • Fundação para a Ciência e a Tecnologia (PTDC/BIA-BCM/102123/2008, PTDC/Sau-MII/098024/2008)
  • Francis Crick Institute (Cancer Research UK FC001092, UK Medical Research Council MC_UP_1202/11, FC001092, Wellcome Trust FC001092)
Topics
  • Health Sciences › Medicine › Infectious Diseases › Tuberculosis Research and Epidemiology
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Cancer Research › MicroRNA in disease regulation
  • Health Sciences › Medicine › Epidemiology › Mycobacterium research and diagnosis
Keywords
Mycobacterium tuberculosis, miR-106b-5p, cathepsin S, microRNA regulation, host-directed therapy, intracellular survival, macrophages, T cell activation, lysosomal enzymes, post-transcriptional regulation, 3' untranslated region, host-pathogen interaction, tuberculosis

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