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Volumn 19, Issue 1, 2018, Pages

Understanding the role of interactions between host and Mycobacterium tuberculosis under hypoxic condition: An in silico approach

Author keywords

Flux balance analysis; Gene regulatory network; Genome scale metabolic model; Host pathogen interactions; Hypoxia; Mycobacterium tuberculosis infection

Indexed keywords

REACTIVE NITROGEN SPECIES; REACTIVE OXYGEN METABOLITE; BACTERIAL PROTEIN;

EID: 85050616156     PISSN: None     EISSN: 14712164     Source Type: Journal    
DOI: 10.1186/s12864-018-4947-8     Document Type: Article
Times cited : (11)

References (51)
  • 1
    • 84964661163 scopus 로고    scopus 로고
    • Modulation of host autophagy during bacterial infection: sabotaging host munitions for pathogen nutrition
    • Escoll P, Rolando M, Buchrieser C. Modulation of host autophagy during bacterial infection: sabotaging host munitions for pathogen nutrition. Front Immunol. 2016;7:81.
    • (2016) Front Immunol , vol.7 , pp. 81
    • Escoll, P.1    Rolando, M.2    Buchrieser, C.3
  • 3
    • 0034444550 scopus 로고    scopus 로고
    • Host-pathogen interactions: basic concepts of microbial commensalism, colonization, infection, and disease
    • Casadevall A, Pirofski LA. Host-pathogen interactions: basic concepts of microbial commensalism, colonization, infection, and disease. Infect Immun. 2000;68:6511-8.
    • (2000) Infect Immun , vol.68 , pp. 6511-6518
    • Casadevall, A.1    Pirofski, L.A.2
  • 4
    • 0036467798 scopus 로고    scopus 로고
    • Molecular evidence of endogenous reactivation of Mycobacterium tuberculosis after 33 years of latent infection
    • Lillebaek T, Dirksen A, Baess I, Strunge B, Thomsen VØ, Andersen AB. Molecular evidence of endogenous reactivation of Mycobacterium tuberculosis after 33 years of latent infection. J Infect Dis. 2002;185:401-4.
    • (2002) J Infect Dis , vol.185 , pp. 401-404
    • Lillebaek, T.1    Dirksen, A.2    Baess, I.3    Strunge, B.4    Thomsen, V.5    Andersen, A.B.6
  • 5
    • 0031939281 scopus 로고    scopus 로고
    • Mechanisms of latency in Mycobacterium tuberculosis
    • Parrish NM, Dick JD, Bishai WR. Mechanisms of latency in Mycobacterium tuberculosis. Trends Microbiol. 1998;6:107-12.
    • (1998) Trends Microbiol , vol.6 , pp. 107-112
    • Parrish, N.M.1    Dick, J.D.2    Bishai, W.R.3
  • 6
    • 33847736295 scopus 로고    scopus 로고
    • The survival kit of Mycobacterium tuberculosis
    • Warner DF, Mizrahi V. The survival kit of Mycobacterium tuberculosis. Nat Med. 2007;13:282-4.
    • (2007) Nat Med , vol.13 , pp. 282-284
    • Warner, D.F.1    Mizrahi, V.2
  • 7
    • 0038349268 scopus 로고    scopus 로고
    • Rv3133c/dosR is a transcription factor that mediates the hypoxic response of Mycobacterium tuberculosis
    • Park H-D, Guinn KM, Harrell MI, Liao R, Voskuil MI, Tompa M, et al. Rv3133c/dosR is a transcription factor that mediates the hypoxic response of Mycobacterium tuberculosis. Mol Microbiol. 2003;48:833-43.
    • (2003) Mol Microbiol , vol.48 , pp. 833-843
    • Park, H.-D.1    Guinn, K.M.2    Harrell, M.I.3    Liao, R.4    Voskuil, M.I.5    Tompa, M.6
  • 8
    • 43049182981 scopus 로고    scopus 로고
    • The enduring hypoxic response of Mycobacterium tuberculosis
    • Rustad TR, Harrell MI, Liao R, Sherman DR. The enduring hypoxic response of Mycobacterium tuberculosis. PLoS One. 2008;3:e1502.
    • (2008) PLoS One , vol.3
    • Rustad, T.R.1    Harrell, M.I.2    Liao, R.3    Sherman, D.R.4
  • 10
    • 84899479119 scopus 로고    scopus 로고
    • Stringent homology-based prediction of H. sapiens-M. tuberculosis H37Rv protein-protein interactions
    • Zhou H, Gao S, Nguyen NN, Fan M, Jin J, Liu B, et al. Stringent homology-based prediction of H. sapiens-M. tuberculosis H37Rv protein-protein interactions. Biol Direct. 2014;9:5.
    • (2014) Biol Direct , vol.9 , pp. 5
    • Zhou, H.1    Gao, S.2    Nguyen, N.N.3    Fan, M.4    Jin, J.5    Liu, B.6
  • 11
    • 0029923793 scopus 로고    scopus 로고
    • Mycobacterium tuberculosis invades and replicates within type II alveolar cells
    • Bermudez LE, Goodman J. Mycobacterium tuberculosis invades and replicates within type II alveolar cells. Infect Immun. 1996;64:1400-6.
    • (1996) Infect Immun , vol.64 , pp. 1400-1406
    • Bermudez, L.E.1    Goodman, J.2
  • 13
    • 32444445544 scopus 로고    scopus 로고
    • Characterization of a glutathione metabolic mutant of Mycobacterium tuberculosis and its resistance to glutathione and nitrosoglutathione
    • Dayaram YK, Talaue MT, Connell ND, Venketaraman V. Characterization of a glutathione metabolic mutant of Mycobacterium tuberculosis and its resistance to glutathione and nitrosoglutathione. J Bacteriol. 2006;188:1364-72.
    • (2006) J Bacteriol , vol.188 , pp. 1364-1372
    • Dayaram, Y.K.1    Talaue, M.T.2    Connell, N.D.3    Venketaraman, V.4
  • 14
    • 84872763359 scopus 로고    scopus 로고
    • Visfatin affects redox adaptative responses and proliferation in Me45 human malignant melanoma cells: an in vitro study
    • Bułdak RJ, Bułdak Ł, Polaniak R, Kukla M, Birkner E, Kubina R, et al. Visfatin affects redox adaptative responses and proliferation in Me45 human malignant melanoma cells: an in vitro study. Oncol Rep. 2013;29:771-8.
    • (2013) Oncol Rep , vol.29 , pp. 771-778
    • Bułdak, R.J.1    Bułdak, L.2    Polaniak, R.3    Kukla, M.4    Birkner, E.5    Kubina, R.6
  • 15
    • 85050640077 scopus 로고    scopus 로고
    • Composition comprising expression or activity inhibitors of ninjurin 1 for the prevention and treatment of inflammatory disease
    • [cited 12 May 2017]
    • Kim K-W, Lee H-J. Composition comprising expression or activity inhibitors of ninjurin 1 for the prevention and treatment of inflammatory disease. 2011. Available from: http://www.google.com/patents/US20110123538 [cited 12 May 2017]
    • (2011)
    • Kim, K.-W.1    Lee, H.-J.2
  • 16
    • 1842588003 scopus 로고    scopus 로고
    • HLA-A2-restricted CD8+-cytotoxic-T-cell responses to novel epitopes in Mycobacterium tuberculosis superoxide dismutase, alanine dehydrogenase, and glutamine synthetase
    • Dong Y, Demaria S, Sun X, Santori FR, Jesdale BM, De Groot AS, et al. HLA-A2-restricted CD8+-cytotoxic-T-cell responses to novel epitopes in Mycobacterium tuberculosis superoxide dismutase, alanine dehydrogenase, and glutamine synthetase. Infect Immun. 2004;72:2412-5.
    • (2004) Infect Immun , vol.72 , pp. 2412-2415
    • Dong, Y.1    Demaria, S.2    Sun, X.3    Santori, F.R.4    Jesdale, B.M.5    De Groot, A.S.6
  • 19
    • 84858649987 scopus 로고    scopus 로고
    • Understanding communication signals during mycobacterial latency through predicted genome-wide protein interactions and Boolean modeling
    • Hegde SR, Rajasingh H, Das C, Mande SS, Mande SC. Understanding communication signals during mycobacterial latency through predicted genome-wide protein interactions and Boolean modeling. PLoS One. 2012;7:e33893.
    • (2012) PLoS One , vol.7
    • Hegde, S.R.1    Rajasingh, H.2    Das, C.3    Mande, S.S.4    Mande, S.C.5
  • 20
    • 84903975390 scopus 로고    scopus 로고
    • Mycobacterium tuberculosis Lsr2 is a global transcriptional regulator required for adaptation to changing oxygen levels and virulence
    • Bartek IL, Woolhiser LK, Baughn AD, Basaraba RJ, Jacobs WR, Lenaerts AJ, et al. Mycobacterium tuberculosis Lsr2 is a global transcriptional regulator required for adaptation to changing oxygen levels and virulence. mBio. 2014;5:e01106-14.
    • (2014) mBio , vol.5
    • Bartek, I.L.1    Woolhiser, L.K.2    Baughn, A.D.3    Basaraba, R.J.4    Jacobs, W.R.5    Lenaerts, A.J.6
  • 21
    • 33845736364 scopus 로고    scopus 로고
    • CsoR is a novel Mycobacterium tuberculosis copper-sensing transcriptional regulator
    • Liu T, Ramesh A, Ma Z, Ward SK, Zhang L, George GN, et al. CsoR is a novel Mycobacterium tuberculosis copper-sensing transcriptional regulator. Nat Chem Biol. 2007;3:60-8.
    • (2007) Nat Chem Biol , vol.3 , pp. 60-68
    • Liu, T.1    Ramesh, A.2    Ma, Z.3    Ward, S.K.4    Zhang, L.5    George, G.N.6
  • 22
    • 79953280815 scopus 로고    scopus 로고
    • Initial step in the catabolism of cholesterol by Mycobacterium smegmatis mc2 155
    • Uhía I, Galán B, Morales V, García JL. Initial step in the catabolism of cholesterol by Mycobacterium smegmatis mc2 155. Environ Microbiol. 2011;13:943-59.
    • (2011) Environ Microbiol , vol.13 , pp. 943-959
    • Uhía, I.1    Galán, B.2    Morales, V.3    García, J.L.4
  • 23
    • 20944450448 scopus 로고    scopus 로고
    • Mycobacterium tuberculosis isocitrate lyases 1 and 2 are jointly required for in vivo growth and virulence
    • Muñoz-Elías EJ, McKinney JD. Mycobacterium tuberculosis isocitrate lyases 1 and 2 are jointly required for in vivo growth and virulence. Nat Med. 2005;11:638-44.
    • (2005) Nat Med , vol.11 , pp. 638-644
    • Muñoz-Elías, E.J.1    McKinney, J.D.2
  • 24
    • 84859429244 scopus 로고    scopus 로고
    • Mycobacterium tuberculosis: success through dormancy
    • Gengenbacher M, Kaufmann SHE. Mycobacterium tuberculosis: success through dormancy. FEMS Microbiol Rev. 2012;36:514-32.
    • (2012) FEMS Microbiol Rev , vol.36 , pp. 514-532
    • Gengenbacher, M.1    Kaufmann, S.H.E.2
  • 25
    • 12844278679 scopus 로고    scopus 로고
    • Pathway to synthesis and processing of mycolic acids in Mycobacterium tuberculosis
    • Takayama K, Wang C, Besra GS. Pathway to synthesis and processing of mycolic acids in Mycobacterium tuberculosis. Clin Microbiol Rev. 2005;18:81-101.
    • (2005) Clin Microbiol Rev , vol.18 , pp. 81-101
    • Takayama, K.1    Wang, C.2    Besra, G.S.3
  • 27
  • 29
    • 79958058975 scopus 로고    scopus 로고
    • Metabolic regulation of mycobacterial growth and antibiotic sensitivity
    • Baek S-H, Li AH, Sassetti CM. Metabolic regulation of mycobacterial growth and antibiotic sensitivity. PLoS Biol. 2011;9:e1001065.
    • (2011) PLoS Biol , vol.9
    • Baek, S.-H.1    Li, A.H.2    Sassetti, C.M.3
  • 30
    • 84900459867 scopus 로고    scopus 로고
    • Mycobacterium tuberculosis phosphoenolpyruvate Carboxykinase is regulated by redox mechanisms and interaction with Thioredoxin
    • Machová I, Snášel J, Zimmermann M, Laubitz D, Plocinski P, Oehlmann W, et al. Mycobacterium tuberculosis phosphoenolpyruvate Carboxykinase is regulated by redox mechanisms and interaction with Thioredoxin. J Biol Chem. 2014;289:13066-78.
    • (2014) J Biol Chem , vol.289 , pp. 13066-13078
    • Machová, I.1    Snášel, J.2    Zimmermann, M.3    Laubitz, D.4    Plocinski, P.5    Oehlmann, W.6
  • 31
    • 85028924381 scopus 로고    scopus 로고
    • Imidazoles induce reactive oxygen species inMycobacterium tuberculosisWhich is not associated with cell death
    • Howell Wescott HA, Roberts DM, Allebach CL, Kokoczka R, Parish T. Imidazoles induce reactive oxygen species inMycobacterium tuberculosisWhich is not associated with cell death. ACS Omega. 2017;2:41-51.
    • (2017) ACS Omega , vol.2 , pp. 41-51
    • Howell Wescott, H.A.1    Roberts, D.M.2    Allebach, C.L.3    Kokoczka, R.4    Parish, T.5
  • 32
    • 79251537963 scopus 로고    scopus 로고
    • A chemical genetic screen in Mycobacterium tuberculosis identifies carbon-source-dependent growth inhibitors devoid of in vivo efficacy
    • Pethe K, Sequeira PC, Agarwalla S, Rhee K, Kuhen K, Phong WY, et al. A chemical genetic screen in Mycobacterium tuberculosis identifies carbon-source-dependent growth inhibitors devoid of in vivo efficacy. Nat Commun. 2010;1:57.
    • (2010) Nat Commun , vol.1 , pp. 57
    • Pethe, K.1    Sequeira, P.C.2    Agarwalla, S.3    Rhee, K.4    Kuhen, K.5    Phong, W.Y.6
  • 34
    • 84873588147 scopus 로고    scopus 로고
    • Characterization of phosphofructokinase activity in Mycobacterium tuberculosis reveals that a functional glycolytic carbon flow is necessary to limit the accumulation of toxic metabolic intermediates under hypoxia
    • Phong WY, Lin W, Rao SPS, Dick T, Alonso S, Pethe K. Characterization of phosphofructokinase activity in Mycobacterium tuberculosis reveals that a functional glycolytic carbon flow is necessary to limit the accumulation of toxic metabolic intermediates under hypoxia. PLoS One. 2013;8:e56037.
    • (2013) PLoS One , vol.8
    • Phong, W.Y.1    Lin, W.2    Rao, S.P.S.3    Dick, T.4    Alonso, S.5    Pethe, K.6
  • 35
    • 0034917354 scopus 로고    scopus 로고
    • Cu,Zn superoxide dismutase of Mycobacterium tuberculosis contributes to survival in activated macrophages that are generating an oxidative burst
    • Piddington DL, Fang FC, Laessig T, Cooper AM, Orme IM, Buchmeier NA. Cu,Zn superoxide dismutase of Mycobacterium tuberculosis contributes to survival in activated macrophages that are generating an oxidative burst. Infect Immun. 2001;69:4980-7.
    • (2001) Infect Immun , vol.69 , pp. 4980-4987
    • Piddington, D.L.1    Fang, F.C.2    Laessig, T.3    Cooper, A.M.4    Orme, I.M.5    Buchmeier, N.A.6
  • 36
    • 33646252290 scopus 로고    scopus 로고
    • Protein splicing of SufB is crucial for the functionality of the Mycobacterium tuberculosis SUF machinery
    • Huet G, Castaing J-P, Fournier D, Daffé M, Saves I. Protein splicing of SufB is crucial for the functionality of the Mycobacterium tuberculosis SUF machinery. J Bacteriol. 2006;188:3412-4.
    • (2006) J Bacteriol , vol.188 , pp. 3412-3414
    • Huet, G.1    Castaing, J.-P.2    Fournier, D.3    Daffé, M.4    Saves, I.5
  • 37
    • 79960957242 scopus 로고    scopus 로고
    • The regulation of sulfur metabolism in Mycobacterium tuberculosis
    • Hatzios SK, Bertozzi CR. The regulation of sulfur metabolism in Mycobacterium tuberculosis. PLoS Pathog. 2011;7:e1002036.
    • (2011) PLoS Pathog , vol.7
    • Hatzios, S.K.1    Bertozzi, C.R.2
  • 39
    • 80555149812 scopus 로고
    • Mycobacterial secretion systems ESX-1 and ESX-5 play distinct roles in host cell death and inflammasome activation
    • Abdallah AM, Bestebroer J, Savage NDL, de Punder K, van Zon M, Wilson L, et al. Mycobacterial secretion systems ESX-1 and ESX-5 play distinct roles in host cell death and inflammasome activation. J Immunol Baltim Md. 1950;2011(187):4744-53.
    • (1950) J Immunol Baltim Md , vol.2011 , Issue.187 , pp. 4744-4753
    • Abdallah, A.M.1    Bestebroer, J.2    Savage, N.D.L.3    de Punder, K.4    van Zon, M.5    Wilson, L.6
  • 40
    • 84959080776 scopus 로고    scopus 로고
    • In silico dissection of type VII secretion system components across bacteria: new directions towards functional characterization
    • Das C, Ghosh TS, Mande SS. In silico dissection of type VII secretion system components across bacteria: new directions towards functional characterization. J Biosci. 2016;41:133-43.
    • (2016) J Biosci , vol.41 , pp. 133-143
    • Das, C.1    Ghosh, T.S.2    Mande, S.S.3
  • 41
    • 79956143052 scopus 로고    scopus 로고
    • The wag31 gene of Mycobacterium tuberculosis is positively regulated by the stringent response
    • Dahl JL, Lau BD. The wag31 gene of Mycobacterium tuberculosis is positively regulated by the stringent response. FEMS Microbiol Lett. 2011;319:153-9.
    • (2011) FEMS Microbiol Lett , vol.319 , pp. 153-159
    • Dahl, J.L.1    Lau, B.D.2
  • 42
    • 71349085240 scopus 로고    scopus 로고
    • Probing ligand binding modes of Mycobacterium tuberculosis MurC ligase by molecular modeling, dynamics simulation and docking
    • Anuradha CM, Mulakayala C, Babajan B, Naveen M, Rajasekhar C, Kumar CS. Probing ligand binding modes of Mycobacterium tuberculosis MurC ligase by molecular modeling, dynamics simulation and docking. J Mol Model. 2010;16:77-85.
    • (2010) J Mol Model , vol.16 , pp. 77-85
    • Anuradha, C.M.1    Mulakayala, C.2    Babajan, B.3    Naveen, M.4    Rajasekhar, C.5    Kumar, C.S.6
  • 43
    • 84989961111 scopus 로고    scopus 로고
    • Mycobacterial WhiB6 differentially regulates ESX-1 and the dos regulon to modulate granuloma formation and virulence in zebrafish
    • Chen Z, Hu Y, Cumming BM, Lu P, Feng L, Deng J, et al. Mycobacterial WhiB6 differentially regulates ESX-1 and the dos regulon to modulate granuloma formation and virulence in zebrafish. Cell Rep. 2016;16:2512-24.
    • (2016) Cell Rep , vol.16 , pp. 2512-2524
    • Chen, Z.1    Hu, Y.2    Cumming, B.M.3    Lu, P.4    Feng, L.5    Deng, J.6
  • 44
    • 77951243882 scopus 로고    scopus 로고
    • Mycobacterium tuberculosis cAMP receptor protein (Rv3676) differs from the Escherichia coli paradigm in its cAMP binding and DNA binding properties and transcription activation properties
    • Stapleton M, Haq I, Hunt DM, Arnvig KB, Artymiuk PJ, Buxton RS, et al. Mycobacterium tuberculosis cAMP receptor protein (Rv3676) differs from the Escherichia coli paradigm in its cAMP binding and DNA binding properties and transcription activation properties. J Biol Chem. 2010;285:7016-27.
    • (2010) J Biol Chem , vol.285 , pp. 7016-7027
    • Stapleton, M.1    Haq, I.2    Hunt, D.M.3    Arnvig, K.B.4    Artymiuk, P.J.5    Buxton, R.S.6
  • 45
    • 4043057281 scopus 로고    scopus 로고
    • Unique features of the sodC-encoded superoxide dismutase from Mycobacterium tuberculosis, a fully functional copper-containing enzyme lacking zinc in the active site
    • Spagnolo L, Törö I, D'Orazio M, O'Neill P, Pedersen JZ, Carugo O, et al. Unique features of the sodC-encoded superoxide dismutase from Mycobacterium tuberculosis, a fully functional copper-containing enzyme lacking zinc in the active site. J Biol Chem. 2004;279:33447-55.
    • (2004) J Biol Chem , vol.279 , pp. 33447-33455
    • Spagnolo, L.1    Törö, I.2    D'Orazio, M.3    O'Neill, P.4    Pedersen, J.Z.5    Carugo, O.6
  • 46
    • 84975883878 scopus 로고    scopus 로고
    • Enzyme sequestration as a tuning point in controlling response dynamics of Signalling networks
    • Feng S, Ollivier JF, Soyer OS. Enzyme sequestration as a tuning point in controlling response dynamics of Signalling networks. PLoS Comput Biol. 2016;12:e1004918.
    • (2016) PLoS Comput Biol , vol.12
    • Feng, S.1    Ollivier, J.F.2    Soyer, O.S.3
  • 47
    • 84955445010 scopus 로고    scopus 로고
    • From system-wide differential gene expression to perturbed regulatory factors: a combinatorial approach
    • Mahajan G, Mande SC. From system-wide differential gene expression to perturbed regulatory factors: a combinatorial approach. PLoS One. 2015;10:e0142147.
    • (2015) PLoS One , vol.10
    • Mahajan, G.1    Mande, S.C.2
  • 48
    • 85027451997 scopus 로고    scopus 로고
    • Computational analysis of host-pathogen protein interactions between humans and different strains of Enterohemorrhagic Escherichia coli
    • Bose T, Venkatesh KV, Mande SS. Computational analysis of host-pathogen protein interactions between humans and different strains of Enterohemorrhagic Escherichia coli. Front Cell Infect Microbiol. 2017;7:128.
    • (2017) Front Cell Infect Microbiol , vol.7 , pp. 128
    • Bose, T.1    Venkatesh, K.V.2    Mande, S.S.3
  • 49
    • 33646352954 scopus 로고    scopus 로고
    • GINsim: a software suite for the qualitative modelling, simulation and analysis of regulatory networks
    • Gonzalez AG, Naldi A, Sánchez L, Thieffry D, Chaouiya C. GINsim: a software suite for the qualitative modelling, simulation and analysis of regulatory networks. Biosystems. 2006;84:91-100.
    • (2006) Biosystems , vol.84 , pp. 91-100
    • Gonzalez, A.G.1    Naldi, A.2    Sánchez, L.3    Thieffry, D.4    Chaouiya, C.5
  • 51
    • 84964325461 scopus 로고    scopus 로고
    • CompNet: a GUI based tool for comparison of multiple biological interaction networks
    • Kuntal BK, Dutta A, Mande SS. CompNet: a GUI based tool for comparison of multiple biological interaction networks. BMC Bioinformatics. 2016;17:185.
    • (2016) BMC Bioinformatics , vol.17 , pp. 185
    • Kuntal, B.K.1    Dutta, A.2    Mande, S.S.3


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