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Volumn 7, Issue 1, 2017, Pages

Antibiotic treatment for Tuberculosis induces a profound dysbiosis of the microbiome that persists long after therapy is completed

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TUBERCULOSTATIC AGENT;

EID: 85029111948     PISSN: None     EISSN: 20452322     Source Type: Journal    
DOI: 10.1038/s41598-017-10346-6     Document Type: Article
Times cited : (145)

References (43)
  • 1
    • 84994257227 scopus 로고    scopus 로고
    • World Health Organization
    • Global Tuberculosis Report (World Health Organization, 2016).
    • (2016) Global Tuberculosis Report
  • 2
    • 84923206660 scopus 로고    scopus 로고
    • What can immunology contribute to the control of the world's leading cause of death from bacterial infection?
    • Nathan, C. What can immunology contribute to the control of the world's leading cause of death from bacterial infection? Immunol Rev 264, 2-5, doi:10. 1111/imr. 12277 (2015).
    • (2015) Immunol Rev , vol.264 , pp. 2-5
    • Nathan, C.1
  • 4
    • 84978431877 scopus 로고    scopus 로고
    • The microbiota in adaptive immune homeostasis and disease
    • Honda, K. & Littman, D. R. The microbiota in adaptive immune homeostasis and disease. Nature 535, 75-84, doi:10. 1038/ nature18848 (2016).
    • (2016) Nature , vol.535 , pp. 75-84
    • Honda, K.1    Littman, D.R.2
  • 5
    • 84890564250 scopus 로고    scopus 로고
    • Commensal microbe-derived butyrate induces the differentiation of colonic regulatory T cells
    • Furusawa, Y. et al. Commensal microbe-derived butyrate induces the differentiation of colonic regulatory T cells. Nature 504, 446-450, doi:10. 1038/nature12721 (2013).
    • (2013) Nature , vol.504 , pp. 446-450
    • Furusawa, Y.1
  • 6
    • 84890550163 scopus 로고    scopus 로고
    • Metabolites produced by commensal bacteria promote peripheral regulatory T-cell generation
    • Arpaia, N. et al. Metabolites produced by commensal bacteria promote peripheral regulatory T-cell generation. Nature 504, 451-455, doi:10. 1038/nature12726 (2013).
    • (2013) Nature , vol.504 , pp. 451-455
    • Arpaia, N.1
  • 7
    • 84893704050 scopus 로고    scopus 로고
    • Gut microbiota metabolism of dietary fiber influences allergic airway disease and hematopoiesis
    • Trompette, A. et al. Gut microbiota metabolism of dietary fiber influences allergic airway disease and hematopoiesis. Nat Med 20, 159-166, doi:10. 1038/nm. 3444 (2014).
    • (2014) Nat Med , vol.20 , pp. 159-166
    • Trompette, A.1
  • 8
    • 84942874856 scopus 로고    scopus 로고
    • Early infancy microbial and metabolic alterations affect risk of childhood asthma
    • Arrieta, M. C. et al. Early infancy microbial and metabolic alterations affect risk of childhood asthma. Sci Transl Med 7, 307ra152, doi:10. 1126/scitranslmed. aab2271 (2015).
    • (2015) Sci Transl Med , vol.7 , pp. 307ra152
    • Arrieta, M.C.1
  • 9
    • 85016474563 scopus 로고    scopus 로고
    • Anaerobic bacterial fermentation products increase tuberculosis risk in antiretroviral-drug-treated HIV patients
    • Segal, L. N. et al. Anaerobic Bacterial Fermentation Products Increase Tuberculosis Risk in Antiretroviral-Drug-Treated HIV Patients. Cell Host Microbe 21, 530-537, e534, doi:10. 1016/j. chom. 2017. 03. 003 (2017).
    • (2017) Cell Host Microbe , vol.21 , pp. 530-537e534
    • Segal, L.N.1
  • 10
    • 84961223855 scopus 로고    scopus 로고
    • Functional redundancy-induced stability of gut microbiota subjected to disturbance
    • Moya, A. & Ferrer, M. Functional Redundancy-Induced Stability of Gut Microbiota Subjected to Disturbance. Trends Microbiol 24, 402-413, doi:10. 1016/j. tim. 2016. 02. 002 (2016).
    • (2016) Trends Microbiol , vol.24 , pp. 402-413
    • Moya, A.1    Ferrer, M.2
  • 11
    • 84969921123 scopus 로고    scopus 로고
    • Antibiotic-induced changes in the intestinal microbiota and disease
    • Becattini, S., Taur, Y. & Pamer, E. G. Antibiotic-Induced Changes in the Intestinal Microbiota and Disease. Trends Mol Med 22, 458-478, doi:10. 1016/j. molmed. 2016. 04. 003 (2016).
    • (2016) Trends Mol Med , vol.22 , pp. 458-478
    • Becattini, S.1    Taur, Y.2    Pamer, E.G.3
  • 12
    • 0025055132 scopus 로고
    • Ciprofloxacin concentrations and impact of the colon microflora in patients undergoing colorectal surgery
    • Brismar, B., Edlund, C., Malmborg, A. S. & Nord, C. E. Ciprofloxacin concentrations and impact of the colon microflora in patients undergoing colorectal surgery. Antimicrob Agents Chemother 34, 481-483 (1990).
    • (1990) Antimicrob Agents Chemother , vol.34 , pp. 481-483
    • Brismar, B.1    Edlund, C.2    Malmborg, A.S.3    Nord, C.E.4
  • 13
    • 56849106496 scopus 로고    scopus 로고
    • The pervasive effects of an antibiotic on the human gut microbiota, as revealed by deep 16S rRNA sequencing
    • Dethlefsen, L., Huse, S., Sogin, M. L. & Relman, D. A. The pervasive effects of an antibiotic on the human gut microbiota, as revealed by deep 16S rRNA sequencing. PLoS Biol 6, e280, doi:10. 1371/journal. pbio. 0060280 (2008).
    • (2008) PLoS Biol , vol.6 , pp. e280
    • Dethlefsen, L.1    Huse, S.2    Sogin, M.L.3    Relman, D.A.4
  • 14
    • 84880453978 scopus 로고    scopus 로고
    • Functional consequences of microbial shifts in the human gastrointestinal tract linked to antibiotic treatment and obesity
    • Hernandez, E. et al. Functional consequences of microbial shifts in the human gastrointestinal tract linked to antibiotic treatment and obesity. Gut Microbes 4, 306-315, doi:10. 4161/gmic. 25321 (2013).
    • (2013) Gut Microbes , vol.4 , pp. 306-315
    • Hernandez, E.1
  • 15
    • 84892894991 scopus 로고    scopus 로고
    • Antibiotic-induced shifts in the mouse gut microbiome and metabolome increase susceptibility to Clostridium difficile infection
    • Theriot, C. M. et al. Antibiotic-induced shifts in the mouse gut microbiome and metabolome increase susceptibility to Clostridium difficile infection. Nat Commun 5, 3114, doi:10. 1038/ncomms4114 (2014).
    • (2014) Nat Commun , vol.5 , pp. 3114
    • Theriot, C.M.1
  • 16
    • 84865175815 scopus 로고    scopus 로고
    • Intestinal domination and the risk of bacteremia in patients undergoing allogeneic hematopoietic stem cell transplantation
    • Taur, Y. et al. Intestinal domination and the risk of bacteremia in patients undergoing allogeneic hematopoietic stem cell transplantation. Clin Infect Dis 55, 905-914, doi:10. 1093/cid/cis580 (2012).
    • (2012) Clin Infect Dis , vol.55 , pp. 905-914
    • Taur, Y.1
  • 17
    • 79952756960 scopus 로고    scopus 로고
    • Incomplete recovery and individualized responses of the human distal gut microbiota to repeated antibiotic perturbation
    • Dethlefsen, L. & Relman, D. A. Incomplete recovery and individualized responses of the human distal gut microbiota to repeated antibiotic perturbation. Proc Natl Acad Sci USA 108(Suppl 1), 4554-4561, doi:10. 1073/pnas. 1000087107 (2011).
    • (2011) Proc Natl Acad Sci USA , vol.108 , pp. 4554-4561
    • Dethlefsen, L.1    Relman, D.A.2
  • 18
    • 85029034077 scopus 로고    scopus 로고
    • Longitudinal profiling reveals a persistent intestinal dysbiosis triggered by conventional anti-tuberculosis therapy
    • Namasivayam, S. et al. Longitudinal profiling reveals a persistent intestinal dysbiosis triggered by conventional anti-tuberculosis therapy. Microbiome 5, 71, doi:10. 1186/s40168-017-0286-2 (2017).
    • (2017) Microbiome , vol.5 , pp. 71
    • Namasivayam, S.1
  • 19
    • 84924629414 scopus 로고    scopus 로고
    • Moderated estimation of fold change and dispersion for RNA-seq data with DESeq
    • Love, M. I., Huber, W. & Anders, S. Moderated estimation of fold change and dispersion for RNA-seq data with DESeq. 2. Genome Biol 15, 550, doi:10. 1186/s13059-014-0550-8 (2014).
    • (2014) 2. Genome Biol , vol.15 , pp. 550
    • Love, M.I.1    Huber, W.2    Anders, S.3
  • 20
    • 79959383523 scopus 로고    scopus 로고
    • Metagenomic biomarker discovery and explanation
    • Segata, N. et al. Metagenomic biomarker discovery and explanation. Genome Biol 12, R60, doi:10. 1186/gb-2011-12-6-r60 (2011).
    • (2011) Genome Biol , vol.12 , pp. R60
    • Segata, N.1
  • 21
    • 84908409938 scopus 로고    scopus 로고
    • Membership and behavior of ultra-low-diversity pathogen communities present in the gut of humans during prolonged critical illness
    • Zaborin, A. et al. Membership and behavior of ultra-low-diversity pathogen communities present in the gut of humans during prolonged critical illness. MBio 5, e01361-01314, doi:10. 1128/mBio. 01361-14 (2014).
    • (2014) MBio , vol.5 , pp. e01361-01314
    • Zaborin, A.1
  • 22
    • 84864037467 scopus 로고    scopus 로고
    • Metabolic reconstruction for metagenomic data and its application to the human microbiome
    • Abubucker, S. et al. Metabolic reconstruction for metagenomic data and its application to the human microbiome. PLoS Comput Biol 8, e1002358, doi:10. 1371/journal. pcbi. 1002358 (2012).
    • (2012) PLoS Comput Biol , vol.8 , pp. e1002358
    • Abubucker, S.1
  • 23
    • 34248152283 scopus 로고    scopus 로고
    • Long-term ecological impacts of antibiotic administration on the human intestinal microbiota
    • Jernberg, C., Lofmark, S., Edlund, C. & Jansson, J. K. Long-term ecological impacts of antibiotic administration on the human intestinal microbiota. ISME J 1, 56-66, doi:10. 1038/ismej. 2007. 3 (2007).
    • (2007) ISME J , vol.1 , pp. 56-66
    • Jernberg, C.1    Lofmark, S.2    Edlund, C.3    Jansson, J.K.4
  • 24
    • 84896118638 scopus 로고    scopus 로고
    • Harnessing microbiota to kill a pathogen: Fixing the microbiota to treat clostridium difficile infections
    • Taur, Y. & Pamer, E. G. Harnessing microbiota to kill a pathogen: Fixing the microbiota to treat Clostridium difficile infections. Nat Med 20, 246-247, doi:10. 1038/nm. 3492 (2014).
    • (2014) Nat Med , vol.20 , pp. 246-247
    • Taur, Y.1    Pamer, E.G.2
  • 25
    • 84867656021 scopus 로고    scopus 로고
    • Outer membrane vesicles of a human commensal mediate immune regulation and disease protection
    • Shen, Y. et al. Outer membrane vesicles of a human commensal mediate immune regulation and disease protection. Cell Host Microbe 12, 509-520, doi:10. 1016/j. chom. 2012. 08. 004 (2012).
    • (2012) Cell Host Microbe , vol.12 , pp. 509-520
    • Shen, Y.1
  • 26
    • 85006106370 scopus 로고    scopus 로고
    • Linking the human gut microbiome to inflammatory cytokine production capacity
    • Schirmer, M. et al. Linking the Human Gut Microbiome to Inflammatory Cytokine Production Capacity. Cell 167, 1897, doi:10. 1016/j. cell. 2016. 11. 046 (2016).
    • (2016) Cell , vol.167 , pp. 1897
    • Schirmer, M.1
  • 27
    • 85003426944 scopus 로고    scopus 로고
    • Identifying species of symbiont bacteria from the human gut that, alone, can induce intestinal Th17 cells in mice
    • Tan, T. G. et al. Identifying species of symbiont bacteria from the human gut that, alone, can induce intestinal Th17 cells in mice. Proc Natl Acad Sci USA 113, E8141-E8150, doi:10. 1073/pnas. 1617460113 (2016).
    • (2016) Proc Natl Acad Sci USA , vol.113 , pp. E8141-E8150
    • Tan, T.G.1
  • 28
    • 20444401506 scopus 로고    scopus 로고
    • Rate of reinfection tuberculosis after successful treatment is higher than rate of new tuberculosis
    • Verver, S. et al. Rate of reinfection tuberculosis after successful treatment is higher than rate of new tuberculosis. Am J Respir Crit Care Med 171, 1430-1435, doi:10. 1164/rccm. 200409-1200OC (2005).
    • (2005) Am J Respir Crit Care Med , vol.171 , pp. 1430-1435
    • Verver, S.1
  • 29
    • 76449113203 scopus 로고    scopus 로고
    • High rates of recurrence in HIV-infected and HIV-uninfected patients with tuberculosis
    • Glynn, J. R. et al. High rates of recurrence in HIV-infected and HIV-uninfected patients with tuberculosis. J Infect Dis 201, 704-711, doi:10. 1086/650529 (2010).
    • (2010) J Infect Dis , vol.201 , pp. 704-711
    • Glynn, J.R.1
  • 30
    • 33644850653 scopus 로고    scopus 로고
    • Health insurance portability and accountability act of 1996
    • United, S. Health Insurance Portability and Accountability Act of 1996. Public Law 104-191. US Statut Large 110, 1936-2103 (1996).
    • (1996) Public Law 104-191. US Statut Large , vol.110 , pp. 1936-2103
    • United, S.1
  • 31
    • 62049084378 scopus 로고    scopus 로고
    • Research electronic data capture (REDCap)-a metadata-driven methodology and workflow process for providing translational research informatics support
    • Harris, P. A. et al. Research electronic data capture (REDCap)-a metadata-driven methodology and workflow process for providing translational research informatics support. J Biomed Inform 42, 377-381, doi:10. 1016/j. jbi. 2008. 08. 010 (2009).
    • (2009) J Biomed Inform , vol.42 , pp. 377-381
    • Harris, P.A.1
  • 32
    • 84862141704 scopus 로고    scopus 로고
    • Human gut microbiome viewed across age and geography
    • Yatsunenko, T. et al. Human gut microbiome viewed across age and geography. Nature 486, 222-227, doi:10. 1038/nature11053 (2012).
    • (2012) Nature , vol.486 , pp. 222-227
    • Yatsunenko, T.1
  • 33
    • 84884904719 scopus 로고    scopus 로고
    • UPARSE: Highly accurate OTU sequences from microbial amplicon reads
    • Edgar, R. C. UPARSE: highly accurate OTU sequences from microbial amplicon reads. Nat Methods 10, 996-998, doi:10. 1038/ nmeth. 2604 (2013).
    • (2013) Nat Methods , vol.10 , pp. 996-998
    • Edgar, R.C.1
  • 34
    • 79952006773 scopus 로고    scopus 로고
    • Chimeric 16S rRNA sequence formation and detection in Sanger and 454-pyrosequenced PCR amplicons
    • Haas, B. J. et al. Chimeric 16S rRNA sequence formation and detection in Sanger and 454-pyrosequenced PCR amplicons. Genome Res 21, 494-504, doi:10. 1101/gr. 112730. 110 (2011).
    • (2011) Genome Res , vol.21 , pp. 494-504
    • Haas, B.J.1
  • 35
    • 74049108922 scopus 로고    scopus 로고
    • BLAST+: Architecture and applications
    • Camacho, C. et al. BLAST+: architecture and applications. BMC Bioinformatics 10, 421, doi:10. 1186/1471-2105-10-421 (2009).
    • (2009) BMC Bioinformatics , vol.10 , pp. 421
    • Camacho, C.1
  • 36
    • 75549088021 scopus 로고    scopus 로고
    • The NCBI BioSystems database
    • Geer, L. Y. et al. The NCBI BioSystems database. Nucleic Acids Res 38, D492-496, doi:10. 1093/nar/gkp858 (2010).
    • (2010) Nucleic Acids Res , vol.38 , pp. D492-496
    • Geer, L.Y.1
  • 37
    • 84868270724 scopus 로고    scopus 로고
    • The Biological Observation Matrix (BIOM) format or: How i learned to stop worrying and love the ome-ome
    • McDonald, D. et al. The Biological Observation Matrix (BIOM) format or: how I learned to stop worrying and love the ome-ome. Gigascience 1, 7, doi:10. 1186/2047-217X-1-7 (2012).
    • (2012) Gigascience , vol.1 , pp. 7
    • McDonald, D.1
  • 39
    • 84876427223 scopus 로고    scopus 로고
    • Phyloseq: An R package for reproducible interactive analysis and graphics of microbiome census data
    • McMurdie, P. J. & Holmes, S. phyloseq: an R package for reproducible interactive analysis and graphics of microbiome census data. PLoS One 8, e61217, doi:10. 1371/journal. pone. 0061217 (2013).
    • (2013) PLoS One , vol.8 , pp. e61217
    • McMurdie, P.J.1    Holmes, S.2
  • 41
    • 84905049901 scopus 로고    scopus 로고
    • Trimmomatic: A flexible trimmer for Illumina sequence data
    • Bolger, A. M., Lohse, M. & Usadel, B. Trimmomatic: a flexible trimmer for Illumina sequence data. Bioinformatics 30, 2114-2120, doi:10. 1093/bioinformatics/btu170 (2014).
    • (2014) Bioinformatics , vol.30 , pp. 2114-2120
    • Bolger, A.M.1    Lohse, M.2    Usadel, B.3
  • 42
    • 84859210032 scopus 로고    scopus 로고
    • Fast gapped-read alignment with Bowtie 2
    • Langmead, B. & Salzberg, S. L. Fast gapped-read alignment with Bowtie 2. Nat Methods 9, 357-359, doi:10. 1038/nmeth. 1923 (2012).
    • (2012) Nat Methods , vol.9 , pp. 357-359
    • Langmead, B.1    Salzberg, S.L.2
  • 43
    • 84964994621 scopus 로고    scopus 로고
    • MetaPhlAn2 for enhanced metagenomic taxonomic profiling
    • Truong, D. T. et al. MetaPhlAn2 for enhanced metagenomic taxonomic profiling. Nat Methods 12, 902-903, doi:10. 1038/nmeth. 3589 (2015).
    • (2015) Nat Methods , vol.12 , pp. 902-903
    • Truong, D.T.1


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