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Volumn 570, Issue 7762, 2019, Pages 462-467

Mapping human microbiome drug metabolism by gut bacteria and their genes

Author keywords

[No Author keywords available]

Indexed keywords

DEXAMETHASONE; DILTIAZEM; DRUG METABOLITE; DRUG;

EID: 85067882185     PISSN: 00280836     EISSN: 14764687     Source Type: Journal    
DOI: 10.1038/s41586-019-1291-3     Document Type: Article
Times cited : (723)

References (41)
  • 1
    • 84873908108 scopus 로고    scopus 로고
    • Pharmacologically active drug metabolites: impact on drug discovery and pharmacotherapy
    • Obach, R. S. Pharmacologically active drug metabolites: impact on drug discovery and pharmacotherapy. Pharmacol. Rev. 65, 578–640 (2013).
    • (2013) Pharmacol. Rev. , vol.65 , pp. 578-640
    • Obach, R.S.1
  • 2
    • 84930163135 scopus 로고    scopus 로고
    • On the colonic bacterial metabolism of azo-bonded prodrugs of 5-aminosalicylic acid
    • Sousa, T. et al. On the colonic bacterial metabolism of azo-bonded prodrugs of 5-aminosalicylic acid. J. Pharm. Sci. 103, 3171–3175 (2014).
    • (2014) J. Pharm. Sci. , vol.103 , pp. 3171-3175
    • Sousa, T.1
  • 3
    • 84880439384 scopus 로고    scopus 로고
    • Predicting and manipulating cardiac drug inactivation by the human gut bacterium Eggerthella lenta
    • Haiser, H. J. et al. Predicting and manipulating cardiac drug inactivation by the human gut bacterium Eggerthella lenta. Science 341, 295–298 (2013).
    • (2013) Science , vol.341 , pp. 295-298
    • Haiser, H.J.1
  • 4
    • 0032470250 scopus 로고    scopus 로고
    • A possible mechanism of eighteen patient deaths caused by interactions of sorivudine, a new antiviral drug, with oral 5-fluorouracil prodrugs
    • Okuda, H., Ogura, K., Kato, A., Takubo, H. & Watabe, T. A possible mechanism of eighteen patient deaths caused by interactions of sorivudine, a new antiviral drug, with oral 5-fluorouracil prodrugs. J. Pharmacol. Exp. Ther. 287, 791–799 (1998).
    • (1998) J. Pharmacol. Exp. Ther. , vol.287 , pp. 791-799
    • Okuda, H.1    Ogura, K.2    Kato, A.3    Takubo, H.4    Watabe, T.5
  • 5
    • 85061193510 scopus 로고    scopus 로고
    • Separating host and microbiome contributions to drug pharmacokinetics and toxicity
    • Zimmermann, M., Zimmermann-Kogadeeva, M., Wegmann, R. & Goodman, A. L. Separating host and microbiome contributions to drug pharmacokinetics and toxicity. Science 363, eaat9931 (2019).
    • (2019) Science , vol.363 , pp. eaat9931
    • Zimmermann, M.1    Zimmermann-Kogadeeva, M.2    Wegmann, R.3    Goodman, A.L.4
  • 6
    • 78149295964 scopus 로고    scopus 로고
    • Alleviating cancer drug toxicity by inhibiting a bacterial enzyme
    • Wallace, B. D. et al. Alleviating cancer drug toxicity by inhibiting a bacterial enzyme. Science 330, 831–835 (2010).
    • (2010) Science , vol.330 , pp. 831-835
    • Wallace, B.D.1
  • 7
    • 85020240798 scopus 로고    scopus 로고
    • Vaginal bacteria modify HIV tenofovir microbicide efficacy in African women
    • Klatt, N. R. et al. Vaginal bacteria modify HIV tenofovir microbicide efficacy in African women. Science 356, 938–945 (2017).
    • (2017) Science , vol.356 , pp. 938-945
    • Klatt, N.R.1
  • 8
    • 85054891984 scopus 로고    scopus 로고
    • Drug pharmacomicrobiomics and toxicomicrobiomics: from scattered reports to systematic studies of drug-microbiome interactions
    • Aziz, R. K., Hegazy, S. M., Yasser, R., Rizkallah, M. R. & ElRakaiby, M. T. Drug pharmacomicrobiomics and toxicomicrobiomics: from scattered reports to systematic studies of drug–microbiome interactions. Expert Opin. Drug Metab. Toxicol. 14, 1043–1055 (2018).
    • (2018) Expert Opin. Drug Metab. Toxicol. , vol.14 , pp. 1043-1055
    • Aziz, R.K.1    Hegazy, S.M.2    Yasser, R.3    Rizkallah, M.R.4    ElRakaiby, M.T.5
  • 9
    • 69949123813 scopus 로고    scopus 로고
    • Identifying genetic determinants needed to establish a human gut symbiont in its habitat
    • Goodman, A. L. et al. Identifying genetic determinants needed to establish a human gut symbiont in its habitat. Cell Host Microbe 6, 279–289 (2009).
    • (2009) Cell Host Microbe , vol.6 , pp. 279-289
    • Goodman, A.L.1
  • 10
    • 84994519948 scopus 로고    scopus 로고
    • Gut microbiome interactions with drug metabolism, efficacy, and toxicity
    • Wilson, I. D. & Nicholson, J. K. Gut microbiome interactions with drug metabolism, efficacy, and toxicity. Transl. Res. 179, 204–222 (2017).
    • (2017) Transl. Res. , vol.179 , pp. 204-222
    • Wilson, I.D.1    Nicholson, J.K.2
  • 11
    • 0021514103 scopus 로고
    • Mode of action of steroid desmolase and reductases synthesized by Clostridium “scindens” (formerly Clostridium strain 19)
    • Winter, J. et al. Mode of action of steroid desmolase and reductases synthesized by Clostridium “scindens” (formerly Clostridium strain 19). J. Lipid Res. 25, 1124–1131 (1984).
    • (1984) J. Lipid Res. , vol.25 , pp. 1124-1131
    • Winter, J.1
  • 12
    • 0022349103 scopus 로고
    • Clostridium scindens sp. nov., a human intestinal bacterium with desmolytic activity on corticoids
    • Morris, G. N., Winter, J., Cato, E. P., Ritchie, A. E. & Bokkenheuser, V. D. Clostridium scindens sp. nov., a human intestinal bacterium with desmolytic activity on corticoids. Int. J. Syst. Evol. Microbiol. 35, 478–481 (1985).
    • (1985) Int. J. Syst. Evol. Microbiol. , vol.35 , pp. 478-481
    • Morris, G.N.1    Winter, J.2    Cato, E.P.3    Ritchie, A.E.4    Bokkenheuser, V.D.5
  • 13
    • 84883179071 scopus 로고    scopus 로고
    • Clostridium scindens: a human gut microbe with a high potential to convert glucocorticoids into androgens
    • Ridlon, J. M. et al. Clostridium scindens: a human gut microbe with a high potential to convert glucocorticoids into androgens. J. Lipid Res. 54, 2437–2449 (2013).
    • (2013) J. Lipid Res. , vol.54 , pp. 2437-2449
    • Ridlon, J.M.1
  • 14
    • 0024447134 scopus 로고
    • The pharmacokinetics and pharmacodynamics of diltiazem and its metabolites in healthy adults after a single oral dose
    • Boyd, R. A. et al. The pharmacokinetics and pharmacodynamics of diltiazem and its metabolites in healthy adults after a single oral dose. Clin. Pharmacol. Ther. 46, 408–419 (1989).
    • (1989) Clin. Pharmacol. Ther. , vol.46 , pp. 408-419
    • Boyd, R.A.1
  • 15
    • 0036135770 scopus 로고    scopus 로고
    • Desacetyl-diltiazem displays severalfold higher affinity to CYP2D6 compared with CYP3A4
    • Molden, E., Åsberg, A. & Christensen, H. Desacetyl-diltiazem displays severalfold higher affinity to CYP2D6 compared with CYP3A4. Drug Metab. Dispos. 30, 1–3 (2002).
    • (2002) Drug Metab. Dispos. , vol.30 , pp. 1-3
    • Molden, E.1    Åsberg, A.2    Christensen, H.3
  • 16
    • 27344435774 scopus 로고    scopus 로고
    • Gene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles
    • Subramanian, A. et al. Gene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles. Proc. Natl Acad. Sci. USA 102, 15545–15550 (2005).
    • (2005) Proc. Natl Acad. Sci. USA , vol.102 , pp. 15545-15550
    • Subramanian, A.1
  • 17
    • 85043332830 scopus 로고    scopus 로고
    • Extensive impact of non-antibiotic drugs on human gut bacteria
    • Maier, L. et al. Extensive impact of non-antibiotic drugs on human gut bacteria. Nature 555, 623–628 (2018).
    • (2018) Nature , vol.555 , pp. 623-628
    • Maier, L.1
  • 18
    • 85021320590 scopus 로고    scopus 로고
    • Metformin alters the gut microbiome of individuals with treatment-naive type 2 diabetes, contributing to the therapeutic effects of the drug
    • Wu, H. et al. Metformin alters the gut microbiome of individuals with treatment-naive type 2 diabetes, contributing to the therapeutic effects of the drug. Nat. Med. 23, 850–858 (2017).
    • (2017) Nat. Med. , vol.23 , pp. 850-858
    • Wu, H.1
  • 19
    • 70149096873 scopus 로고    scopus 로고
    • Pharmacometabonomic identification of a significant host-microbiome metabolic interaction affecting human drug metabolism
    • Clayton, T. A., Baker, D., Lindon, J. C., Everett, J. R. & Nicholson, J. K. Pharmacometabonomic identification of a significant host-microbiome metabolic interaction affecting human drug metabolism. Proc. Natl Acad. Sci. USA 106, 14728–14733 (2009).
    • (2009) Proc. Natl Acad. Sci. USA , vol.106 , pp. 14728-14733
    • Clayton, T.A.1    Baker, D.2    Lindon, J.C.3    Everett, J.R.4    Nicholson, J.K.5
  • 20
    • 70349108406 scopus 로고    scopus 로고
    • Intestinal microbiota regulate xenobiotic metabolism in the liver
    • Björkholm, B. et al. Intestinal microbiota regulate xenobiotic metabolism in the liver. PLoS ONE 4, e6958 (2009).
    • (2009) PLoS ONE , vol.4
    • Björkholm, B.1
  • 21
    • 85040924244 scopus 로고    scopus 로고
    • DrugBank 5.0: a major update to the DrugBank database for 2018
    • Wishart, D. S. et al. DrugBank 5.0: a major update to the DrugBank database for 2018. Nucleic Acids Res. 46, D1074–D1082 (2018).
    • (2018) Nucleic Acids Res. , vol.46 , pp. D1074-D1082
    • Wishart, D.S.1
  • 22
    • 79955025122 scopus 로고    scopus 로고
    • Extensive personal human gut microbiota culture collections characterized and manipulated in gnotobiotic mice
    • Goodman, A. L. et al. Extensive personal human gut microbiota culture collections characterized and manipulated in gnotobiotic mice. Proc. Natl Acad. Sci. USA 108, 6252–6257 (2011).
    • (2011) Proc. Natl Acad. Sci. USA , vol.108 , pp. 6252-6257
    • Goodman, A.L.1
  • 24
    • 84865531061 scopus 로고    scopus 로고
    • The shared antibiotic resistome of soil bacteria and human pathogens
    • Forsberg, K. J. et al. The shared antibiotic resistome of soil bacteria and human pathogens. Science 337, 1107–1111 (2012).
    • (2012) Science , vol.337 , pp. 1107-1111
    • Forsberg, K.J.1
  • 25
    • 84860541398 scopus 로고    scopus 로고
    • Identifying microbial fitness determinants by insertion sequencing using genome-wide transposon mutant libraries
    • Goodman, A. L., Wu, M. & Gordon, J. I. Identifying microbial fitness determinants by insertion sequencing using genome-wide transposon mutant libraries. Nat. Protoc. 6, 1969–1980 (2011).
    • (2011) Nat. Protocols , vol.6 , pp. 1969-1980
    • Goodman, A.L.1    Wu, M.2    Gordon, J.I.3
  • 26
    • 46049115447 scopus 로고    scopus 로고
    • Starch catabolism by a prominent human gut symbiont is directed by the recognition of amylose helices
    • Koropatkin, N. M., Martens, E. C., Gordon, J. I. & Smith, T. J. Starch catabolism by a prominent human gut symbiont is directed by the recognition of amylose helices. Structure 16, 1105–1115 (2008).
    • (2008) Structure , vol.16 , pp. 1105-1115
    • Koropatkin, N.M.1    Martens, E.C.2    Gordon, J.I.3    Smith, T.J.4
  • 27
    • 0031579372 scopus 로고    scopus 로고
    • Splicing by overlap extension by PCR using asymmetric amplification: an improved technique for the generation of hybrid proteins of immunological interest
    • Warrens, A. N., Jones, M. D. & Lechler, R. I. Splicing by overlap extension by PCR using asymmetric amplification: an improved technique for the generation of hybrid proteins of immunological interest. Gene 186, 29–35 (1997).
    • (1997) Gene , vol.186 , pp. 29-35
    • Warrens, A.N.1    Jones, M.D.2    Lechler, R.I.3
  • 28
    • 85018496784 scopus 로고    scopus 로고
    • Tunable expression tools enable single-cell strain distinction in the gut microbiome
    • e12
    • Whitaker, W. R., Shepherd, E. S. & Sonnenburg, J. L. Tunable expression tools enable single-cell strain distinction in the gut microbiome. Cell 169, 538–546.e12 (2017).
    • (2017) Cell , vol.169 , pp. 538-546
    • Whitaker, W.R.1    Shepherd, E.S.2    Sonnenburg, J.L.3
  • 29
    • 80053345905 scopus 로고    scopus 로고
    • SignalP 4.0: discriminating signal peptides from transmembrane regions
    • Petersen, T. N., Brunak, S., von Heijne, G. & Nielsen, H. SignalP 4.0: discriminating signal peptides from transmembrane regions. Nat. Methods 8, 785–786 (2011).
    • (2011) Nat. Methods , vol.8 , pp. 785-786
    • Petersen, T.N.1    Brunak, S.2    von Heijne, G.3    Nielsen, H.4
  • 30
    • 85018499853 scopus 로고    scopus 로고
    • Engineered regulatory systems modulate gene expression of human commensals in the gut
    • e15
    • Lim, B., Zimmermann, M., Barry, N. A. & Goodman, A. L. Engineered regulatory systems modulate gene expression of human commensals in the gut. Cell 169, 547–558.e15 (2017).
    • (2017) Cell , vol.169 , pp. 547-558
    • Lim, B.1    Zimmermann, M.2    Barry, N.A.3    Goodman, A.L.4
  • 31
    • 84923273687 scopus 로고    scopus 로고
    • Antimicrobial peptide resistance mediates resilience of prominent gut commensals during inflammation
    • Cullen, T. W. et al. Antimicrobial peptide resistance mediates resilience of prominent gut commensals during inflammation. Science 347, 170–175 (2015).
    • (2015) Science , vol.347 , pp. 170-175
    • Cullen, T.W.1
  • 32
    • 74049108922 scopus 로고    scopus 로고
    • BLAST+: architecture and applications
    • Camacho, C. et al. BLAST+: architecture and applications. BMC Bioinformatics 10, 421 (2009).
    • (2009) BMC Bioinformatics , vol.10
    • Camacho, C.1
  • 33
    • 0242490780 scopus 로고    scopus 로고
    • Cytoscape: a software environment for integrated models of biomolecular interaction networks
    • Shannon, P. et al. Cytoscape: a software environment for integrated models of biomolecular interaction networks. Genome Res. 13, 2498–2504 (2003).
    • (2003) Genome Res. , vol.13 , pp. 2498-2504
    • Shannon, P.1
  • 34
    • 85045198464 scopus 로고    scopus 로고
    • bioBakery: a meta’omic analysis environment
    • McIver, L. J. et al. bioBakery: a meta’omic analysis environment. Bioinformatics 34, 1235–1237 (2018).
    • (2018) Bioinformatics , vol.34 , pp. 1235-1237
    • McIver, L.J.1
  • 35
    • 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 (2014).
    • (2014) Bioinformatics , vol.30 , pp. 2114-2120
    • Bolger, A.M.1    Lohse, M.2    Usadel, B.3
  • 36
    • 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 (2015).
    • (2015) Nat. Methods , vol.12 , pp. 902-903
    • Truong, D.T.1
  • 37
    • 77952243141 scopus 로고    scopus 로고
    • QIIME allows analysis of high-throughput community sequencing data
    • Caporaso, J. G. et al. QIIME allows analysis of high-throughput community sequencing data. Nat. Methods 7, 335–336 (2010).
    • (2010) Nat. Methods , vol.7 , pp. 335-336
    • Caporaso, J.G.1
  • 38
    • 84953212097 scopus 로고    scopus 로고
    • High-Specificity Targeted Functional Profiling in Microbial Communities with ShortBRED
    • Kaminski, J. et al. High-specificity targeted functional profiling in microbial communities with ShortBRED. PLOS Comput. Biol. 11, e1004557 (2015).
    • (2015) PLOS Comput. Biol. , vol.11
    • Kaminski, J.1
  • 39
    • 84925267288 scopus 로고    scopus 로고
    • UniRef clusters: a comprehensive and scalable alternative for improving sequence similarity searches
    • Suzek, B. E., Wang, Y., Huang, H., McGarvey, P. B. & Wu, C. H. UniRef clusters: a comprehensive and scalable alternative for improving sequence similarity searches. Bioinformatics 31, 926–932 (2015).
    • (2015) Bioinformatics , vol.31 , pp. 926-932
    • Suzek, B.E.1    Wang, Y.2    Huang, H.3    McGarvey, P.B.4    Wu, C.H.5
  • 40
    • 77957244650 scopus 로고    scopus 로고
    • Search and clustering orders of magnitude faster than BLAST
    • Edgar, R. C. Search and clustering orders of magnitude faster than BLAST. Bioinformatics 26, 2460–2461 (2010).
    • (2010) Bioinformatics , vol.26 , pp. 2460-2461
    • Edgar, R.C.1
  • 41
    • 0027181298 scopus 로고
    • Pharmacokinetics and metabolism of diltiazem in healthy males and females following a single oral dose
    • Yeung, P. K. et al. Pharmacokinetics and metabolism of diltiazem in healthy males and females following a single oral dose. Eur. J. Drug Metab. Pharmacokinet. 18, 199–206 (1993).
    • (1993) Eur. J. Drug Metab. Pharmacokinet. , vol.18 , pp. 199-206
    • Yeung, P.K.1


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