1887

Abstract

Although it is known that antibiotics have short-term impacts on the human microbiome, recent evidence demonstrates that the impacts of some antibiotics remain for extended periods of time. In addition, antibiotic-resistant strains can persist in the human host environment in the absence of selective pressure. Both molecular- and cultivation-based approaches have revealed ecological disturbances in the microbiota after antibiotic administration, in particular for specific members of the bacterial community that are susceptible or alternatively resistant to the antibiotic in question. A disturbing consequence of antibiotic treatment has been the long-term persistence of antibiotic resistance genes, for example in the human gut. These data warrant use of prudence in the administration of antibiotics that could aggravate the growing battle with emerging antibiotic-resistant pathogenic strains.

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2010-11-01
2020-10-30
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References

  1. Adamsson I., Nord C. E., Lundquist P., Sjöstedt S., Edlund C.. 1999; Comparative effects of omeprazole, amoxycillin plus metronidazole versus omeprazole, clarithromycin plus metronidazole on the oral, gastric and intestinal microflora in Helicobacter pylori-infected patients. J Antimicrob Chemother44:629–640
    [Google Scholar]
  2. Andersson D. I., Hughes D.. 2010; Antibiotic resistance and its cost: is it possible to reverse resistance?. Nat Rev Microbiol8:260–271
    [Google Scholar]
  3. Andersson A. F., Lindberg M., Jakobsson H., Backhed F., Nyren P., Engstrand L.. 2008; Comparative analysis of human gut microbiota by barcoded pyrosequencing. PLoS ONE3:e2836
    [Google Scholar]
  4. Andremont A.. 2003; Commensal flora may play a key role in spreading antibiotic resistance. ASM News69:601–607
    [Google Scholar]
  5. Aubry-Damon H., Grenet K., Sall-Ndiaye P., Che D., Cordeiro E., Bougnoux M. E., Rigaud E., Le Strat Y., Lemanissier V.. other authors 2004; Antimicrobial resistance in commensal flora of pig farmers. Emerg Infect Dis10:873–879
    [Google Scholar]
  6. Bäckhed F., Ley R. E., Sonnenburg J. L., Peterson D. A., Gordon J. I.. 2005; Host–bacterial mutualism in the human intestine. Science307:1915–1920
    [Google Scholar]
  7. Barc M. C., Bourlioux F., Rigottier-Gois L., Charrin-Sarnel C., Janoir C., Boureau H., Dore J., Collignon A.. 2004; Effect of amoxicillin–clavulanic acid on human fecal flora in a gnotobiotic mouse model assessed with fluorescence hybridization using group-specific 16S rRNA probes in combination with flow cytometry. Antimicrob Agents Chemother48:1365–1368
    [Google Scholar]
  8. Bartlett J. G.. 2002; Clinical practice. Antibiotic-associated diarrhea. N Engl J Med346:334–339
    [Google Scholar]
  9. Brugère J. F., Mihajlovski A., Missaoui M., Peyret P.. 2009; Tools for stools: the challenge of assessing human intestinal microbiota using molecular diagnostics. Expert Rev Mol Diagn9:353–365
    [Google Scholar]
  10. de la Cochetière M. F., Durand T., Lepage P., Bourreille A., Galmiche J. P., Dore J.. 2005; Resilience of the dominant human fecal microbiota upon short-course antibiotic challenge. J Clin Microbiol43:5588–5592
    [Google Scholar]
  11. Dethlefsen L., Huse S., Sogin M. L., Relman D. A.. 2008; The pervasive effects of an antibiotic on the human gut microbiota, as revealed by deep 16S rRNA sequencing. PLoS Biol6:e280
    [Google Scholar]
  12. Dicksved J., Floistrup H., Bergstrom A., Rosenquist M., Pershagen G., Scheynius A., Roos S., Alm J. S., Engstrand L.. other authors 2007; Molecular fingerprinting of the fecal microbiota of children raised according to different lifestyles. Appl Environ Microbiol73:2284–2289
    [Google Scholar]
  13. Donskey C. J., Hujer A. M., Das S. M., Pultz N. J., Bonomo R. A., Rice L. B.. 2003; Use of denaturing gradient gel electrophoresis for analysis of the stool microbiota of hospitalized patients. J Microbiol Methods54:249–256
    [Google Scholar]
  14. Duncan S. H., Lobley G. E., Holtrop G., Ince J., Johnstone A. M., Louis P., Flint H. J.. 2008; Human colonic microbiota associated with diet, obesity and weight loss. Int J Obes (Lond32:1720–1724
    [Google Scholar]
  15. Eckburg P. B., Bik E. M., Bernstein C. N., Purdom E., Dethlefsen L., Sargent M., Gill S. R., Nelson K. E., Relman D. A.. 2005; Diversity of the human intestinal microbial flora. Science308:1635–1638
    [Google Scholar]
  16. Edlund C., Nord C. E.. 1993; Ecological impact of antimicrobial agents on human intestinal microflora. Alpe Adria Microbiol J2:137–164
    [Google Scholar]
  17. Engelbrektson A. L., Korzenik J. R., Sanders M. E., Clement B. G., Leyer G., Klaenhammer T. R., Kitts C. L.. 2006; Analysis of treatment effects on the microbial ecology of the human intestine. FEMS Microbiol Ecol57:239–250
    [Google Scholar]
  18. Fanaro S., Chierici R., Guerrini P., Vigi V.. 2003; Intestinal microflora in early infancy: composition and development. Acta Paediatr Suppl91:48–55
    [Google Scholar]
  19. Flint H. J., Duncan S. H., Scott K. P., Louis P.. 2007; Interactions and competition within the microbial community of the human colon: links between diet and health. Environ Microbiol9:1101–1111
    [Google Scholar]
  20. Hamady M., Knight R.. 2009; Microbial community profiling for human microbiome projects: tools, techniques, and challenges. Genome Res19:1141–1152
    [Google Scholar]
  21. Heuer H., Smalla K.. 2007; Manure and sulfadiazine synergistically increased bacterial antibiotic resistance in soil over at least two months. Environ Microbiol9:657–666
    [Google Scholar]
  22. Jakobsson H., Wreiber K., Fall K., Fjelstad B., Nyren O., Engstrand L.. 2007; Macrolide resistance in the normal microbiota after Helicobacter pylori treatment. Scand J Infect Dis39:757–763
    [Google Scholar]
  23. Jakobsson H. E., Jernberg C., Andersson A. F., Sjölund-Karlsson M., Jansson J. K., Engstrand L.. 2010; Short-term antibiotic treatment has differing long-term impacts on the human throat and gut microbiome. PLoS ONE5:e9836
    [Google Scholar]
  24. Janczyk P., Pieper R., Souffrant W. B., Bimczok D., Rothkotter H. J., Smidt H.. 2007; Parenteral long-acting amoxicillin reduces intestinal bacterial community diversity in piglets even 5 weeks after the administration. ISME J1:180–183
    [Google Scholar]
  25. Jernberg C., Löfmark S., Edlund C., Jansson J. K.. 2007; Long-term ecological impacts of antibiotic administration on the human intestinal microbiota. ISME J1:56–66
    [Google Scholar]
  26. Karami N., Martner A., Enne V. I., Swerkersson S., Adlerberth I., Wold A. E.. 2007; Transfer of an ampicillin resistance gene between two Escherichia coli strains in the bowel microbiota of an infant treated with antibiotics. J Antimicrob Chemother60:1142–1145
    [Google Scholar]
  27. Karami N., Hannoun C., Adlerberth I., Wold A. E.. 2008; Colonization dynamics of ampicillin-resistant Escherichia coli in the infantile colonic microbiota. J Antimicrob Chemother62:703–708
    [Google Scholar]
  28. Lester C. H., Frimodt-Moller N., Sorensen T. L., Monnet D. L., Hammerum A. M.. 2006; In vivo transfer of the vanA resistance gene from an Enterococcus faecium isolate of animal origin to an E. faecium isolate of human origin in the intestines of human volunteers. Antimicrob Agents Chemother50:596–599
    [Google Scholar]
  29. Levy J.. 2000; The effects of antibiotic use on gastrointestinal function. Am J Gastroenterol95:S8–S10
    [Google Scholar]
  30. Ley R. E., Backhed F., Turnbaugh P., Lozupone C. A., Knight R. D., Gordon J. I.. 2005; Obesity alters gut microbial ecology. Proc Natl Acad Sci U S A102:11070–11075
    [Google Scholar]
  31. Ley R. E., Turnbaugh P. J., Klein S., Gordon J. I.. 2006; Microbial ecology: human gut microbes associated with obesity. Nature444:1022–1023
    [Google Scholar]
  32. Lindgren M., Lofmark S., Edlund C., Huovinen P., Jalava J.. 2009; Prolonged impact of a one-week course of clindamycin on Enterococcus spp. in human normal microbiota. Scand J Infect Dis41:215–219
    [Google Scholar]
  33. Löfmark S., Jernberg C., Jansson J. K., Edlund C.. 2006; Clindamycin-induced enrichment and long-term persistence of resistant Bacteroides spp. and resistance genes. J Antimicrob Chemother58:1160–1167
    [Google Scholar]
  34. Löfmark S., Jernberg C., Billstrom H., Andersson D. I., Edlund C.. 2008; Restored fitness leads to long-term persistence of resistant Bacteroides strains in the human intestine. Anaerobe14:157–160
    [Google Scholar]
  35. Malhotra-Kumar S., Lammens C., Coenen S., Van Herck K., Goossens H.. 2007; Effect of azithromycin and clarithromycin therapy on pharyngeal carriage of macrolide-resistant streptococci in healthy volunteers: a randomised, double-blind, placebo-controlled study. Lancet369:482–490
    [Google Scholar]
  36. McFarland L. V.. 1998; Epidemiology, risk factors and treatments for antibiotic-associated diarrhea. Dig Dis16:292–307
    [Google Scholar]
  37. Nyberg S. D., Osterblad M., Hakanen A. J., Lofmark S., Edlund C., Huovinen P., Jalava J.. 2007; Long-term antimicrobial resistance in Escherichia coli from human intestinal microbiota after administration of clindamycin. Scand J Infect Dis39:514–520
    [Google Scholar]
  38. Qin J., Li R., Raes J., Arumugam M., Burgdorf K. S., Manichanh C., Nielsen T., Pons N., Levenez F.. other authors 2010; A human gut microbial gene catalogue established by metagenomic sequencing. Nature464:59–65
    [Google Scholar]
  39. Salyers A. A., Gupta A., Wang Y.. 2004; Human intestinal bacteria as reservoirs for antibiotic resistance genes. Trends Microbiol12:412–416
    [Google Scholar]
  40. Scott K. P.. 2002; The role of conjugative transposons in spreading antibiotic resistance between bacteria that inhabit the gastrointestinal tract. Cell Mol Life Sci59:2071–2082
    [Google Scholar]
  41. Shoemaker N. B., Vlamakis H., Hayes K., Salyers A. A.. 2001; Evidence for extensive resistance gene transfer among Bacteroides spp. and among Bacteroides and other genera in the human colon. Appl Environ Microbiol67:561–568
    [Google Scholar]
  42. Sjölund M., Wreiber K., Andersson D. I., Blaser M. J., Engstrand L.. 2003; Long-term persistence of resistant Enterococcus species after antibiotics to eradicate Helicobacter pylori. Ann Intern Med139:483–487
    [Google Scholar]
  43. Sjölund M., Tano E., Blaser M. J., Andersson D. I., Engstrand L.. 2005; Persistence of resistant Staphylococcus epidermidis after single course of clarithromycin. Emerg Infect Dis11:1389–1393
    [Google Scholar]
  44. Sommer M. O., Dantas G., Church G. M.. 2009; Functional characterization of the antibiotic resistance reservoir in the human microflora. Science325:1128–1131
    [Google Scholar]
  45. Sullivan A., Edlund C., Nord C. E.. 2001; Effect of antimicrobial agents on the ecological balance of human microflora. Lancet Infect Dis1:101–114
    [Google Scholar]
  46. Turnbaugh P. J., Ley R. E., Hamady M., Fraser-Liggett C. M., Knight R., Gordon J. I.. 2007; The human microbiome project. Nature449:804–810
    [Google Scholar]
  47. Turnbaugh P. J., Hamady M., Yatsunenko T., Cantarel B. L., Duncan A., Ley R. E., Sogin M. L., Jones W. J., Roe B. A.. other authors 2009; A core gut microbiome in obese and lean twins. Nature457:480–484
    [Google Scholar]
  48. Young V. B., Schmidt T. M.. 2004; Antibiotic-associated diarrhea accompanied by large-scale alterations in the composition of the fecal microbiota. J Clin Microbiol42:1203–1206
    [Google Scholar]
  49. Zoetendal E. G., Akkermans A. D., De Vos W. M.. 1998; Temperature gradient gel electrophoresis analysis of 16S rRNA from human fecal samples reveals stable and host-specific communities of active bacteria. Appl Environ Microbiol64:3854–3859
    [Google Scholar]
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