Probiotics or antibiotics: Future challenges in medicine

Journal of Medical Microbiology

Volumn 64, Issue 2, 2015, Pages 137-146

  Nami, Yousef ^a   Haghshenas, Babak ^a   Abdullah, Norhafizah ^a   Barzegari, Abolfazl ^b   Radiah, Dayang ^a   Rosli, Rozita ^a   Khosroushahi, Ahmad Yari ^c,d  

^a UNIVERSITY PUTRA MALAYSIA   (Malaysia)

^b TABRIZ UNIVERSITY OF MEDICAL SCIENCES   (Iran)

^c TABRIZ UNIVERSITY OF MEDICAL SCIENCES   (Iran)

^d TABRIZ UNIVERSITY OF MEDICAL SCIENCES   (Iran)

Author keywords

[No Author keywords available]

Indexed keywords

ANTIBIOTIC AGENT; PROBIOTIC AGENT; ANTIINFECTIVE AGENT;

ALTERNATIVE MEDICINE; ANTIBIOTIC ASSOCIATED DIARRHEA; ANTIBIOTIC RESISTANCE; ANTIBIOTIC THERAPY; BACTERIAL GENOME; BACTERIUM CULTURE; DRUG INDUCED DISEASE; DRUG USE; EPIGENETICS; GENETIC REGULATION; HUMAN; HYGIENE HYPOTHESIS; INTESTINE FLORA; META ANALYSIS (TOPIC); METAGENOME; MICROBIAL DIVERSITY; MICROBIOME; NONHUMAN; PRIORITY JOURNAL; RANDOMIZED CONTROLLED TRIAL (TOPIC); REVIEW; SANITATION; DRUG THERAPY; GASTROINTESTINAL TRACT; MEDICINE; MICROBIOLOGY; MICROFLORA; TRENDS;

ANTI-BACTERIAL AGENTS; DRUG THERAPY; GASTROINTESTINAL TRACT; HUMANS; MEDICINE; MICROBIOTA; PROBIOTICS;

EID: 84921887923     PISSN: 00222615     EISSN: None     Source Type: Journal    
DOI: 10.1099/jmm.0.078923-0     Document Type: Review

References (92)

1. Abel, T. & Zukin, R. S. (2008). Epigenetic targets of HDAC inhibition in neurodegenerative and psychiatric disorders. Curr Opin Pharmacol 8, 57-64.
2. Al-Nassir, W N., Sethi, A. K., Li, Y., Pultz, M. J., Riggs, M. M. & Donskey, C. J. (2008). Both oral metronidazole and oral vancomycin promote persistent overgrowth of vancomycin-resistant enterococci during treatment of Clostridium difficile-associated disease. Antimicrob Agents Chemother 52, 2403-2406.
3. Bach, J.-F. & Chatenoud, L. (2012). The hygiene hypothesis: an explanation for the increased frequency of insulin-dependent diabetes. Cold Spring Harb Perspect Med 2, a007799.
4. Barc, M.-C., Charrin-Sarnel, C., Rochet, V., Bourlioux, F., Sandré, C., Boureau, H., Doré, J. & Collignon, A. (2008). Molecular analysis of the digestive microbiota in a gnotobiotic mouse model during antibiotic treatment: influence of Saccharomyces boulardii. Anaerobe 14, 229-233.
5. Bastow, R., Mylne, J. S., Lister, C., Lippman, Z., Martienssen, R. A. & Dean, C. (2004). Vernalization requires epigenetic silencing of FLC by histone methylation. Nature 427, 164-167.
6. Belda-Ferre, P, Alcaraz, L. D., Cabrera-Rubio, R., Romero, H., Simón-Soro, A., Pignatelli, M. & Mira, A. (2012). The oral metagenome in health and disease. ISME J 6, 46-56.
7. Blaut, M. & Bischoff, S. C. (2010). Probiotics and obesity. Ann Nutr Metab 57 (Suppl.), 20-23.
8. Botina, S. G., Poluéktova, E. U., Glazkova, A. A., Zakharevich, N. V., Koroban, N. V., Zinchenko, V. V., Babykin, M. M., Zhilenkova, O. G., Amerkhanova, A. M. & Danilenko, V. N. (2011). [Antibiotic resistance of potential probiotic bacteria of the genus Lactobacillus from human gastrointestinal microbiome]. Mikrobiologiia 80, 175-183 (in Russian).
9. Bouton, Y., Guyot, P., Beuvier, E., Tailliez, P. & Grappin, R. (2002). Use of PCR-based methods and PFGE for typing and monitoring homofermentative lactobacilli during Comtécheese ripening. Int J Food Microbiol 76, 27-38.
10. Butler, C. C., Duncan, D. & Hood, K. (2012). Does taking probiotics routinely with antibiotics prevent antibiotic associated diarrhoea? BMJ 344, e682.
11. Canani, R. B., Di Costanzo, M., Leone, L., Bedogni, G., Brambilla, P., Cianfarani, S., Nobili, V., Pietrobelli, A. & Agostoni, C. (2011). Epigenetic mechanisms elicited by nutrition in early life. Nutr Res Rev 24, 198-205.
12. Carlet, J. (2012). The gut is the epicentre of antibiotic resistance. Antimicrob Resist Infect Control 1, 39.
13. Cars, O., Högberg, L. D., Murray, M., Nordberg, O., Sivaraman, S., Lundborg, C. S., So, A. D. & Tomson, G. (2008). Meeting the challenge of antibiotic resistance. BMJ 337, a1438.
14. Castanon, J. I. (2007). History of the use of antibiotic as growth promoters in European poultry feeds. Poult Sci 86, 2466-2471.
15. Cheng, Q., Wang, S. & Salyers, A. A. (2003). New approaches for anti-infective drug discovery: antibiotics, vaccines and beyond. Curr Drug Targets Infect Disord 3, 65-75.
16. Cimperman, L., Bayless, G., Best, K., Diligente, A., Mordarski, B., Oster, M., Smith, M., Vatakis, F., Wiese, D. & other authors (2011). A randomized, double-blind, placebo-controlled pilot study of Lactobacillus reuteri ATCC 55730 for the prevention of antibiotic-associated diarrhea in hospitalized adults. J Clin Gastroenterol 45, 785-789.
17. Climo, M. W., Sepkowitz, K. A., Zuccotti, G., Fraser, V. J., Warren, D. K., Perl, T. M., Speck, K., Jernigan, J. A., Robles, J. R. & Wong, E. S. (2009). The effect of daily bathing with chlorhexidine on the acquisition of methicillin-resistant Staphylococcus aureus, vancomycin-resistant Enterococcus, and healthcare-associated bloodstream infections: results of a quasi-experimental multicenter trial. Crit Care Med 37, 1858-1865.
18. Collado, M. C., Cernada, M., Baüerl, C., Vento, M. & Pérez-Martínez, G. (2012). Microbial ecology and host-microbiota interactions during early life stages. Gut Microbes 3, 352-365.
19. Correa, N. B., Peret Filho, L. A., Penna, F. J., Lima, F. M. & Nicoli, J. R. (2005). A randomized formula controlled trial of Bifidobacterium lactis and Streptococcus thermophilus for prevention of antibiotic-associated diarrhea in infants. Journal of clinical gastroenterology 39, 385-389.
20. Costelloe, C., Metcalfe, C., Lovering, A., Mant, D. & Hay, A. D. (2010). Effect of antibiotic prescribing in primary care on antimicrobial resistance in individual patients: systematic review and meta-analysis. BMJ 340, c2096.
21. Damaskos, D. & Kolios, G. (2008). Probiotics and prebiotics in inflammatory bowel disease: microflora ‘on the scope’. Br J Clin Pharmacol 65, 453-467.
22. Dancer, S. J. (2008). The effect of antibiotics on methicillin-resistant Staphylococcus aureus. J Antimicrob Chemother 61, 246-253.
23. Delcenserie, V., Martel, D., Lamoureux, M., Amiot, J., Boutin, Y. & Roy, D. (2008). Immunomodulatory effects of probiotics in the intestinal tract. Curr Issues Mol Biol 10, 37-54.
24. 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 Biol 6, e280.
25. Dinleyici, E. C., Eren, M., Ozen, M., Yargic, Z. A. & Vandenplas, Y. (2012). Effectiveness and safety of Saccharomyces boulardii for acute infectious diarrhea. Expert Opin Biol Ther 12, 395-410.
26. Ellison, R. T., III (2006). Review: probiotics are effective for prevention of antibiotic-associated diarrhea and treatment of Clostridium difficile disease. ACP J Club 145, 46.
27. 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 Ecol 57, 239-250.
28. Fey, P. D., Safranek, T. J., Rupp, M. E., Dunne, E. F., Ribot, E., Iwen, P. C., Bradford, P. A., Angulo, F. J. & Hinrichs, S. H. (2000). Ceftriaxone-resistant salmonella infection acquired by a child from cattle. N Engl J Med 342, 1242-1249.
29. Fouhy, F., Guinane, C. M., Hussey, S., Wall, R., Ryan, C. A., Dempsey, E. M., Murphy, B., Ross, R. P., Fitzgerald, G. F. & other authors (2012). High-throughput sequencing reveals the incomplete, shortterm recovery of infant gut microbiota following parenteral antibiotic treatment with ampicillin and gentamicin. Antimicrob Agents Chemother 56, 5811-5820.
30. Friedman, G. (2012). The role of probiotics in the prevention and treatment of antibiotic-associated diarrhea and Clostridium difficile colitis. Gastroenterol Clin North Am 41, 763-779.
31. Fuller, R. (1989). Probiotics in man and animals. The Journal of applied bacteriology 66, 365-378.
32. Garcia-Mazcorro, J F., Lanerie, D. J., Dowd, S. E., Paddock, C. G., Grützner, N., Steiner, J. M., Ivanek, R. & Suchodolski, J. S. (2011). Effect of a multi-species synbiotic formulation on fecal bacterial microbiota of healthy cats and dogs as evaluated by pyrosequencing. FEMS Microbiol Ecol 78, 542-554.
33. Gilchrist, M., Winyard, P. G. & Benjamin, N. (2010). Dietary nitrate-good or bad? Nitric Oxide 22, 104-109.
34. Gill, H. & Prasad, J. (2008). Probiotics, immunomodulation, and health benefits. In Bioactive Components of Milk, pp. 423-454. Edited by Z. Bösze. New York: Springer.
35. Gluckman, P. D. & Hanson, M. A. (2008). Developmental and epigenetic pathways to obesity: an evolutionary-developmental perspective. Int J Obes (Lond) 32 (Suppl. 7), S62-S71.
36. Glynn, M. K., Bopp, Ch., Dewitt, W., Dabney, P., Mokhtar, M. & Angulo, F. J. (1998). Emergence of multidrug-resistant Salmonella enterica serotype Typhimurium DT104 infections in the United States. N Engl J Med 338, 1333-1338.
37. Goldin, B. R. & Gorbach, S. L. (2008). Clinical indications for probiotics: an overview. Clin Infect Dis 46 (Suppl. 2), S96-S100.
38. Guarner, F., Bourdet-Sicard, R., Brandtzaeg, P., Gill, H. S., McGuirk, P., van Eden, W., Versalovic, J., Weinstock, J. V. & Rook, G. A. W. (2006). Mechanisms of disease: the hygiene hypothesis revisited. Nat Clin Pract Gastroenterol Hepatol 3, 275-284.
39. Gueimonde, M. & Collado, M. C. (2012). Metagenomics and probiotics. Clin Microbiol Infect 18 (Suppl. 4), 32-34.
40. Hammad, A. M. & Shimamoto, T. (2010). Towards a compatible probiotic-antibiotic combination therapy: assessment of antimicrobial resistance in the Japanese probiotics. J Appl Microbiol 109, 1349-1360.
41. Hattori, M. & Taylor, T. D. (2009). The human intestinal microbiome: a new frontier of human biology. DNA Res 16, 1-12.
42. Hoveyda, N., Heneghan, C., Mahtani, K. R., Perera, R., Roberts, N. & Glasziou, P. (2009). A systematic review and meta-analysis: probiotics in the treatment of irritable bowel syndrome. BMC Gastroenterol 9, 15.
43. Iacobuzio-Donahue, C A. (2009). Epigenetic changes in cancer. Annu Rev Pathol 4, 229-249.
44. 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 ONE 5, e9836.
45. Jia, W., Li, H., Zhao, L. & Nicholson, J. K. (2008). Gut microbiota: a potential new territory for drug targeting. Nat Rev Drug Discov 7, 123-129.
46. Johnson, C. L. & Versalovic, J. (2012). The human microbiome and its potential importance to pediatrics. Pediatrics 129, 950-960.
47. Kazimierczak, K. A. & Scott, K. P. (2007). Antibiotics and resistance genes: influencing the microbial ecosystem in the gut. Adv Appl Microbiol 62, 269-292.
48. Kho, H.-S., Park, M.-S., Chang, J.-Y. & Kim, Y.-Y. (2014). Yam tuber mucilage as a candidate substance for saliva substitute: in vitro study of its viscosity and influences on lysozyme and peroxidase activities. Gerodontology 31, 34-41.
49. Kinross, J. M., Darzi, A. W. & Nicholson, J. K. (2011). Gut microbiomehost interactions in health and disease. Genome Med 3, 14.
50. Kuitunen, M., Kukkonen, K., Juntunen-Backman, K., Korpela, R., Poussa, T., Tuure, T., Haahtela, T. & Savilahti, E. (2009). Probiotics prevent IgE-associated allergy until age 5 years in cesarean-delivered children but not in the total cohort. J Allergy Clin Immunol 123, 335-341.
51. Kuitunen, M., Kukkonen, A. K. & Savilahti, E. (2012). Impact of maternal allergy and use of probiotics during pregnancy on breast milk cytokines and food antibodies and development of allergy in children until 5 years. Int Arch Allergy Immunol 159, 162-170.
52. Kumar, M., Nagpal, R., Verma, V., Kumar, A., Kaur, N., Hemalatha, R., Gautam, S. K. & Singh, B. (2013). Probiotic metabolites as epigenetic targets in the prevention of colon cancer. Nutr Rev 71, 23-34.
53. Lodise, T. P., Graves, J., Evans, A., Graffunder, E., Helmecke, M., Lomaestro, B. M. & Stellrecht, K. (2008). Relationship between vancomycin MIC and failure among patients with methicillinresistant Staphylococcus aureus bacteremia treated with vancomycin. Antimicrob Agents Chemother 52, 3315-3320.
54. Lönnermark, E., Friman, V., Lappas, G., Sandberg, T., Berggren, A. & Adlerberth, I. (2010). Intake of Lactobacillus plantarum reduces certain gastrointestinal symptoms during treatment with antibiotics. J Clin Gastroenterol 44, 106-112.
55. Looft, T. & Allen, H. K. (2012). Collateral effects of antibiotics on mammalian gut microbiomes. Gut Microbes 3, 463-467.
56. McFarland, L. V. (2008). Antibiotic-associated diarrhea: epidemiology, trends and treatment. Future Microbiol 3, 563-578.
57. Merenstein, D., Murphy, M., Fokar, A., Hernandez, R. K., Park, H., Nsouli, H., Sanders, M. E., Davis, B. A., Niborski, V. & other authors (2010). Use of a fermented dairy probiotic drink containing Lactobacillus casei (DN-114 001) to decrease the rate of illness in kids: the DRINK study. A patient-oriented, double-blind, cluster-randomized, placebo-controlled, clinical trial. Eur J Clin Nutr 64, 669-677.
58. Mikelsaar, M. (2011). Human microbial ecology: lactobacilli, probiotics, selective decontamination. Anaerobe 17, 463-467.
59. Mikelsaar, M., Lazar, V., Onderdonk, A. & Donelli, G. (2011). Do probiotic preparations for humans really have efficacy? Microb Ecol Health Dis 22, 10128.
60. Nakao, M. (2001). Epigenetics: interaction of DNA methylation and chromatin. Gene 278, 25-31.
61. Nayak, S. K. & Mukherjee, S. C. (2011). Screening of gastrointestinal bacteria of Indian major carps for a candidate probiotic species for aquaculture practices. Aquacult Res 42, 1034-1041.
62. Ogué-Bon, E., Khoo, C., Hoyles, L., McCartney, A. L., Gibson, G. R. & Rastall, R. A. (2011). In vitro fermentation of rice bran combined with Lactobacillus acidophilus 14 150B or Bifidobacterium longum 05 by the canine faecal microbiota. FEMS Microbiol Ecol 75, 365-376.
63. Ogunshe, A. A. (2008). Effect of production batches of antibiotics on in vitro selection criterion for potential probiotic candidates. J Med Food 11, 753-760.
64. Okada, H., Kuhn, C., Feillet, H. & Bach, J. F. (2010). The ‘hygiene hypothesis’ for autoimmune and allergic diseases: an update. Clin Exp Immunol 160, 1-9.
65. Ordovás, J. M. & Smith, C. E. (2010). Epigenetics and cardiovascular disease. Nat Rev Cardiol 7, 510-519.
66. Orman, B. E., Piñeiro, S. A., Arduino, S., Galas, M., Melano, R., Caffer, M. I., Sordelli, D. O. & Centrón, D. (2002). Evolution of multiresistance in nontyphoid Salmonella serovars from 1984 to 1998 in Argentina. Antimicrob Agents Chemother 46, 3963-3970.
67. Oudhuis, G. J., Bergmans, D. C., Dormans, T., Zwaveling, J. H., Kessels, A., Prins, M. H., Stobberingh, E. E. & Verbon, A. (2011). Probiotics versus antibiotic decontamination of the digestive tract: infection and mortality. Intensive Care Med 37, 110-117.
68. Park, J. H., Stoffers, D. A., Nicholls, R. D. & Simmons, R. A. (2008). Development of type 2 diabetes following intrauterine growth retardation in rats is associated with progressive epigenetic silencing of Pdx1. J Clin Invest 118, 2316-2324.
69. Pérez-Cobas, A. E., Gosalbes, M. J., Friedrichs, A., Knecht, H., Artacho, A., Eismann, K., Otto, W., Rojo, D., Bargiela, R. & other authors (2013). Gut microbiota disturbance during antibiotic therapy: a multi-omic approach. Gut 62, 1591-1601.
70. Peterson, D. A., Frank, D. N., Pace, N. R. & Gordon, J. I. (2008). Metagenomic approaches for defining the pathogenesis of inflammatory bowel diseases. Cell Host Microbe 3, 417-427.
71. Porsby, C. H., Webber, M. A., Nielsen, K. F., Piddock, L. J. & Gram, L. (2011). Resistance and tolerance to tropodithietic acid, an antimicrobial in aquaculture, is hard to select. Antimicrob Agents Chemother 55, 1332-1337.
72. Prantera, C. & Scribano, M. L. (2009). Antibiotics and probiotics in inflammatory bowel disease: why, when, and how. Curr Opin Gastroenterol 25, 329-333.
73. Preidis, G. A. & Versalovic, J. (2009). Targeting the human microbiome with antibiotics, probiotics, and prebiotics: gastroenterology enters the metagenomics era. Gastroenterology 136, 2015-2031.
74. Prescott, J. F. (2008). Antimicrobial use in food and companion animals. Anim Health Res Rev 9, 127-133.
75. Quigley, E. M. (2011). Therapies aimed at the gut microbiota and inflammation: antibiotics, prebiotics, probiotics, synbiotics, antiinflammatory therapies. Gastroenterol Clin North Am 40, 207-222.
76. Rajender, S., Avery, K. & Agarwal, A. (2011). Epigenetics, spermatogenesis and male infertility. Mutat Res 727, 62-71.
77. Reid, G., Dols, J. & Miller, W. (2009). Targeting the vaginal microbiota with probiotics as a means to counteract infections. Curr Opin Clin Nutr Metab Care 12, 583-587.
78. Riboulet-Bisson, E, Sturme, M. H., Jeffery, I. B., O’Donnell, M. M., Neville, B. A., Forde, B. M., Claesson, M. J., Harris, H., Gardiner, G. E. & other authors (2012). Effect of Lactobacillus salivarius bacteriocin Abp118 on themouse and pig intestinal microbiota. PLoS ONE 7, e31113.
79. Riddle, D. J. & Dubberke, E. R. (2009). Clostridium difficile infection in the intensive care unit. Infect Dis Clin North Am 23, 727-743.
80. Ruszczyński, M., Radzikowski, A. & Szajewska, H. (2008). Clinical trial: effectiveness of Lactobacillus rhamnosus (strains E/N, Oxy and Pen) in the prevention of antibiotic-associated diarrhoea in children. Aliment Pharmacol Ther 28, 154-161.
81. Scherer, A., Vogt, H. R., Vilei, E. M., Frey, J. & Perreten, V. (2013). Enhanced antibiotic multi-resistance in nasal and faecal bacteria after agricultural use of streptomycin. Environ Microbiol 15, 297-304.
82. Sengupta, R., Altermann, E., Anderson, R. C., McNabb, W. C., Moughan, P. J. & Roy, N. C. (2013). The role of cell surface architecture of lactobacilli in host-microbe interactions in the gastrointestinal tract. Mediators Inflamm 2013, 237921.
83. Shadnoush, M., Shaker Hosseini, R., Mehrabi, Y., Delpisheh, A., Alipoor, E., Faghfoori, Z., Mohammadpour, N. & Zaringhalam Moghadam, J. (2013). Probiotic yogurt affects pro-and antiinflammatory factors in patients with inflammatory bowel disease. Iran J Pharm Res 12, 929-936.
84. Sievert, D. M., Rudrik, J. T., Patel, J. B., McDonald, L. C., Wilkins, M. J. & Hageman, J. C. (2008). Vancomycin-resistant Staphylococcus aureus in the United States, 2002-2006. Clin Infect Dis 46, 668-674.
85. Siew-Wai, L, Zi-Ni, T., Karim, A. A., Hani, N. M. & Rosma, A. (2010). Fermentation of Metroxylon sagu resistant starch type III by Lactobacillus sp. and Bifidobacterium bifidum. J Agric Food Chem 58, 2274-2278.
86. Smith, T. C., Male, M. J., Harper, A. L., Kroeger, J. S., Tinkler, G. P., Moritz, E. D., Capuano, A. W., Herwaldt, L. A. & Diekema, D. J. (2009). Methicillin-resistant Staphylococcus aureus (MRSA) strain ST398 is present in midwestern U.S. swine and swine workers. PLoS ONE 4, e4258.
87. Snydman, D. R. (2008). The safety of probiotics. Clin Infect Dis 46 (Suppl. 2), S104-S111.
88. Teran, C. G., Teran-Escalera, C. N. & Villarroel, P. (2009). Nitazoxanide vs. probiotics for the treatment of acute rotavirus diarrhea in children: a randomized, single-blind, controlled trial in Bolivian children. Int J Infect Dis 13, 518-523.
89. Tuohy, K. M., Gougoulias, C., Shen, Q., Walton, G., Fava, F. & Ramnani, P. (2009). Studying the human gut microbiota in the transomics era-focus on metagenomics and metabonomics. Curr Pharm Des 15, 1415-1427.
90. Turpin, W., Humblot, C. & Guyot, J. P. (2011). Genetic screening of functional properties of lactic acid bacteria in a fermented pearl millet slurry and in the metagenome of fermented starchy foods. Appl Environ Microbiol 77, 8722-8734.
91. Ventura, M., Turroni, F., Canchaya, C., Vaughan, E. E., O’Toole, P. W. & van Sinderen, D. (2009). Microbial diversity in the human intestine and novel insights from metagenomics. Front Biosci (Landmark Ed) 14, 3214-3221.
92. Yazdanbakhsh, M., Kremsner, P. G. & van Ree, R. (2002). Allergy, parasites, and the hygiene hypothesis. Science 296, 490-494.