Stool substitute transplant therapy for the eradication of Clostridium difficile infection: 'RePOOPulating' the gut

Microbiome

Volumn 1, Issue 1, 2013, Pages

  Petrof, Elaine O ^a   Gloor, Gregory B ^b   Vanner, Stephen J ^a   Weese, Scott J ^c   Carter, David ^d   Daigneault, Michelle C ^c   Brown, Eric M ^c   Schroeter, Kathleen ^c   Allen Vercoe, Emma ^c  

^a QUEEN S UNIVERSITY   (Canada)

^b UNIVERSITY OF WESTERN ONTARIO   (Canada)

^c UNIVERSITY OF GUELPH   (Canada)

^d ROBARTS RESEARCH INSTITUTE   (Canada)

Author keywords

Clostridium difficile; Fecal bacteriotherapy; Gut microbiome; Probiotics

Indexed keywords

AMOXICILLIN PLUS CLAVULANIC ACID; ANTIBIOTIC AGENT; BACTERIAL TOXIN; CEFALEXIN; CEFAZOLIN; CEFTAZIDIME; CEFTRIAXONE; CIPROFLOXACIN; CLINDAMYCIN; COTRIMOXAZOLE; DNA; IMIPENEM; METRONIDAZOLE; MOXIFLOXACIN; NITROFURANTOIN; PIPERACILLIN; PROBIOTIC AGENT; RNA 16S; VANCOMYCIN;

ADULT; AGED; ANTIBIOTIC RESISTANCE; ANTIMICROBIAL THERAPY; ARTICLE; BACTERIAL CLEARANCE; BACTERIAL COLONIZATION; BACTERIUM CULTURE; BACTERIUM ISOLATION; CASE REPORT; CHEMOTAXONOMY; CLINICAL TRIAL; CLOSTRIDIUM DIFFICILE INFECTION; COLONOSCOPY; DIARRHEA; DISEASE TRANSMISSION; FECAL BACTERIOTHERAPY; FEMALE; HUMAN; INTESTINE FLORA; MICROBIAL DIVERSITY; MICROBIOME; MINIMUM INHIBITORY CONCENTRATION; NONHUMAN; OUTCOME ASSESSMENT; POLYMERASE CHAIN REACTION; PRIORITY JOURNAL; REPRODUCIBILITY; RIBOTYPING; SACCHAROMYCES BOULARDII; SKIN INFECTION; SOFT TISSUE INFECTION; URINARY TRACT INFECTION;

BACTERIA (MICROORGANISMS); CLOSTRIDIUM DIFFICILE;

EID: 84877020842     PISSN: None     EISSN: 20492618     Source Type: Journal    
DOI: 10.1186/2049-2618-1-3     Document Type: Article

References (25)

1. Bartlett JG, Gerding DN. Clinical recognition and diagnosis of Clostridium difficile infection. Clin Infect Dis 2008, 46(Suppl 1):S12-S18.
2. Cohen SH, Gerding DN, Johnson S, Kelly CP, Loo VG, McDonald LC, Pepin J, Wilcox MH. Clinical practice guidelines for Clostridium difficile infection in adults: 2010 update by the society for healthcare epidemiology of America (SHEA) and the infectious diseases society of America (IDSA). Infect Control Hosp Epidemiol 2010, 31:431-455. 10.1086/651706, 20307191.
3. Bakken JS. Fecal bacteriotherapy for recurrent Clostridium difficile infection. Anaerobe 2009, 15:285-289. 10.1016/j.anaerobe.2009.09.007, 19778623.
4. Chang JY, Antonopoulos DA, Kalra A, Tonelli A, Khalife WT, Schmidt TM, Young VB. Decreased diversity of the fecal microbiome in recurrent Clostridium difficile-associated diarrhea. J Infect Dis 2008, 197:435-438. 10.1086/525047, 18199029.
5. Rohlke F, Surawicz CM, Stollman N. Fecal flora reconstitution for recurrent Clostridium difficile infection: results and methodology. J Clin Gastroenterol 2010, 44:567-570. 10.1097/MCG.0b013e3181dadb10, 20485184.
6. DeSantis TZ, Hugenholtz P, Keller K, Brodie EL, Larsen N, Piceno YM, Phan R, Andersen GL. NAST: a multiple sequence alignment server for comparative analysis of 16 S rRNA genes. Nucleic Acids Res 2006, 34:W394-W399. 10.1093/nar/gkl244, 1538769, 16845035.
7. DeSantis TZ, Hugenholtz P, Larsen N, Rojas M, Brodie EL, Keller K, Huber T, Dalevi D, Hu P, Andersen GL. GreenGenes, a chimera-checked 16 S rRNA gene database and workbench compatible with ARB. Appl Environ Microbiol 2006, 72:5069-5072. 10.1128/AEM.03006-05, 1489311, 16820507.
8. Goll J, Rusch DB, Tanenbaum DM, Thiagarajan M, Li K, Methe BA, Yooseph S. METAREP: JCVI metagenomics reports - an open source tool for high-performance comparative metagenomics. Bioinformatics 2010, 26:2631-2632. 10.1093/bioinformatics/btq455, 2951084, 20798169.
9. Turroni F, Foroni E, Pizzetti P, Giubellini V, Ribbera A, Merusi P, Cagnasso P, Bizzarri B, deAngelis GL, Shanahan F, van Sinderen D, Ventura M. Exploring the diversity of the bifidobacterial population in the human intestinal tract. Appl Environ Microbiol 2009, 75:1534-1545. 10.1128/AEM.02216-08, 2655441, 19168652.
10. Turroni F, Marchesi JR, Foroni E, Gueimonde M, Shanahan F, Margolles A, van Sinderen D, Ventura M. Microbiomic analysis of the bifidobacterial population in the human distal gut. ISME J 2009, 3:745-751. 10.1038/ismej.2009.19, 19295640.
11. Medina-Torres CE, Weese JS, Staempfli HR. Prevalence of Clostridium difficile in horses. Vet Microbiol 2011, 152:212-215. 10.1016/j.vetmic.2011.04.012, 21570780.
12. Bidet P, Barbut F, Lalande V, Burghoffer B, Petit JC. Development of a new PCR-ribotyping method for Clostridium difficile based on ribosomal RNA gene sequencing. FEMS Microbiol Lett 1999, 175:261-266. 10.1111/j.1574-6968.1999.tb13629.x, 10386377.
13. Gloor GB, Hummelen R, Macklaim JM, Dickson RJ, Fernandes AD, MacPhee R, Reid G. Microbiome profiling by illumina sequencing of combinatorial sequence-tagged PCR products. PLoS One 2010, 5:e15406. 10.1371/journal.pone.0015406, 2964327, 21048977.
14. Edgar RC, Haas BJ, Clemente JC, Quince C, Knight R. UCHIME improves sensitivity and speed of chimera detection. Bioinformatics 2011, 27:2194-2200. 10.1093/bioinformatics/btr381, 3150044, 21700674.
15. Caporaso JG, Kuczynski J, Stombaugh J, Bittinger K, Bushman FD, Costello EK, Fierer N, Pena AG, Goodrich JK, Gordon JI, Huttley GA, Kelley ST, Knights D, Koenig JE, Ley RE, Lozupone CA, McDonald D, Muegge BD, Pirrung M, Reeder J, Sevinsky JR, Turnbaugh PJ, Walters WA, Widmann J, Yatsunenko T, Zaneveld J, Knight R. QIIME allows analysis of high-throughput community sequencing data. Nat Methods 2010, 7:335-336. 10.1038/nmeth.f.303, 3156573, 20383131.
16. Edgar RC. MUSCLE: multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Res 2004, 32:1792-1797. 10.1093/nar/gkh340, 390337, 15034147.
17. Larkin MA, Blackshields G, Brown NP, Chenna R, McGettigan PA, McWilliam H, Valentin F, Wallace IM, Wilm A, Lopez R, Thompson JD, Gibson TJ, Higgins DG. Clustal W and Clustal X version 2.0. Bioinformatics 2007, 23:2947-2948. 10.1093/bioinformatics/btm404, 17846036.
18. Lozupone C, Knight R. UniFrac: a new phylogenetic method for comparing microbial communities. Appl Environ Microbiol 2005, 71:8228-8235. 10.1128/AEM.71.12.8228-8235.2005, 1317376, 16332807.
19. Bakken JS, Borody T, Brandt LJ, Brill JV, Demarco DC, Franzos MA, Kelly C, Khoruts A, Louie T, Martinelli LP, Moore TA, Russell G, Surawicz C. Fecal Microbiota Transplantation Workgroup: TreatingClostridium difficileinfection with fecal microbiota transplantation. Clin Gastroenterol Hepatol 2011, 9:1044-1049. 10.1016/j.cgh.2011.08.014, 3223289, 21871249.
20. Khoruts A, Dicksved J, Jansson JK, Sadowsky MJ. Changes in the composition of the human fecal microbiome after bacteriotherapy for recurrent Clostridium difficile-associated diarrhea. J Clin Gastroenterol 2010, 44:354-360.
21. Tvede M, Rask-Madsen J. Bacteriotherapy for chronic relapsing Clostridium difficile diarrhoea in six patients. Lancet 1989, 1:1156-1160.
22. Gough E, Shaikh H, Manges AR. Systematic review of intestinal microbiota transplantation (fecal bacteriotherapy) for recurrent Clostridium difficile infection. Clin Infect Dis 2011, 53:994-1002. 10.1093/cid/cir632, 22002980.
23. Allen-Vercoe E, Reid G, Viner N, ODoherty K, Lee C, Hota S, Gloor GB, Kim P, Vanner S, Weese JS, Petrof EO. A Canadian Working Group Report on fecal microbial therapy: microbial ecosystems therapeutics. Can J Gastroenterol 2012, 26:457-462.
24. Arumugam M, Raes J, Pelletier E, Le Paslier D, Yamada T, Mende DR, Fernandes GR, Tap J, Bruls T, Batto JM, Bertalan M, Borruel N, Casellas F, Fernandez L, Gautier L, Hansen T, Hattori M, Hayashi T, Kleerebezem M, Kurokawa K, Leclerc M, Levenez F, Manichanh C, Nielsen HB, Nielsen T, Pons N, Poulain J, Qin J, Sicheritz-Ponten T, Tims S, et al. Enterotypes of the human gut microbiome. Nature 2011, 473:174-180. 10.1038/nature09944, 21508958.
25. Weese JS. Clostridium difficile in food - innocent bystander or serious threat?. Clin Microbiol Infect 2010, 16:3-10.