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Intestinal dysbiosis and depletion of butyrogenic bacteria in Clostridium difficile infection and nosocomial diarrhea.

Antharam VC, Li EC, Ishmael A, Sharma A, Mai V, Rand KH, Wang GP.

J Clin Microbiol. 2013 Sep;51(9):2884-92. doi: 10.1128/JCM.00845-13. Epub 2013 Jun 26.


Insight into alteration of gut microbiota in Clostridium difficile infection and asymptomatic C. difficile colonization.

Zhang L, Dong D, Jiang C, Li Z, Wang X, Peng Y.

Anaerobe. 2015 Aug;34:1-7. doi: 10.1016/j.anaerobe.2015.03.008. Epub 2015 Mar 26.


Identification of key taxa that favor intestinal colonization of Clostridium difficile in an adult Chinese population.

Gu S, Chen Y, Zhang X, Lu H, Lv T, Shen P, Lv L, Zheng B, Jiang X, Li L.

Microbes Infect. 2016 Jan;18(1):30-8. doi: 10.1016/j.micinf.2015.09.008. Epub 2015 Sep 14.


High-throughput DNA sequence analysis reveals stable engraftment of gut microbiota following transplantation of previously frozen fecal bacteria.

Hamilton MJ, Weingarden AR, Unno T, Khoruts A, Sadowsky MJ.

Gut Microbes. 2013 Mar-Apr;4(2):125-35. doi: 10.4161/gmic.23571. Epub 2013 Jan 18.


Microbiome data distinguish patients with Clostridium difficile infection and non-C. difficile-associated diarrhea from healthy controls.

Schubert AM, Rogers MA, Ring C, Mogle J, Petrosino JP, Young VB, Aronoff DM, Schloss PD.

MBio. 2014 May 6;5(3):e01021-14. doi: 10.1128/mBio.01021-14.


Clostridium difficile colonization in early infancy is accompanied by changes in intestinal microbiota composition.

Rousseau C, Levenez F, Fouqueray C, Doré J, Collignon A, Lepage P.

J Clin Microbiol. 2011 Mar;49(3):858-65. doi: 10.1128/JCM.01507-10. Epub 2010 Dec 22.


Shifts in microbiota species and fermentation products in a dietary model enriched in fat and sucrose.

Etxeberria U, Arias N, Boqué N, Macarulla MT, Portillo MP, Milagro FI, Martinez JA.

Benef Microbes. 2015 Mar;6(1):97-111. doi: 10.3920/BM2013.0097.


Faecal microbiota characterisation of horses using 16 rdna barcoded pyrosequencing, and carriage rate of clostridium difficile at hospital admission.

Rodriguez C, Taminiau B, Brévers B, Avesani V, Van Broeck J, Leroux A, Gallot M, Bruwier A, Amory H, Delmée M, Daube G.

BMC Microbiol. 2015 Sep 16;15:181. doi: 10.1186/s12866-015-0514-5.


Gut Microbiota Mediates the Protective Effects of Dietary Capsaicin against Chronic Low-Grade Inflammation and Associated Obesity Induced by High-Fat Diet.

Kang C, Wang B, Kaliannan K, Wang X, Lang H, Hui S, Huang L, Zhang Y, Zhou M, Chen M, Mi M.

MBio. 2017 May 23;8(3). pii: e00470-17. doi: 10.1128/mBio.00470-17. Erratum in: MBio. 2017 Jul 5;8(4):.


The development of gut microbiota in critically ill extremely low birth weight infants assessed with 16S rRNA gene based sequencing.

Drell T, Lutsar I, Stšepetova J, Parm U, Metsvaht T, Ilmoja ML, Simm J, Sepp E.

Gut Microbes. 2014 May-Jun;5(3):304-12. doi: 10.4161/gmic.28849.


Intestinal lactoflora in Estonian and Norwegian patients with antibiotic associated diarrhea.

Sepp E, Stšepetova J, Smidt I, Rätsep M, Kõljalg S, Lõivukene K, Mändar R, Jaanimäe L, Löhr IH, Natås OB, Naaber P.

Anaerobe. 2011 Dec;17(6):407-9. doi: 10.1016/j.anaerobe.2011.04.012. Epub 2011 Apr 29.


Culturomics and pyrosequencing evidence of the reduction in gut microbiota diversity in patients with broad-spectrum antibiotics.

Dubourg G, Lagier JC, Robert C, Armougom F, Hugon P, Metidji S, Dione N, Dangui NP, Pfleiderer A, Abrahao J, Musso D, Papazian L, Brouqui P, Bibi F, Yasir M, Vialettes B, Raoult D.

Int J Antimicrob Agents. 2014 Aug;44(2):117-24. doi: 10.1016/j.ijantimicag.2014.04.020. Epub 2014 Jun 14.


Effects of β-lactam antibiotics and fluoroquinolones on human gut microbiota in relation to Clostridium difficile associated diarrhea.

Knecht H, Neulinger SC, Heinsen FA, Knecht C, Schilhabel A, Schmitz RA, Zimmermann A, dos Santos VM, Ferrer M, Rosenstiel PC, Schreiber S, Friedrichs AK, Ott SJ.

PLoS One. 2014 Feb 28;9(2):e89417. doi: 10.1371/journal.pone.0089417. eCollection 2014.


Recovery of the gut microbiome following fecal microbiota transplantation.

Seekatz AM, Aas J, Gessert CE, Rubin TA, Saman DM, Bakken JS, Young VB.

MBio. 2014 Jun 17;5(3):e00893-14. doi: 10.1128/mBio.00893-14.


Low abundance of colonic butyrate-producing bacteria in HIV infection is associated with microbial translocation and immune activation.

Dillon SM, Kibbie J, Lee EJ, Guo K, Santiago ML, Austin GL, Gianella S, Landay AL, Donovan AM, Frank DN, McCARTER MD, Wilson CC.

AIDS. 2017 Feb 20;31(4):511-521. doi: 10.1097/QAD.0000000000001366.


Alterations in the gut microbiota associated with HIV-1 infection.

Lozupone CA, Li M, Campbell TB, Flores SC, Linderman D, Gebert MJ, Knight R, Fontenot AP, Palmer BE.

Cell Host Microbe. 2013 Sep 11;14(3):329-39. doi: 10.1016/j.chom.2013.08.006.


Profound alterations of intestinal microbiota following a single dose of clindamycin results in sustained susceptibility to Clostridium difficile-induced colitis.

Buffie CG, Jarchum I, Equinda M, Lipuma L, Gobourne A, Viale A, Ubeda C, Xavier J, Pamer EG.

Infect Immun. 2012 Jan;80(1):62-73. doi: 10.1128/IAI.05496-11. Epub 2011 Oct 17.


Dynamics of the fecal microbiome in patients with recurrent and nonrecurrent Clostridium difficile infection.

Seekatz AM, Rao K, Santhosh K, Young VB.

Genome Med. 2016 Apr 27;8(1):47. doi: 10.1186/s13073-016-0298-8.


Bloom and bust: intestinal microbiota dynamics in response to hospital exposures and Clostridium difficile colonization or infection.

Vincent C, Miller MA, Edens TJ, Mehrotra S, Dewar K, Manges AR.

Microbiome. 2016 Mar 14;4:12. doi: 10.1186/s40168-016-0156-3.


Colonization with the enteric protozoa Blastocystis is associated with increased diversity of human gut bacterial microbiota.

Audebert C, Even G, Cian A; Blastocystis Investigation Group, Loywick A, Merlin S, Viscogliosi E, Chabé M.

Sci Rep. 2016 May 5;6:25255. doi: 10.1038/srep25255.

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