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Original Research

A pilot study of fecal bile acid and microbiota profiles in inflammatory bowel disease and primary sclerosing cholangitis

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Pages 9-19 | Published online: 10 Jan 2019

References

  • AbrahamCChoJHInflammatory bowel diseaseN Engl J Med2009361212066207819923578
  • BambhaKKimWRTalwalkarJIncidence, clinical spectrum, and outcomes of primary sclerosing cholangitis in a United States communityGastroenterology200312551364136914598252
  • LoftusEVHarewoodGCLoftusCGPSC-IBD: a unique form of inflammatory bowel disease associated with primary sclerosing cholangitisGut2005541919615591511
  • TorresJPineton de ChambrunGItzkowitzSSacharDBColombelJFReview article: colorectal neoplasia in patients with primary sclerosing cholangitis and inflammatory bowel diseaseAliment Pharmacol Ther201134549750821692821
  • BernsteinCHolubecHBhattacharyyaAKCarcinogenicity of deoxycholate, a secondary bile acidArch Toxicol201185886387121267546
  • AjouzHMukherjiDShamseddineASecondary bile acids: an under-recognized cause of colon cancerWorld J Surg Oncol201412116424884764
  • HillMJLennard-JonesJEMelvilleDMNealeKRitchieJFaecal bile acids, dysplasia, and carcinoma in ulcerative colitisThe Lancet19873308552185186
  • DubocHTachéYHofmannAFThe bile acid TGR5 membrane receptor: from basic research to clinical applicationDig Liver Dis201446430231224411485
  • TorresJBaoXGoelAThe features of mucosa-associated microbiota in primary sclerosing cholangitisAliment Pharmacol Ther201643779080126857969
  • RidlonJMAlvesJMHylemonPBBajajJSCirrhosis, bile acids and gut microbiota: unraveling a complex relationshipGut Microbes20134538238723851335
  • VriezeAOutCFuentesSImpact of oral vancomycin on gut microbiota, bile acid metabolism, and insulin sensitivityJ Hepatol201460482483124316517
  • TabibianJHWeedingEJorgensenRARandomised clinical trial: vancomycin or metronidazole in patients with primary sclerosing cholangitis - a pilot studyAliment Pharmacol Ther201337660461223384404
  • WeingardenARChenCBobrAMicrobiota transplantation restores normal fecal bile acid composition in recurrent Clostridium difficile infectionAm J Physiol Gastrointest Liver Physiol20143064G310G31924284963
  • ClaessonMJWangQO’SullivanOComparison of two next-generation sequencing technologies for resolving highly complex microbiota composition using tandem variable 16S rRNA gene regionsNucleic Acids Res20103822e20020880993
  • GohlDMVangayPGarbeJSystematic improvement of amplicon marker gene methods for increased accuracy in microbiome studiesNat Biotechnol201634994294927454739
  • SchlossPDWestcottSLRyabinTIntroducing mothur: open-source, platform-independent, community-supported software for describing and comparing microbial communitiesAppl Environ Microbiol200975237537754119801464
  • AronestyEComparison of sequencing utility programsOpen Bioinforma J20137118
  • PruesseEQuastCKnittelKSILVA: a comprehensive online resource for quality checked and aligned ribosomal RNA sequence data compatible with ARBNucleic Acids Res200735217188719617947321
  • QuastCPruesseEYilmazPThe SILVA ribosomal RNA gene database project: improved data processing and web-based toolsNucleic Acids Res201341Database issueD590D59623193283
  • HuseSMWelchDMMorrisonHGSoginMLIroning out the wrinkles in the rare biosphere through improved OTU clusteringEnviron Microbiol20101271889189820236171
  • EdgarRCHaasBJClementeJCQuinceCKnightRUCHIME improves sensitivity and speed of chimera detectionBioinformatics201127162194220021700674
  • ColeJRWangQCardenasEThe Ribosomal Database Project: improved alignments and new tools for rRNA analysisNucleic Acids Res200937Database issueD141D14519004872
  • GihringTMGreenSJSchadtCWMassively parallel rRNA gene sequencing exacerbates the potential for biased community diversity comparisons due to variable library sizesEnviron Microbiol201214228529021923700
  • ErenAMMaignienLSulWJOligotyping: differentiating between closely related microbial taxa using 16S rRNA gene dataMethods Ecol Evol201341211111119
  • ShannonCEA mathematical theory of communicationSIGMOBILE Mob Comput Commun Rev200151355
  • ChaoALeeS-MEstimating the Number of Classes via Sample CoverageJ Am Stat Assoc199287417210217
  • BrayJRCurtisJTAn ordination of the upland forest communities of southern wisconsinEcol Monogr1957274325349
  • AndersonMJWillisTJCanonical analysis of principal coordinates: a useful method of constrained ordination for ecologyEcology2003842511525
  • ClarkeKRNon-parametric multivariate analyses of changes in community structureAustral Ecology1993181117143
  • SegataNIzardJWaldronLMetagenomic biomarker discovery and explanationGenome Biol2011126R6021702898
  • MuddDGMckelveySTNorwoodWElmoreDTRoyADFaecal bile acid concentration of patients with carcinoma or increased risk of carcinoma in the large bowelGut19802175875907429321
  • TorresJPalmelaCBritoHThe gut microbiota, bile acids and their correlation in primary sclerosing cholangitis associated with inflammatory bowel diseaseUnited European Gastroenterol J201861112122
  • DubocHRajcaSRainteauDConnecting dysbiosis, bile-acid dysmetabolism and gut inflammation in inflammatory bowel diseasesGut201362453153922993202
  • KakiyamaGPandakWMGillevetPMModulation of the fecal bile acid profile by gut microbiota in cirrhosisJ Hepatol201358594995523333527
  • GadaletaRMvan ErpecumKJOldenburgBFarnesoid X receptor activation inhibits inflammation and preserves the intestinal barrier in inflammatory bowel diseaseGut201160446347221242261
  • NijmeijerRMGadaletaRMvan MilSWFarnesoid X receptor (FXR) activation and FXR genetic variation in inflammatory bowel diseasePLoS One201168e2374521887309
  • IsaacSScherJUDjukovicAShort- and long-term effects of oral vancomycin on the human intestinal microbiotaJ Antimicrob Chemother201772112813627707993
  • ZhouYXuZZHeYGut microbiota offers universal biomarkers across ethnicity in inflammatory bowel disease diagnosis and infliximab response predictionmSystems201831e001881729404425
  • GeversDKugathasanSDensonLAThe treatment-naive microbiome in new-onset Crohn’s diseaseCell Host Microbe201415338239224629344