Fecal microbiota profiles in treatment-naïve pediatric inflammatory bowel disease – associations with disease phenotype, treatment, and outcome

References

• ChuHKhosraviAKusumawardhaniIPGene-microbiota interactions contribute to the pathogenesis of inflammatory bowel diseaseScience201635262891116112027230380
   PubMed Web of Science ®Google Scholar
• NgSCShiHYHamidiNWorldwide incidence and prevalence of inflammatory bowel disease in the 21st century: a systematic review of population-based studiesLancet2018390101142769277829050646
   PubMed Web of Science ®Google Scholar
• KaplanGGNgSCUnderstanding and preventing the global increase of inflammatory bowel diseaseGastroenterology2017152231332127793607
   PubMed Web of Science ®Google Scholar
• LinLZhangJRole of intestinal microbiota and metabolites on gut homeostasis and human diseasesBMC Immunol2017181228061847
   PubMed Web of Science ®Google Scholar
• SpillerRMajorGIBS and IBD – separate entities or on a spectrum?Nat Rev Gastroenterol Hepatol2016131061362127667579
   PubMed Web of Science ®Google Scholar
• SartorRBWuGDRoles for intestinal bacteria, viruses, and fungi in pathogenesis of inflammatory bowel diseases and therapeutic approachesGastroenterology2017152232733927769810
   PubMed Web of Science ®Google Scholar
• ChangCLinHDysbiosis in gastrointestinal disordersBest Pract Res Clin Gastroenterol201630131527048892
   PubMed Web of Science ®Google Scholar
• SundinJOhmanLSimrenMUnderstanding the gut microbiota in inflammatory and functional gastrointestinal diseasesPsychosom Med2017
   Web of Science ®Google Scholar
• MiyoshiJChangEBThe gut microbiota and inflammatory bowel diseasesTransl Res2017179384827371886
   PubMed Web of Science ®Google Scholar
• HoldGLSmithMGrangeCWattEREl-OmarEMMukhopadhyaIRole of the gut microbiota in inflammatory bowel disease pathogenesis: what have we learnt in the past 10 years?World J Gastroenterol20142051192121024574795
   PubMed Web of Science ®Google Scholar
• PerminowGBrackmannSLyckanderLGA characterization in childhood inflammatory bowel disease, a new population-based inception cohort from South-Eastern Norway, 2005-07, showing increased incidence in Crohn’s diseaseScand J Gastroenterol200944444645619117240
   PubMed Web of Science ®Google Scholar
• OlbjørnCCvancarova SmåstuenMThiis-EvensenENakstadBVatnMHPerminowGSerological markers in diagnosis of pediatric inflammatory bowel disease and as predictors for early tumor necrosis factor blocker therapyScand J Gastroenterol201752441441927887202
   PubMed Web of Science ®Google Scholar
• RicanekPVatnSKallaRMicrobiota alterations in treatment naïve IBD and non-IBD patients – the EU IBD character projectUnited Eur Gastroenterol J201645 supplA721A754
   Google Scholar
• IBD Working Group of the European Society for Paediatric Gastroenterology, Hepatology and NutritionInflammatory bowel disease in children and adolescents: recommendations for diagnosis – the Porto criteriaJ Pediatr Gastroenterol Nutr20054111715990620
   PubMed Web of Science ®Google Scholar
• FagerbergULLööfLMerzougRDHanssonLOFinkelYFecal calprotectin levels in healthy children studied with an improved assayJ Pediatr Gastroenterol Nutr200337446847214508218
   PubMed Web of Science ®Google Scholar
• OlbjørnCNakstadBSmåstuenMCThiis-EvensenEVatnMHPerminowGEarly anti-TNF treatment in pediatric Crohn’s disease. Predictors of clinical outcome in a population-based cohort of newly diagnosed patientsScand J Gastroenterol201449121425143125310799
   PubMed Web of Science ®Google Scholar
• LevineAGriffithsAMarkowitzJPediatric modification of the Montreal classification for inflammatory bowel disease: the Paris classificationInflamm Bowel Dis20111761314132121560194
   PubMed Web of Science ®Google Scholar
• CasénCVebøHCSekeljaMDeviations in human gut microbiota: a novel diagnostic test for determining dysbiosis in patients with IBS or IBDAliment Pharmacol Ther2015421718325973666
   PubMed Web of Science ®Google Scholar
• LopetusoLRPetitoVGrazianiCGut microbiota in health, diverticular disease, irritable bowel syndrome, and inflammatory bowel diseases: time for microbial marker of gastrointestinal disordersDig Dis2018361566528683448
   PubMed Web of Science ®Google Scholar
• BennetSMOhmanLSimrenMGut microbiota as potential orchestrators of irritable bowel syndromeGut Liver20159331833125918261
   PubMed Web of Science ®Google Scholar
• MaukonenJKolhoKLPaaselaMAltered fecal microbiota in paediatric inflammatory bowel diseaseJ Crohns Colitis20159121088109526351391
   PubMed Web of Science ®Google Scholar
• GeversDKugathasanSDensonLAThe treatment-naive microbiome in new-onset Crohn’s diseaseCell Host Microbe201415338239224629344
   PubMed Web of Science ®Google Scholar
• PapaEDocktorMSmillieCNon-invasive mapping of the gastrointestinal microbiota identifies children with inflammatory bowel diseasePLoS ONE201276e3924222768065
   PubMed Web of Science ®Google Scholar
• SatokariRContentious host–microbiota relationship in inflammatory bowel disease – can foes become friends again?Scand J Gastroenterol2015501344225523554
   PubMed Web of Science ®Google Scholar
• SmithPMHowittMRPanikovNThe microbial metabolites, short-chain fatty acids, regulate colonic Treg cell homeostasisScience2013341614556957323828891
   PubMed Web of Science ®Google Scholar
• ArrietaM-CStiemsmaLTAmenyogbeNBrownEMFinlayBThe intestinal microbiome in early life: health and diseaseFront Immunol20145Suppl 142725250028
   PubMed Web of Science ®Google Scholar
• ForbesJDvan DomselaarGBernsteinCNThe gut microbiota in immune-mediated inflammatory diseasesFront Microbiol2016719032108127462309
   PubMed Web of Science ®Google Scholar
• MottaweaWChiangCKMühlbauerMAltered intestinal microbiotahost mitochondria crosstalk in new onset Crohn’s diseaseNat Commun2016711341927876802
   PubMed Web of Science ®Google Scholar
• JoossensMHuysGCnockaertMDysbiosis of the faecal microbiota in patients with Crohn’s disease and their unaffected relativesGut201160563163721209126
   PubMed Web of Science ®Google Scholar
• BerryDReinischWIntestinal microbiota: a source of novel biomarkers in inflammatory bowel diseases?Best Pract Res Clin Gastroenterol2013271475823768552
   PubMed Web of Science ®Google Scholar
• FrankDNSt AmandALFeldmanRABoedekerECHarpazNPaceNRMolecular-phylogenetic characterization of microbial community imbalances in human inflammatory bowel diseasesProc Natl Acad Sci USA200710434137801378517699621
   PubMed Web of Science ®Google Scholar
• MukhopadhyaIHansenREl-OmarEMHoldGLIBD – what role do Proteobacteria play?Nat Rev Gastroenterol Hepatol20129421923022349170
   PubMed Web of Science ®Google Scholar
• KaakoushNODayASHuinaoKDMicrobial dysbiosis in pediatric patients with Crohn’s diseaseJ Clin Microbiol201250103258326622837318
   PubMed Web of Science ®Google Scholar
• DunnKAMoore-ConnorsJMacintyreBEarly changes in microbial community structure are associated with sustained remission after nutritional treatment of pediatric Crohn’s diseaseInflamm Bowel Dis201622122853286227805918
   PubMed Web of Science ®Google Scholar
• ThorkildsenLTNwosuFCAvershinaEDominant fecal microbiota in newly diagnosed untreated inflammatory bowel disease patientsGastroenterol Res Pract20132013170113
   Web of Science ®Google Scholar
• KolhoKLKorpelaKJaakkolaTFecal microbiota in pediatric inflammatory bowel disease and its relation to inflammationAm J Gastroenterol2015110692193025986361
   PubMed Web of Science ®Google Scholar
• MccarvilleJLCamineroAVerduEFNovel perspectives on therapeutic modulation of the gut microbiotaTherap Adv Gastroenterol201694580593
   Web of Science ®Google Scholar
• BurmanSHoedtECPottengerSMohd-NajmanNSÓ CuívPMorrisonMAn (anti)-inflammatory microbiota: defining the role in inflammatory bowel disease?Dig Dis2016341–2647126982568
   PubMed Web of Science ®Google Scholar
• MagnussonMKStridHSapnaraMAnti-TNF therapy response in patients with ulcerative colitis is associated with colonic antimicrobial peptide expression and microbiota compositionJ Crohns Colitis201610894395226896085
   PubMed Web of Science ®Google Scholar
• RajcaSGrondinVLouisEAlterations in the intestinal microbiome (dysbiosis) as a predictor of relapse after infliximab withdrawal in Crohn’s diseaseInflamm Bowel Dis201420697898624788220
   PubMed Web of Science ®Google Scholar
• ShawKABerthaMHofmeklerTDysbiosis, inflammation, and response to treatment: a longitudinal study of pediatric subjects with newly diagnosed inflammatory bowel diseaseGenome Med2016817527412252
   PubMed Web of Science ®Google Scholar
• LewisJDChenEZBaldassanoRNInflammation, antibiotics, and diet as environmental stressors of the gut microbiome in pediatric Crohn’s diseaseCell Host Microbe201518448950026468751
   PubMed Web of Science ®Google Scholar
• GerasimidisKBertzMHanskeLDecline in presumptively protective gut bacterial species and metabolites are paradoxically associated with disease improvement in pediatric Crohn’s disease during enteral nutritionInflamm Bowel Dis201420586187124651582
   PubMed Web of Science ®Google Scholar
• MaclellanAConnorsJGrantSCahillLLangilleMvan LimbergenJThe Impact of Exclusive Enteral Nutrition (EEN) on the gut microbiome in Crohn’s disease: a reviewNutrients2017950447
   Web of Science ®Google Scholar
• QiaoYQCaiCWRanZHTherapeutic modulation of gut microbiota in inflammatory bowel disease: more questions to be answeredJ Dig Dis2016171280081027743467
   PubMed Web of Science ®Google Scholar
• GaufinTTobinNHAldrovandiGMThe importance of the microbiome in pediatrics and pediatric infectious diseasesCurr Opin Pediatr201830111712429206649
   PubMed Web of Science ®Google Scholar
• LaneERZismanTLSuskindDLThe microbiota in inflammatory bowel disease: current and therapeutic insightsJ Inflamm Res201710637328652796
   PubMed Web of Science ®Google Scholar
• SokolHLeducqVAschardHFungal microbiota dysbiosis in IBDGut20176661039104826843508
   PubMed Web of Science ®Google Scholar
• NormanJMHandleySABaldridgeMTDisease-specific alterations in the enteric virome in inflammatory bowel diseaseCell2015160344746025619688
   PubMed Web of Science ®Google Scholar
• NiJWuGDAlbenbergLTomovVTGut microbiota and IBD: causation or correlation?Nat Rev Gastroenterol Hepatol2017141057358428743984
   PubMed Web of Science ®Google Scholar
• MoenAETannæsTMVatnSSimultaneous purification of DNA and RNA from microbiota in a single colonic mucosal biopsyBMC Res Notes20169132827352784
   PubMedGoogle Scholar