Lower Bifidobacteria counts in both duodenal mucosa-associated and fecal microbiota in irritable bowel syndrome patients

Study information

Reviewed Marked as Reviewed by Chloe on 2022/03/17

study design

case-control

Citation

PMID PubMed identifier for scientific articles.

19533811

DOI Digital object identifier for electronic documents.

10.3748/wjg.15.2887

URI

Authors

Kerckhoffs AP, Samsom M, van der Rest ME, de Vogel J, Knol J, Ben-Amor K, Akkermans LM

Journal

World journal of gastroenterology

Year

2009

AIM: To determine the composition of both fecal and duodenal mucosa-associated microbiota in irritable bowel syndrome (IBS) patients and healthy subjects using molecular-based techniques. METHODS: Fecal and duodenal mucosa brush samples were obtained from 41 IBS patients and 26 healthy subjects. Fecal samples were analyzed for the composition of the total microbiota using fluorescent in situ hybridization (FISH) and both fecal and duodenal brush samples were analyzed for the composition of bifidobacteria using real-time polymerase chain reaction. RESULTS: The FISH analysis of fecal samples revealed a 2-fold decrease in the level of bifidobacteria (4.2 +/- 1.3 vs 8.3 +/- 1.9, P < 0.01) in IBS patients compared to healthy subjects, whereas no major differences in other bacterial groups were observed. At the species level, Bifidobacterium catenulatum levels were significantly lower (6 +/- 0.6 vs 19 +/- 2.5, P < 0.001) in the IBS patients in both fecal and duodenal brush samples than in healthy subjects. CONCLUSION: Decreased bifidobacteria levels in both fecal and duodenal brush samples of IBS patients compared to healthy subjects indicate a role for microbiotic composition in IBS pathophysiology.

Experiment 1

Edit History Delete

Flag for review

Your review change was submittedDuplicate this Experiment Add a new Signature

Reviewed Marked as Reviewed by Chloe on 2022/03/17

Curated date: 2021/07/19

Curator: Kwekuamoo

Revision editor(s): LGeistlinger, Kwekuamoo, WikiWorks

Subjects

Location of subjects: Netherlands

Host species Species from which microbiome was sampled. Contact us to have more species added.: Homo sapiens

Body site Anatomical site where microbial samples were extracted from according to the Uber Anatomy Ontology: Feces , Mucosa of small intestine Cow dung,Cow pat,Droppings,Dung,Excrement,Excreta,Faeces,Fecal material,Fecal matter,Fewmet,Frass,Guano,Matières fécales@fr,Merde@fr,Ordure,Partie de la merde@fr,Piece of shit,Porción de mierda@es,Portion of dung,Portion of excrement,Portion of faeces,Portion of fecal material,Portion of fecal matter,Portion of feces,Portion of guano,Portion of scat,Portionem cacas,Scat,Spoor,Spraint,Stool,Teil der fäkalien@de,Feces,feces,Mucosa of organ of small bowel,Mucosa of organ of small intestine,Mucosa of small bowel,Mucous membrane of small bowel,Mucous membrane of small intestine,Organ mucosa of small bowel,Organ mucosa of small intestine,Small bowel mucosa,Small bowel mucosa of organ,Small bowel mucous membrane,Small bowel organ mucosa,Small intestinal mucosa,Small intestine mucosa,Small intestine mucosa of organ,Small intestine mucous membrane,Small intestine organ mucosa,Tunica mucosa (intestinum tenue),Tunica mucosa intestini tenuis,Mucosa of small intestine,mucosa of small intestine

Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology: Irritable bowel syndrome [X]Psychogenic IBS,Adaptive colitis,Colitides, Mucous,Colitis, Mucous,Colon spasm,Colon, Irritable,Functional bowel disease,IBD,IBS,IBS - Irritable bowel syndrome,IC - Irritable colon,Irritable bowel,Irritable bowel - IBS,irritable bowel syndrome,Irritable Bowel Syndromes,Irritable Colon,irritable colon,Irritable colon (disorder),Irritable colon - Irritable bowel syndrome,Irritable colon syndrome,Membranous colitis,Mucous Colitides,Mucous colitis,mucus colitis,Nervous colitis,Psychogenic IBS,psychogenic IBS,Spastic colitis,Spastic colon,spastic colon,Syndrome, Irritable Bowel,Syndromes, Irritable Bowel,Irritable bowel syndrome

Group 0 name Corresponds to the control (unexposed) group for case-control studies: Healthy Control

Group 1 name Corresponds to the case (exposed) group for case-control studies: IBS

Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group: Twelve male and 29 female IBS patients included in this study fulfilled the Rome II criteria for IBS and were categorized as diarrhea predominant (IBS-D), constipation predominant (IBS-C) or alternating IBS subgroup (IBS-A)

Group 0 sample size Number of subjects in the control (unexposed) group: 26

Group 1 sample size Number of subjects in the case (exposed) group: 41

Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any): Subjects taking medication known to influence bacterial composition and gastrointestinal motility, especially antimicrobial medications and/or probiotics were excluded from the study.

Lab analysis

16S variable region One or more hypervariable region(s) of the bacterial 16S gene: Not specified

Sequencing platform Manufacturer and experimental platform used for quantifying microbial abundance: RT-qPCR

Statistical Analysis

Statistical test: T-Test

Significance threshold p-value or FDR threshold used for differential abundance testing (if any): 0.05

MHT correction Have statistical tests be corrected for multiple hypothesis testing (MHT)?: Yes

Signature 2

Edit History Delete

Flag for review

Your review change was submitted

Reviewed Marked as Reviewed by Chloe on 2022/03/17

Curated date: 2021/07/19

Curator: Kwekuamoo

Revision editor(s): Chloe, Kwekuamoo

Source: Tables 2 and 3

Description: Real time PCR analysis of fecal bifidobacteria in HS, IBS patients and IBS subgroups

Abundance in Group 1: decreased abundance in IBS

NCBI	Quality Control	Links
Bifidobacterium catenulatum
Romboutsia lituseburensis
Bifidobacterium

Revision editor(s): Chloe, Kwekuamoo

Experiment 2

Edit History Delete

Flag for review

Your review change was submittedDuplicate this Experiment Add a new Signature

Reviewed Marked as Reviewed by Chloe on 2022/03/17

Curated date: 2021/07/19

Curator: Kwekuamoo

Revision editor(s): LGeistlinger, Kwekuamoo, WikiWorks

Differences from previous experiment shown

Subjects

Group 1 name Corresponds to the case (exposed) group for case-control studies: IBS-D

Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group: IBS patients included in this study fulfilled the Rome II criteria for IBS and were categorized as diarrhea predominant (IBS-D)

Group 1 sample size Number of subjects in the case (exposed) group: 14

Lab analysis

Statistical Analysis

Experiment 3

Edit History Delete

Flag for review

Your review change was submittedDuplicate this Experiment Add a new Signature

Reviewed Marked as Reviewed by Chloe on 2022/03/17

Curated date: 2021/07/19

Curator: Kwekuamoo

Revision editor(s): LGeistlinger, Kwekuamoo, WikiWorks

Differences from previous experiment shown

Subjects

Group 1 name Corresponds to the case (exposed) group for case-control studies: IBS-A

Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group: IBS patients included in this study fulfilled the Rome II criteria for IBS and were categorized as alternating IBS subgroup (IBS-A)

Group 1 sample size Number of subjects in the case (exposed) group: 16

Lab analysis

Statistical Analysis

Experiment 4

Edit History Delete

Flag for review

Your review change was submittedDuplicate this Experiment Add a new Signature

Reviewed Marked as Reviewed by Chloe on 2022/03/17

Curated date: 2021/07/19

Curator: Kwekuamoo

Revision editor(s): LGeistlinger, Kwekuamoo, WikiWorks

Differences from previous experiment shown

Subjects

Group 1 name Corresponds to the case (exposed) group for case-control studies: IBS-C

Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group: IBS patients included in this study fulfilled the Rome II criteria for IBS and were categorized as constipation predominant (IBS-C)

Group 1 sample size Number of subjects in the case (exposed) group: 11

Lab analysis

Statistical Analysis