The DOI matches its Crossref record; 36 of the 36 references it cites were found in a registry or an index.
Spatial Organization and Composition of the Mucosal Flora in Patients with Inflammatory Bowel Disease
Open accessAbstract
The composition and spatial organization of the mucosal flora in biopsy specimens from patients with inflammatory bowel disease (IBD; either Crohn's disease or ulcerative colitis), self-limiting colitis, irritable-bowel syndrome (IBS), and healthy controls were investigated by using a broad range of fluorescent bacterial group-specific rRNA-targeted oligonucleotide probes. Each group included 20 subjects. Ten patients who had IBD and who were being treated with antibiotics were also studied. Use of nonaqueous Carnoy fixative to preserve the mucus layer was crucial for detection of bacteria adherent to the mucosal surface (mucosal bacteria). No biofilm was detectable in formalin-fixed biopsy specimens. Mucosal bacteria were found at concentrations greater than 10 9 /ml in 90 to 95% of IBD patients, 95% of patients with self-limiting colitis, 65% of IBS patients, and 35% of healthy controls. The mean density of the mucosal biofilm was 2 powers higher in IBD patients than in patients with IBS or controls, and bacteria were mostly adherent. Bacteroides fragilis was responsible for >60% of the biofilm mass in patients with IBD but for only 30% of the biofilm mass in patients with self-limiting colitis and <15% of the biofilm mass in patients with IBS. In contrast, bacteria which positively hybridized with the probe specific for Eubacterium rectale - Clostridium coccoides accounted for >40% of the biofilm in IBS patients but for <15% of the biofilm in IBD patients. In patients treated with (5-ASA) or antibiotics, the biofilm could be detected with 4,6-diamidino-2-phenylindole but did not hybridize with fluorescence in situ hybridization probes. A Bacteroides fragilis biofilm is the main feature of IBD. This was not previously recognized due to a lack of appropriate tissue fixation. Both 5-ASA and antibiotics suppress but do not eliminate the adherent biofilm.
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“Spatial niche partitioning of microbial populations can also be a result of mucus from goblet cells 46 and differential oxygen tolerance47.”
From The gut Microbiome in adult and pediatric functional gastrointestinal disorders (2019) · cites this paper as [46]
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Sultan, S., El‐Mowafy, M., Elgaml, A., Ahmed, T. A., Hassan, H., & Mottawea, W. (2021) · Frontiers in Physiology · doi:10.3389/fphys.2021.715506 · Cited by 170
“prausnitziiin mucosal IBD specimens (Swidsinski et al., 2005; Sokol et al., 2008b, 2009).”
BackgroundIntestinal microbiota: A source of novel biomarkers in inflammatory bowel diseases?
Berry, D., & Reinisch, W. (2013) · Best Practice & Research Clinical Gastroenterology · doi:10.1016/j.bpg.2013.03.005 · Cited by 154
“Likewise, increased microbial biofilm formation on ileal and colonic biopsies in both UC and CD has been observed using fluorescence in situ hybridization [42] along with an increased penetrance of cultivatable bacteria in ileal and colonic biopsies [43–45].”
BackgroundBacterial Biofilms in Colorectal Cancer Initiation and Progression
Li, S., Konstantinov, S. R., Smits, R., & Peppelenbosch, M. P. (2016) · Trends in Molecular Medicine · doi:10.1016/j.molmed.2016.11.004 · Cited by 160
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Functional Impacts of the Intestinal Microbiome in the Pathogenesis of Inflammatory Bowel Disease
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“A study on the spatial organization and composition of the mucosal biota of patients with IBD indicated Bacteroides fragilis biofilm as a main feature of IBD.(134) Recent studies continue to reveal significant abundance changes of several bacteria including Bdellovibrio bacteriovorus,”
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BackgroundQuorum Sensing, Biofilm, and Intestinal Mucosal Barrier: Involvement the Role of Probiotic
Deng, Z., Luo, X., Liu, J., & Wang, H. (2020) · Frontiers in Cellular and Infection Microbiology · doi:10.3389/fcimb.2020.538077 · Cited by 157
“The average density of the colony biofilm in IBD was found to be a 100-fold higher than in healthy individual (Swidsinski et al., 2005).”
BackgroundProbiotics and prebiotics in inflammatory bowel disease: microflora ‘on the scope’
Damaskos, D., & Kolios, G. C. (2008) · British Journal of Clinical Pharmacology · doi:10.1111/j.1365-2125.2008.03096.x · Cited by 151
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“(53) showed Bacteroidetes to be more prevalent in CD patients than in controls.”
BackgroundDiet therapy for inflammatory bowel diseases: The established and the new
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Microbiota and mucosal defense in IBD: an update
Stange, E. F., & Schroeder, B. O. (2019) · Expert Review of Gastroenterology & Hepatology · doi:10.1080/17474124.2019.1671822 · Cited by 154
“After this pioneering work the same group in Berlin followed up with a detailed study of this biofilm of bacteria in IBD, suggesting that most of it consisted of Bacteroides fragilis [36].”
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Bowel Biofilms: Tipping Points between a Healthy and Compromised Gut?
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“well as human IBD [26–28] are characterized by overgrowth of”
BackgroundCarcinogenesis and therapeutics: the microbiota perspective
Tsilimigras, M. C. B., Fodor, A., & Jobin, C. (2017) · Nature Microbiology · doi:10.1038/nmicrobiol.2017.8 · Cited by 144
Innate immune dysfunction in inflammatory bowel disease
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Mucosal Biofilms Are an Endoscopic Feature of Irritable Bowel Syndrome and Ulcerative Colitis
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Gut Microbiota as Potential Orchestrators of Irritable Bowel Syndrome
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“In healthy individuals, the microbiota is separated from direct contact with the intestinal epithelium, while in CD patients gut bacteria form a dense biofilm structure in intimate proximity with the epithelium [13,14,15].”
BackgroundAbsence of MHC class II on cDCs results in microbial-dependent intestinal inflammation
Loschko, J., Schreiber, H. A., Rieke, G. J., Esterházy, D., Meredith, M. M., Pedicord, V. A., Yao, K.-H., Caballero, S., Pamer, E. G., Mucida, D., et al. (2016) · The Journal of Experimental Medicine · doi:10.1084/jem.20160062 · Cited by 140
“16S rRNA FISH was performed with a universal probe (EUB388; Cy3-GCT GCC TCC CGT AGG AGT-Cy3) on sections fixed with Methacarn solution as described previously (Salzman et al., 2002; Swidsinski et al., 2005).”
Method
Metadata
- Authors
- Swidsinski, A., Weber, J., Loening-Baucke, V., Hale, L. P., & Lochs, H.
- Affiliations
- Humboldt-Universität zu Berlin (DE)
- Duke Medical Center (US)
- Venue
- Journal of Clinical Microbiology
- Publisher
- American Society for Microbiology
- Published
- 2005-07
- Volume
- 43
- Issue
- 7
- Pages
- 3380-3389
- ISSN
- 0095-1137 (ISSN-L)
- 1098-660X
- PMC
- PMC1169142
- OpenAlex
- W2097177097
- Cited by
- 894
- References
- 36
- Citations by year
- 2026: 15 · 2025: 27 · 2024: 45 · 2023: 47 · 2022: 59 · 2021: 47 · 2020: 50 · 2019: 54 · 2018: 46 · 2017: 35 · 2016: 47 · 2015: 49 · 2014: 41 · 2013: 43 · 2012: 44
- FWCI
- 12.71
- Type
- journal article
- Language
- en
- Open access
- green
- europepmc.org
- Locations
- Journal of Clinical Microbiology (publishedVersion)
- Europe PMC (PubMed Central) (publishedVersion)
- PubMed Central (publishedVersion)
- PubMed (publishedVersion)
- Funders
- Eli and Edythe Broad Foundation
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Gut microbiota and health
- Health Sciences › Medicine › Gastroenterology › Inflammatory Bowel Disease
- Health Sciences › Medicine › Gastroenterology › Microscopic Colitis
- Keywords
- inflammatory bowel disease, Crohn's disease, ulcerative colitis, Bacteroides fragilis, irritable bowel syndrome, 5-aminosalicylic acid, antibiotic therapy, bacterial adhesion, fluorescence in situ hybridization, rRNA-targeted oligonucleotide probes
- MeSH terms
- Adult, Bacteria, Bacteroides fragilis, Biopsy, Colitis, Ulcerative, Crohn Disease, Female, Humans, Intestinal Mucosa, Male, Middle Aged, Colon, Sigmoid, In Situ Hybridization, Fluorescence, Ecosystem, Biofilms
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