Patient-Specific Bacteroides Genome Variants in Pouchitis

Vineis, Joseph H.; Ringus, Daina L.; Morrison, Hilary G.; Delmont, Tom O.; Dalal, Sushila; Raffals, Laura H.; Antonopoulos, Dionysios A.; Rubin, David T.; Eren, A. Murat; Chang, Eugene B.; Sogin, Mitchell L.

doi:10.1128/mBio.01713-16

Title: Patient-Specific Bacteroides Genome Variants in Pouchitis

Journal Article · Tue Nov 15 00:00:00 EST 2016 · mBio (Online)

DOI:https://doi.org/10.1128/mBio.01713-16· OSTI ID:1416005

Vineis, Joseph H. ^[1]; Ringus, Daina L. ^[2]; Morrison, Hilary G. ^[1]; Delmont, Tom O. ^[2]; Dalal, Sushila ^[2]; Raffals, Laura H. ^[3]; Antonopoulos, Dionysios A. ^[4]; Rubin, David T. ^[2]; Eren, A. Murat ^[5]; Chang, Eugene B. ^[2]; Sogin, Mitchell L. ^[1]

Marine Biological Lab., Woods Hole, MA (United States)
The Univ. of Chicago, Chicago, IL (United States)
Mayo Clinic, Rochester, MN (United States)
The Univ. of Chicago, Chicago, IL (United States); Argonne National Lab. (ANL), Argonne, IL (United States)
Marine Biological Lab., Woods Hole, MA (United States); The Univ. of Chicago, Chicago, IL (United States)

Here, a 2-year longitudinal microbiome study of 22 patients who underwent colectomy with an ileal pouch anal anastomosis detected significant increases in distinct populations of Bacteroides during 9 of 11 patient visits that coincided with inflammation (pouchitis). Oligotyping and metagenomic short-read annotation identified Bacteroides populations that occurred in early samples, bloomed during inflammation, and reappeared after antibiotic treatment. Targeted cultivation of Bacteroides isolates from the same individual at multiple time points and from several patients detected subtle genomic changes, including the identification of rapidly evolving genomic elements that differentiate isogenic strains of Bacteroides fragilis from the mucosa versus lumen. Each patient harbored Bacteroides spp. that are closely related to commonly occurring clinical isolates, including Bacteroides ovatus, B. thetaiotaomicron, B. vulgatus, and B. fragilis, which contained unique loci in different patients for synthesis of capsular polysaccharides. The presence of unique Bacteroides capsular polysaccharide loci within different hosts and between the lumen and mucosa may represent adaptations to stimulate, suppress, and evade host-specific immune responses at different microsites of the ileal pouch.

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Research Organization:: Argonne National Laboratory (ANL), Argonne, IL (United States)

Sponsoring Organization:: University of Chicago; USDOE

Grant/Contract Number:: AC02-06CH11357

OSTI ID:: 1416005

Journal Information:: mBio (Online), Vol. 7, Issue 6; ISSN 2150-7511

Publisher:: American Society for MicrobiologyCopyright Statement

Country of Publication:: United States

Language:: English

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Cited by: 24 works

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