Journal Article


P R O'Connell
D C Winter
F Shanahan
P D Cotter
K Sheahan
J C Coffey
R P Ross
J Hyland
D O'Donoghue
G Doherty
and 7 others



spatial variation integrated assessment volunteers microbiota gut microbiota laser capture microdissection patients spatial structure

Spatial variation of the colonic microbiota in patients with ulcerative colitis and control volunteers. (2015)

Abstract The relevance of spatial composition in the microbial changes associated with UC is unclear. We coupled luminal brush samples, mucosal biopsies and laser capture microdissection with deep sequencing of the gut microbiota to develop an integrated spatial assessment of the microbial community in controls and UC. A total of 98 samples were sequenced to a mean depth of 31 642 reads from nine individuals, four control volunteers undergoing routine colonoscopy and five patients undergoing surgical colectomy for medically-refractory UC. Samples were retrieved at four colorectal locations, incorporating the luminal microbiota, mucus gel layer and whole mucosal biopsies. Interpersonal variability accounted for approximately half of the total variance. Surprisingly, within individuals, asymmetric Eigenvector map analysis demonstrated differentiation between the luminal and mucus gel microbiota, in both controls and UC, with no differentiation between colorectal regions. At a taxonomic level, differentiation was evident between both cohorts, as well as between the luminal and mucosal compartments, with a small group of taxa uniquely discriminating the luminal and mucosal microbiota in colitis. There was no correlation between regional inflammation and a breakdown in this spatial differentiation or bacterial diversity. Our study demonstrates a conserved spatial structure to the colonic microbiota, differentiating the luminal and mucosal communities, within the context of marked interpersonal variability. While elements of this structure overlap between UC and control volunteers, there are differences between the two groups, both in terms of the overall taxonomic composition and how spatial structure is ascribable to distinct taxa.
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Full list of authors on original publication

P R O'Connell, D C Winter, F Shanahan, P D Cotter, K Sheahan, J C Coffey, R P Ross, J Hyland, D O'Donoghue, G Doherty and 7 others

Experts in our system

P R O'Connell
University College Dublin
Total Publications: 75
Desmond C. Winter
University College Dublin
Total Publications: 53
Fergus Shanahan
University College Cork
Total Publications: 259
Paul D. Cotter
Total Publications: 296
Kieran Sheahan
University College Dublin
Total Publications: 40
J Calvin Coffey
University of Limerick
Total Publications: 72
R Paul Ross
Total Publications: 499
John Hyland
Dublin Business School
Total Publications: 47
Diarmuid O'Donoghue
University College Dublin
Total Publications: 42
Glen A Doherty
University College Dublin
Total Publications: 57