Ateequr Rehman1, Philipp Rausch2, Jun Wang2, Jurgita Skieceviciene3, Gediminas Kiudelis4, Ketan Bhagalia5, Deepak Amarapurkar5, Limas Kupcinskas6, Stefan Schreiber7, Philip Rosenstiel1, John F Baines2, Stephan Ott8. 1. Institute of Clinical Molecular Biology, Christian-Albrechts-University of Kiel, Kiel, Germany. 2. Max Planck Institute for Evolutionary Biology, Plön, Germany Institute for Experimental Medicine, Christian-Albrechts-University of Kiel, Kiel, Germany. 3. Institute of Clinical Molecular Biology, Christian-Albrechts-University of Kiel, Kiel, Germany Institute for Digestive Research, Medical Academy, Lithuanian University of Health Sciences, Kaunas, Lithuania. 4. Department of Gastroenterology, Medical Academy, Lithuanian University of Health Sciences, Kaunas, Lithuania. 5. Bombay Hospital and Medical Research Center, Mumbai, India. 6. Institute for Digestive Research, Medical Academy, Lithuanian University of Health Sciences, Kaunas, Lithuania Department of Gastroenterology, Medical Academy, Lithuanian University of Health Sciences, Kaunas, Lithuania. 7. Institute of Clinical Molecular Biology, Christian-Albrechts-University of Kiel, Kiel, Germany Department of General Internal Medicine, Christian-Albrechts-University of Kiel, University Hospital Schleswig-Holstein, Kiel, Germany. 8. Department of General Internal Medicine, Christian-Albrechts-University of Kiel, University Hospital Schleswig-Holstein, Kiel, Germany.
Abstract
OBJECTIVE: A global increase of IBD has been reported, especially in countries that previously had low incidence rates. Also, the knowledge of the human gut microbiome is steadily increasing, however, limited information regarding its variation on a global scale is available. In the light of the microbial involvement in IBDs, we aimed to (1) identify shared and distinct IBD-associated mucosal microbiota patterns from different geographical regions including Europe (Germany, Lithuania) and South Asia (India) and (2) determine whether profiling based on 16S rRNA transcripts provides additional resolution, both of which may hold important clinical relevance. DESIGN: In this study, we analyse a set of 89 mucosal biopsies sampled from individuals of German, Lithuanian and Indian origins, using bacterial community profiling of a roughly equal number of healthy controls, patients with Crohn's disease and UC from each location, and analyse 16S rDNA and rRNA as proxies for standing and active microbial community structure, respectively. RESULTS: We find pronounced population-specific as well as general disease patterns in the major phyla and patterns of diversity, which differ between the standing and active communities. The geographical origin of samples dominates the patterns of β diversity with locally restricted disease clusters and more pronounced effects in the active microbial communities. However, two genera belonging to the Clostridium leptum subgroup, Faecalibacteria and Papillibacter, display consistent patterns with respect to disease status and may thus serve as reliable 'microbiomarkers'. CONCLUSIONS: These analyses reveal important interactions of patients' geographical origin and disease in the interpretation of disease-associated changes in microbial communities and highlight the added value of analysing communities on both the 16S rRNA gene (DNA) and transcript (RNA) level. Published by the BMJ Publishing Group Limited. For permission to use (where not already granted under a licence) please go to http://www.bmj.com/company/products-services/rights-and-licensing/
OBJECTIVE: A global increase of IBD has been reported, especially in countries that previously had low incidence rates. Also, the knowledge of the humangut microbiome is steadily increasing, however, limited information regarding its variation on a global scale is available. In the light of the microbial involvement in IBDs, we aimed to (1) identify shared and distinct IBD-associated mucosal microbiota patterns from different geographical regions including Europe (Germany, Lithuania) and South Asia (India) and (2) determine whether profiling based on 16S rRNA transcripts provides additional resolution, both of which may hold important clinical relevance. DESIGN: In this study, we analyse a set of 89 mucosal biopsies sampled from individuals of German, Lithuanian and Indian origins, using bacterial community profiling of a roughly equal number of healthy controls, patients with Crohn's disease and UC from each location, and analyse 16S rDNA and rRNA as proxies for standing and active microbial community structure, respectively. RESULTS: We find pronounced population-specific as well as general disease patterns in the major phyla and patterns of diversity, which differ between the standing and active communities. The geographical origin of samples dominates the patterns of β diversity with locally restricted disease clusters and more pronounced effects in the active microbial communities. However, two genera belonging to the Clostridium leptum subgroup, Faecalibacteria and Papillibacter, display consistent patterns with respect to disease status and may thus serve as reliable 'microbiomarkers'. CONCLUSIONS: These analyses reveal important interactions of patients' geographical origin and disease in the interpretation of disease-associated changes in microbial communities and highlight the added value of analysing communities on both the 16S rRNA gene (DNA) and transcript (RNA) level. Published by the BMJ Publishing Group Limited. For permission to use (where not already granted under a licence) please go to http://www.bmj.com/company/products-services/rights-and-licensing/
Authors: Jun Wang; Louise B Thingholm; Jurgita Skiecevičienė; Philipp Rausch; Martin Kummen; Johannes R Hov; Frauke Degenhardt; Femke-Anouska Heinsen; Malte C Rühlemann; Silke Szymczak; Kristian Holm; Tönu Esko; Jun Sun; Mihaela Pricop-Jeckstadt; Samer Al-Dury; Pavol Bohov; Jörn Bethune; Felix Sommer; David Ellinghaus; Rolf K Berge; Matthias Hübenthal; Manja Koch; Karin Schwarz; Gerald Rimbach; Patricia Hübbe; Wei-Hung Pan; Raheleh Sheibani-Tezerji; Robert Häsler; Philipp Rosenstiel; Mauro D'Amato; Katja Cloppenborg-Schmidt; Sven Künzel; Matthias Laudes; Hanns-Ulrich Marschall; Wolfgang Lieb; Ute Nöthlings; Tom H Karlsen; John F Baines; Andre Franke Journal: Nat Genet Date: 2016-10-10 Impact factor: 38.330
Authors: Melinda A Engevik; Lori D Banks; Kristen A Engevik; Alexandra L Chang-Graham; Jacob L Perry; Diane S Hutchinson; Nadim J Ajami; Joseph F Petrosino; Joseph M Hyser Journal: Gut Microbes Date: 2020-05-13
Authors: Rajesh Shah; Julia L Cope; Dorottya Nagy-Szakal; Scot Dowd; James Versalovic; Emily B Hollister; Richard Kellermayer Journal: Gut Microbes Date: 2016-05-23