Skip to main content
bioRxiv
  • Home
  • About
  • Submit
  • ALERTS / RSS
Advanced Search
New Results

Adaptive ecological processes and metabolic independence drive microbial colonization and resilience in the human gut

View ORCID ProfileAndrea R. Watson, View ORCID ProfileJessika Füssel, Iva Veseli, Johanna Zaal DeLongchamp, Marisela Silva, Florian Trigodet, Karen Lolans, Alon Shaiber, Emily Fogarty, Joseph M. Runde, Christopher Quince, Michael K. Yu, Arda Söylev, Hilary G. Morrison, Sonny T.M. Lee, Dina Kao, David T. Rubin, Bana Jabri, Thomas Louie, View ORCID ProfileA. Murat Eren
doi: https://doi.org/10.1101/2021.03.02.433653
Andrea R. Watson
1Department of Medicine, The University of Chicago, Chicago, IL 60637, USA
2Committee on Microbiology, The University of Chicago, Chicago, IL 60637, USA
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
  • ORCID record for Andrea R. Watson
Jessika Füssel
1Department of Medicine, The University of Chicago, Chicago, IL 60637, USA
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
  • ORCID record for Jessika Füssel
Iva Veseli
3Biophysical Sciences Program, The University of Chicago, Chicago, IL 60637, USA
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
Johanna Zaal DeLongchamp
4Department of Medicine, The University of Calgary, Calgary, AB T2N 1N4, Canada
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
Marisela Silva
4Department of Medicine, The University of Calgary, Calgary, AB T2N 1N4, Canada
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
Florian Trigodet
1Department of Medicine, The University of Chicago, Chicago, IL 60637, USA
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
Karen Lolans
1Department of Medicine, The University of Chicago, Chicago, IL 60637, USA
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
Alon Shaiber
4Department of Medicine, The University of Calgary, Calgary, AB T2N 1N4, Canada
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
Emily Fogarty
1Department of Medicine, The University of Chicago, Chicago, IL 60637, USA
2Committee on Microbiology, The University of Chicago, Chicago, IL 60637, USA
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
Joseph M. Runde
5Department of Pediatrics, Lurie Children’s Hospital of Chicago, Chicago, IL 60611, USA
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
Christopher Quince
6Organisms and Ecosystems, Earlham Institute, Norwich, Norwich, NR4 7UZ, United Kingdom
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
Michael K. Yu
7Toyota Technological Institute at Chicago, Chicago, IL 60637, USA
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
Arda Söylev
8Department of Computer Engineering, Konya Food and Agriculture University, Konya, Turkey
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
Hilary G. Morrison
9Department of Medicine, University of Alberta, Edmonton, AB T6G 2G3, Canada
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
Sonny T.M. Lee
1Department of Medicine, The University of Chicago, Chicago, IL 60637, USA
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
Dina Kao
9Department of Medicine, University of Alberta, Edmonton, AB T6G 2G3, Canada
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
David T. Rubin
1Department of Medicine, The University of Chicago, Chicago, IL 60637, USA
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
Bana Jabri
1Department of Medicine, The University of Chicago, Chicago, IL 60637, USA
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
Thomas Louie
3Biophysical Sciences Program, The University of Chicago, Chicago, IL 60637, USA
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
A. Murat Eren
1Department of Medicine, The University of Chicago, Chicago, IL 60637, USA
2Committee on Microbiology, The University of Chicago, Chicago, IL 60637, USA
4Department of Medicine, The University of Calgary, Calgary, AB T2N 1N4, Canada
10Josephine Bay Paul Center, Marine Biological Laboratory, Woods Hole, MA 02543, USA
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
  • ORCID record for A. Murat Eren
  • For correspondence: meren@uchicago.edu
  • Abstract
  • Full Text
  • Info/History
  • Metrics
  • Preview PDF
Loading

Abstract

A detailed understanding of human gut microbial ecology is essential to engineer effective microbial therapeutics and to model microbial community assembly in health and disease. However, establishing generalizable insights into the functional determinants of microbial fitness in the gut has been a formidable challenge. Here we employ fecal microbiota transplantation (FMT) as an in natura experimental model to identify determinants of microbial colonization and resilience. Our findings reveal adaptive ecological processes that favor high-fitness populations with higher metabolic competence as the main driver of microbial colonization outcomes after FMT. We further show that while healthy individuals harbor both low-fitness and high-fitness populations, individuals with inflammatory bowel disease are typically depleted of low-fitness populations. These results offer a model to explain why common yet typically rare members of healthy guts can dominate under inflammatory conditions without any need for them to be causally associated with, or contribute to, such disease states.

Competing Interest Statement

The authors have declared no competing interest.

Copyright 
The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under a CC-BY-ND 4.0 International license.
Back to top
PreviousNext
Posted April 22, 2021.
Download PDF
Email

Thank you for your interest in spreading the word about bioRxiv.

NOTE: Your email address is requested solely to identify you as the sender of this article.

Enter multiple addresses on separate lines or separate them with commas.
Adaptive ecological processes and metabolic independence drive microbial colonization and resilience in the human gut
(Your Name) has forwarded a page to you from bioRxiv
(Your Name) thought you would like to see this page from the bioRxiv website.
CAPTCHA
This question is for testing whether or not you are a human visitor and to prevent automated spam submissions.
Share
Adaptive ecological processes and metabolic independence drive microbial colonization and resilience in the human gut
Andrea R. Watson, Jessika Füssel, Iva Veseli, Johanna Zaal DeLongchamp, Marisela Silva, Florian Trigodet, Karen Lolans, Alon Shaiber, Emily Fogarty, Joseph M. Runde, Christopher Quince, Michael K. Yu, Arda Söylev, Hilary G. Morrison, Sonny T.M. Lee, Dina Kao, David T. Rubin, Bana Jabri, Thomas Louie, A. Murat Eren
bioRxiv 2021.03.02.433653; doi: https://doi.org/10.1101/2021.03.02.433653
Digg logo Reddit logo Twitter logo Facebook logo Google logo LinkedIn logo Mendeley logo
Citation Tools
Adaptive ecological processes and metabolic independence drive microbial colonization and resilience in the human gut
Andrea R. Watson, Jessika Füssel, Iva Veseli, Johanna Zaal DeLongchamp, Marisela Silva, Florian Trigodet, Karen Lolans, Alon Shaiber, Emily Fogarty, Joseph M. Runde, Christopher Quince, Michael K. Yu, Arda Söylev, Hilary G. Morrison, Sonny T.M. Lee, Dina Kao, David T. Rubin, Bana Jabri, Thomas Louie, A. Murat Eren
bioRxiv 2021.03.02.433653; doi: https://doi.org/10.1101/2021.03.02.433653

Citation Manager Formats

  • BibTeX
  • Bookends
  • EasyBib
  • EndNote (tagged)
  • EndNote 8 (xml)
  • Medlars
  • Mendeley
  • Papers
  • RefWorks Tagged
  • Ref Manager
  • RIS
  • Zotero
  • Tweet Widget
  • Facebook Like
  • Google Plus One

Subject Area

  • Microbiology
Subject Areas
All Articles
  • Animal Behavior and Cognition (3579)
  • Biochemistry (7534)
  • Bioengineering (5488)
  • Bioinformatics (20709)
  • Biophysics (10264)
  • Cancer Biology (7941)
  • Cell Biology (11595)
  • Clinical Trials (138)
  • Developmental Biology (6575)
  • Ecology (10150)
  • Epidemiology (2065)
  • Evolutionary Biology (13561)
  • Genetics (9504)
  • Genomics (12799)
  • Immunology (7891)
  • Microbiology (19471)
  • Molecular Biology (7621)
  • Neuroscience (41930)
  • Paleontology (307)
  • Pathology (1253)
  • Pharmacology and Toxicology (2182)
  • Physiology (3254)
  • Plant Biology (7017)
  • Scientific Communication and Education (1291)
  • Synthetic Biology (1944)
  • Systems Biology (5411)
  • Zoology (1109)