Establishment of murine gut microbiota in gnotobiotic mice

Jocelyn M. Choo, Geraint B. Rogers

Research output: Contribution to journalArticlepeer-review

2 Citations (Scopus)


Determining whether associations between gut microbiota characteristics and host physiology represent causal relationships is a fundamental challenge for microbiome research. We report a detailed investigation of microbiome assembly inC57BL/6 germ-free mice across a period of 70 days and compare the effects of single and multiple rounds of gavage, using both native and antibiotic-disrupted murine donor material. Recipients of the native microbiota did not achieve compositional stability until day 28 and persistent differences to donor micro-biota remained until day 70. Performing multiple rounds of gavage significantly increased the cumulative number of detected taxa (mean increase: 10.4%) and compositional similarity to donor, and significantly reduced within-group variance (p < 0.05). Multiple rounds of gavage with antibiotic-disrupted microbiota provided no substantial benefit in relation to compositional similarity to donor or within-group variance. The process of donor microbiota establishment in recipient animals is necessary before experimentation commences and is considerably influenced by donor microbiota characteristics.

Original languageEnglish
Article number102049
Number of pages72
Issue number2
Publication statusPublished - 19 Feb 2021

Bibliographical note

Funding Information:
We gratefully acknowledge Samay Trec and Mariah Turelli of the SAHMRI Preclinical Imaging Research Laboratories for their assistance in the germ-free facility. GBR is supported by a Matthew Flinders Research Fellowship and a National Health and Medical Research Council Senior Research Fellowship ( GNT1155179 ).

Publisher Copyright:
© 2021 The Authors

Copyright 2021 Elsevier B.V., All rights reserved.


  • Biological Sciences
  • Microbiology
  • Microbiome


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