Gut bacteria-host metabolic interplay during conventionalisation of the mouse germfree colon

S. El Aidy, M.M.N. Derrien, C.A. Merrifield, F. Levenez, J. Dore, M.V. Boekschoten, J. Dekker, E. Holmes, E.G. Zoetendal, P. van Baarlen, S.P. Claus, M. Kleerebezem

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Abstract

The interplay between dietary nutrients, gut microbiota and mammalian host tissues of the gastrointestinal tract is recognised as highly relevant for host health. Combined transcriptome, metabonome and microbial profiling tools were employed to analyse the dynamic responses of germfree mouse colonic mucosa to colonisation by normal mouse microbiota (conventionalisation) at different time-points during 16 days. The colonising microbiota showed a shift from early (days 1 and 2) to later colonisers (days 8 and 16). The dynamic changes in the microbial community were rapidly reflected by the urine metabolic profiles (day 1) and at later stages (day 4 onward) by the colon mucosa transcriptome and metabolic profiles. Correlations of host transcriptomes, metabolite patterns and microbiota composition revealed associations between Bacilli and Proteobacteria, and differential expression of host genes involved in energy and anabolic metabolism. Differential gene expression correlated with scyllo- and myo-inositol, glutamine, glycine and alanine levels in colonic tissues during the time span of conventionalisation. Our combined time-resolved analyses may help to expand the understanding of host-microbe molecular interactions during the microbial establishment
Original languageEnglish
Pages (from-to)743-755
JournalISME Journal
Volume7
DOIs
Publication statusPublished - 2013

Fingerprint

Microbiota
Transcriptome
colon
Colon
Metabolome
digestive system
Bacteria
bacterium
transcriptome
bacteria
mice
Mucous Membrane
Microbial Interactions
Gene Expression
Proteobacteria
mucosa
Glutamine
Alanine
Glycine
Bacillus

Keywords

  • colorectal-cancer
  • polysaccharide utilization
  • selenomonas-ruminantium
  • human intestine
  • immune-system
  • waste-water
  • microbiota
  • mice
  • mucosa
  • nmr

Cite this

El Aidy, S. ; Derrien, M.M.N. ; Merrifield, C.A. ; Levenez, F. ; Dore, J. ; Boekschoten, M.V. ; Dekker, J. ; Holmes, E. ; Zoetendal, E.G. ; van Baarlen, P. ; Claus, S.P. ; Kleerebezem, M. / Gut bacteria-host metabolic interplay during conventionalisation of the mouse germfree colon. In: ISME Journal. 2013 ; Vol. 7. pp. 743-755.
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abstract = "The interplay between dietary nutrients, gut microbiota and mammalian host tissues of the gastrointestinal tract is recognised as highly relevant for host health. Combined transcriptome, metabonome and microbial profiling tools were employed to analyse the dynamic responses of germfree mouse colonic mucosa to colonisation by normal mouse microbiota (conventionalisation) at different time-points during 16 days. The colonising microbiota showed a shift from early (days 1 and 2) to later colonisers (days 8 and 16). The dynamic changes in the microbial community were rapidly reflected by the urine metabolic profiles (day 1) and at later stages (day 4 onward) by the colon mucosa transcriptome and metabolic profiles. Correlations of host transcriptomes, metabolite patterns and microbiota composition revealed associations between Bacilli and Proteobacteria, and differential expression of host genes involved in energy and anabolic metabolism. Differential gene expression correlated with scyllo- and myo-inositol, glutamine, glycine and alanine levels in colonic tissues during the time span of conventionalisation. Our combined time-resolved analyses may help to expand the understanding of host-microbe molecular interactions during the microbial establishment",
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Gut bacteria-host metabolic interplay during conventionalisation of the mouse germfree colon. / El Aidy, S.; Derrien, M.M.N.; Merrifield, C.A.; Levenez, F.; Dore, J.; Boekschoten, M.V.; Dekker, J.; Holmes, E.; Zoetendal, E.G.; van Baarlen, P.; Claus, S.P.; Kleerebezem, M.

In: ISME Journal, Vol. 7, 2013, p. 743-755.

Research output: Contribution to journalArticleAcademicpeer-review

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AU - Derrien, M.M.N.

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AU - Levenez, F.

AU - Dore, J.

AU - Boekschoten, M.V.

AU - Dekker, J.

AU - Holmes, E.

AU - Zoetendal, E.G.

AU - van Baarlen, P.

AU - Claus, S.P.

AU - Kleerebezem, M.

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KW - microbiota

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