Neonatal environment exerts a sustained influence on the development of the intestinal microbiota and metabolic phenotype

Merrifield, Claire A., Lewis, Marie C., Berger, Bernard, Cloarec, Olivier, Heinzmann, Silke S., Charton, Florence, Krause, Lutz, Levin, Nadine S., Duncker, Swantje, Mercenier, Annick, Holmes, Elaine, Bailey, Mick and Nicholson, Jeremy K. (2016) Neonatal environment exerts a sustained influence on the development of the intestinal microbiota and metabolic phenotype. ISME Journal, 10 1: 145-157. doi:10.1038/ismej.2015.90

Author Merrifield, Claire A.
Lewis, Marie C.
Berger, Bernard
Cloarec, Olivier
Heinzmann, Silke S.
Charton, Florence
Krause, Lutz
Levin, Nadine S.
Duncker, Swantje
Mercenier, Annick
Holmes, Elaine
Bailey, Mick
Nicholson, Jeremy K.
Title Neonatal environment exerts a sustained influence on the development of the intestinal microbiota and metabolic phenotype
Journal name ISME Journal   Check publisher's open access policy
ISSN 1751-7370
Publication date 2016-01-01
Year available 2016
Sub-type Article (original research)
DOI 10.1038/ismej.2015.90
Open Access Status Not Open Access
Volume 10
Issue 1
Start page 145
End page 157
Total pages 13
Place of publication London, United Kingdom
Publisher Nature Publishing Group
Language eng
Abstract The postnatal environment, including factors such as weaning and acquisition of the gut microbiota, has been causally linked to the development of later immunological diseases such as allergy and autoimmunity, and has also been associated with a predisposition to metabolic disorders. We show that the very early-life environment influences the development of both the gut microbiota and host metabolic phenotype in a porcine model of human infants. Farm piglets were nursed by their mothers for 1 day, before removal to highly controlled, individual isolators where they received formula milk until weaning at 21 days. The experiment was repeated, to create two batches, which differed only in minor environmental fluctuations during the first day. At day 1 after birth, metabolic profiling of serum by 1H nuclear magnetic resonance spectroscopy demonstrated significant, systemic, inter-batch variation which persisted until weaning. However, the urinary metabolic profiles demonstrated that significant inter-batch effects on 3-hydroxyisovalerate, trimethylamine-N-oxide and mannitol persisted beyond weaning to at least 35 days. Batch effects were linked to significant differences in the composition of colonic microbiota at 35 days, determined by 16 S pyrosequencing. Different weaning diets modulated both the microbiota and metabolic phenotype independently of the persistent batch effects. We demonstrate that the environment during the first day of life influences development of the microbiota and metabolic phenotype and thus should be taken into account when interrogating experimental outcomes. In addition, we suggest that intervention at this early time could provide ‘metabolic rescue’ for at-risk infants who have undergone aberrant patterns of initial intestinal colonisation.
Keyword Ecology
Environmental Sciences & Ecology
Q-Index Code C1
Q-Index Status Provisional Code
Institutional Status Non-UQ

Document type: Journal Article
Sub-type: Article (original research)
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