Gut microbiomes from Gambian infants reveal the development of a non-industrialized Prevotella-based trophic network
Marcus C de Goffau, Amadou T Jallow, Chilel Sanyang, Andrew M Prentice, Niamh Meagher, David J Price, Peter A Revill, Julian Parkhill, Dora I A Pereira, Josef Wagner, Marcus C de Goffau, Amadou T Jallow, Chilel Sanyang, Andrew M Prentice, Niamh Meagher, David J Price, Peter A Revill, Julian Parkhill, Dora I A Pereira, Josef Wagner
Abstract
Distinct bacterial trophic networks exist in the gut microbiota of individuals in industrialized and non-industrialized countries. In particular, non-industrialized gut microbiomes tend to be enriched with Prevotella species. To study the development of these Prevotella-rich compositions, we investigated the gut microbiota of children aged between 7 and 37 months living in rural Gambia (616 children, 1,389 stool samples, stratified by 3-month age groups). These infants, who typically eat a high-fibre, low-protein diet, were part of a double-blind, randomized iron intervention trial (NCT02941081) and here we report the secondary outcome. We found that child age was the largest discriminating factor between samples and that anthropometric indices (collection time points, season, geographic collection site, and iron supplementation) did not significantly influence the gut microbiome. Prevotella copri, Faecalibacterium prausnitzii and Prevotella stercorea were, on average, the most abundant species in these 1,389 samples (35%, 11% and 7%, respectively). Distinct bacterial trophic network clusters were identified, centred around either P. stercorea or F. prausnitzii and were found to develop steadily with age, whereas P. copri, independently of other species, rapidly became dominant after weaning. This dataset, set within a critical gut microbial developmental time frame, provides insights into the development of Prevotella-rich gut microbiomes, which are typically understudied and are underrepresented in western populations.
Conflict of interest statement
D.I.A.P. is one of the inventors of the IHAT iron supplementation technology for which she could receive future awards to inventors through the MRC Awards to Inventor scheme. D.I.A.P. has served as a consultant for Vifor Pharma UK, Shield Therapeutics, Entia Ltd, Danone Nutritia, UN Food and Agriculture Organization (FAO) and Nemysis Ltd. D.I.A.P. has since moved to full employment with Vifor Pharma UK, but all work pertaining to this study was conducted independently of Vifor Pharma. Notwithstanding, the authors declare no potential conflicts of interest with respect to the research, authorship and/or publication of this article.
© 2022. The Author(s).
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