An extended reconstruction of human gut microbiota metabolism of dietary compounds

Telmo Blasco, Sergio Pérez-Burillo, Francesco Balzerani, Daniel Hinojosa-Nogueira, Alberto Lerma-Aguilera, Silvia Pastoriza, Xabier Cendoya, Ángel Rubio, María José Gosalbes, Nuria Jiménez-Hernández, M. Pilar Francino (), Iñigo Apaolaza (), José Ángel Rufián-Henares () and Francisco J. Planes ()
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Telmo Blasco: Tecnun, University of Navarra
Sergio Pérez-Burillo: Centro de Investigación Biomédica, Universidad de Granada
Francesco Balzerani: Tecnun, University of Navarra
Daniel Hinojosa-Nogueira: Centro de Investigación Biomédica, Universidad de Granada
Alberto Lerma-Aguilera: Área de Genòmica i Salut, Fundación para el Fomento de la Investigación Sanitaria y Biomédica de la Comunitat Valenciana-Salud Pública
Silvia Pastoriza: Centro de Investigación Biomédica, Universidad de Granada
Xabier Cendoya: Tecnun, University of Navarra
Ángel Rubio: Tecnun, University of Navarra
María José Gosalbes: Área de Genòmica i Salut, Fundación para el Fomento de la Investigación Sanitaria y Biomédica de la Comunitat Valenciana-Salud Pública
Nuria Jiménez-Hernández: Área de Genòmica i Salut, Fundación para el Fomento de la Investigación Sanitaria y Biomédica de la Comunitat Valenciana-Salud Pública
M. Pilar Francino: Área de Genòmica i Salut, Fundación para el Fomento de la Investigación Sanitaria y Biomédica de la Comunitat Valenciana-Salud Pública
Iñigo Apaolaza: Tecnun, University of Navarra
José Ángel Rufián-Henares: Centro de Investigación Biomédica, Universidad de Granada
Francisco J. Planes: Tecnun, University of Navarra

Nature Communications, 2021, vol. 12, issue 1, 1-12

Abstract: Abstract Understanding how diet and gut microbiota interact in the context of human health is a key question in personalized nutrition. Genome-scale metabolic networks and constraint-based modeling approaches are promising to systematically address this complex problem. However, when applied to nutritional questions, a major issue in existing reconstructions is the limited information about compounds in the diet that are metabolized by the gut microbiota. Here, we present AGREDA, an extended reconstruction of diet metabolism in the human gut microbiota. AGREDA adds the degradation pathways of 209 compounds present in the human diet, mainly phenolic compounds, a family of metabolites highly relevant for human health and nutrition. We show that AGREDA outperforms existing reconstructions in predicting diet-specific output metabolites from the gut microbiota. Using 16S rRNA gene sequencing data of faecal samples from Spanish children representing different clinical conditions, we illustrate the potential of AGREDA to establish relevant metabolic interactions between diet and gut microbiota.

Date: 2021
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Persistent link: https://EconPapers.repec.org/RePEc:nat:natcom:v:12:y:2021:i:1:d:10.1038_s41467-021-25056-x

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DOI: 10.1038/s41467-021-25056-x

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