Microbiome connections with host metabolism and habitual diet from 1,098 deeply phenotyped individuals

By F. Asnicar, S. Berry, A. Valdes, L. Nguyen, Gianmarco Piccinno, David A. Drew, E. Leeming, R. Gibson, C. L. Le Roy, H. A. Khatib and 29 more. Nature Medicine, 2021

795 citations recorded by the source corpus.

The gut microbiome is shaped by diet and influences host metabolism; however, these links are complex and can be unique to each individual. We performed deep metagenomic sequencing of 1,203 gut microbiomes from 1,098 individuals enrolled in the Personalised Responses to Dietary Composition Trial (PREDICT 1) study, whose detailed long-term diet information, as well as hundreds of fasting and same-meal postprandial cardiometabolic blood marker measurements were available. We found many significant associations between microbes and specific nutrients, foods, food groups and general dietary indices, which were driven especially by the presence and diversity of healthy and plant-based foods. Microbial biomarkers of obesity were reproducible across external publicly available cohorts and in agreement with circulating blood metabolites that are indicators of cardiovascular disease risk. While some microbes, such as Prevotella copri and Blastocystis spp., were indicators of favorable postprandial glucose metabolism, overall microbiome composition was predictive for a large panel of cardiometabolic blood markers including fasting and postprandial glycemic, lipemic and inflammatory indices. The panel of intestinal species associated with healthy dietary habits overlapped with those associated with favorable cardiometabolic and postprandial markers, indicating that our large-scale resource can potentially stratify the gut microbiome into generalizable health levels in individuals without clinically manifest disease. Analyses from the gut microbiome of over 1,000 individuals from the PREDICT 1 study, for which detailed long-term diet information as well as hundreds of fasting and same-meal postprandial cardiometabolic blood marker measurements are available, unveil new associations between specific gut microbes, dietary habits and cardiometabolic health.

Subfields: Molecular Biology, Public Health, Environmental and Occupational Health

View Paper: https://www.semanticscholar.org/paper/762045d88330436e5de1517309656e6ffd253ebb

How researchers see this paper

The researchers whose trusted networks rank it highest, strongest advocate first. Every researcher gets a different order.

In Molecular Biology

In Public Health, Environmental and Occupational Health

Curtis Huttenhower

Citations in the corpus

Extending and improving metagenomic taxonomic profiling with uncharacterized species using MetaPhlAn 4 (2023, methodology): “Machine learning (ML) analyses were performed using the ‘ scikit-learn ’ Python package (version 0.22.2) on a panel of 19 representative nutritional and cardiometabolic markers described in the original study 22 .”