Abstract
Our knowledge of the role of the gut microbiome in acute coronavirus
disease 2019 (COVID-19) and post-acute COVID-19 is rapidly increasing,
whereas little is known regarding the contribution of multi-kingdom
microbiota and host-microbial interactions to COVID-19 severity and
consequences. Herein, we perform an integrated analysis using 296 fecal
metagenomes, 79 fecal metabolomics, viral load in 1378 respiratory tract
samples, and clinical features of 133 COVID-19 patients prospectively
followed for up to 6 months. Metagenomic-based clustering identifies two
robust ecological clusters (hereafter referred to as Clusters 1 and 2),
of which Cluster 1 is significantly associated with severe COVID-19 and
the development of post-acute COVID-19 syndrome. Significant
differences between clusters could be explained by both multi-kingdom
ecological drivers (bacteria, fungi, and viruses) and host factors with a
good predictive value and an area under the curve (AUC) of 0.98. A
model combining host and microbial factors could predict the duration of
respiratory viral shedding with 82.1% accuracy (error ± 3 days). These
results highlight the potential utility of host phenotype and
multi-kingdom microbiota profiling as a prognostic tool for patients
with COVID-19.
Original language | English |
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Article number | 6806 |
Number of pages | 11 |
Journal | Nature Communications |
Volume | 13 |
Issue number | 1 |
DOIs | |
Publication status | Published - 10 Nov 2022 |
Scopus Subject Areas
- Chemistry(all)
- Biochemistry, Genetics and Molecular Biology(all)
- Physics and Astronomy(all)