tetano
Editor, Senior Moderator
Nat Commun
. 2022 Nov 10;13(1):6806.
doi: 10.1038/s41467-022-34535-8.
Multi-kingdom gut microbiota analyses define COVID-19 severity and post-acute COVID-19 syndrome
Qin Liu[SUP] #[/SUP][SUP] 1 2 3 4 [/SUP], Qi Su[SUP] #[/SUP][SUP] 1 2 3 4 [/SUP], Fen Zhang[SUP] 1 2 3 4 [/SUP], Hein M Tun[SUP] 1 3 5 [/SUP], Joyce Wing Yan Mak[SUP] 1 2 3 4 [/SUP], Grace Chung-Yan Lui[SUP] 2 6 [/SUP], Susanna So Shan Ng[SUP] 2 [/SUP], Jessica Y L Ching[SUP] 1 2 3 4 [/SUP], Amy Li[SUP] 2 3 4 [/SUP], Wenqi Lu[SUP] 1 2 3 4 [/SUP], Chenyu Liu[SUP] 1 2 3 4 [/SUP], Chun Pan Cheung[SUP] 1 2 3 4 [/SUP], David S C Hui[SUP] 2 6 [/SUP], Paul K S Chan[SUP] 4 7 [/SUP], Francis Ka Leung Chan[SUP] 1 2 3 4 [/SUP], Siew C Ng[SUP] 8 9 10 11 [/SUP]
Affiliations
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.
. 2022 Nov 10;13(1):6806.
doi: 10.1038/s41467-022-34535-8.
Multi-kingdom gut microbiota analyses define COVID-19 severity and post-acute COVID-19 syndrome
Qin Liu[SUP] #[/SUP][SUP] 1 2 3 4 [/SUP], Qi Su[SUP] #[/SUP][SUP] 1 2 3 4 [/SUP], Fen Zhang[SUP] 1 2 3 4 [/SUP], Hein M Tun[SUP] 1 3 5 [/SUP], Joyce Wing Yan Mak[SUP] 1 2 3 4 [/SUP], Grace Chung-Yan Lui[SUP] 2 6 [/SUP], Susanna So Shan Ng[SUP] 2 [/SUP], Jessica Y L Ching[SUP] 1 2 3 4 [/SUP], Amy Li[SUP] 2 3 4 [/SUP], Wenqi Lu[SUP] 1 2 3 4 [/SUP], Chenyu Liu[SUP] 1 2 3 4 [/SUP], Chun Pan Cheung[SUP] 1 2 3 4 [/SUP], David S C Hui[SUP] 2 6 [/SUP], Paul K S Chan[SUP] 4 7 [/SUP], Francis Ka Leung Chan[SUP] 1 2 3 4 [/SUP], Siew C Ng[SUP] 8 9 10 11 [/SUP]
Affiliations
- PMID: 36357381
- DOI: 10.1038/s41467-022-34535-8
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.