Table 4 Log2 median ratio values of top taxa associated with COVID-19 (n = 29) compared to community acquired pneumonia (n = 25) and uninfected (n = 32) cohorts.

Treatment 1	Treatment 2	log2 median ratio	Median diff	Mean diff	p value	q value	Taxon name
COVID-19	Community acquired pneumonia	−2.0539	−0.0728	−0.1332	0.0067	0.0224	Paracoccus
COVID-19	Community acquired pneumonia	−2.0539	−0.0728	−0.1332	0.0067	0.0224	Sphingobium
COVID-19	Community acquired pneumonia	−2.0539	−0.0728	−0.1332	0.0067	0.0224	Sphingopyxis
COVID-19	Community acquired pneumonia	−2.0539	−0.0728	−0.1332	0.0067	0.0224	Sphingomonas
COVID-19	Uninfected	−4.3829	−0.4587	−0.3767	< 0.001	< 0.0001	Paracoccus
COVID-19	Uninfected	−4.3829	−0.4587	−0.3767	< 0.001	< 0.0001	Sphingobium
COVID-19	Uninfected	−4.3829	−0.4587	−0.3767	< 0.001	< 0.0001	Sphingopyxis
COVID-19	Uninfected	−4.3829	−0.4587	−0.3767	< 0.001	< 0.0001	Sphingomonas
COVID-19	Uninfected	−5.1294	−0.4164	−0.3356	< 0.001	< 0.0001	Bradyrhizobium
COVID-19	Uninfected	−5.1294	−0.4164	−0.3356	< 0.001	< 0.0001	Methylobacterium

Values depicted in the table are mean values at the genus level for taxa that containing > 10 species level significant comparisons with a qvalue < 0.05 and an absolute value of log2 median ratio > 1.0 using Wilcoxon rank sum test adjusted for multiple test comparison. A full list of significant taxonomic comparison values at the species level can be found in Supplementary Table 6.

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