Table 2.

Results from the generalised linear mixed effect models comparing the effect of Shannon Diversity Index, the relative abundance of Hipposideros (H.) abae, H. caffer C and D and Nycteris (N.) macrotis as well as subadults on coronavirus (CoV) infection probability

	Predictors	Odds Ratios	CI	p-value	p-value adj.
alpha-CoV 229E-like	CoV 229E-like ~ Shannon + Rel. Abundance of H. caffer C + Rel. Abundance of subadults + (1|Site/Sampling time)
	(Intercept)	0.27	0.09 – 0.77	0.014
	Shannon Diversity Index	0.32	0.13 – 0.80	0.014	0.019
	Rel. Abundance of H. caffer C	1.02	1.01 – 1.03	0.007	0.042
	Rel. Abundance of subadults	1.01	1.00 – 1.03	0.028	0.034
beta-CoV 2b	CoV 2b ~ Shannon + Rel. Abundance of H. abae + Rel. Abundance of subadults + (1|Site/Sampling time)
	(Intercept)	7.51	1.85 – 30.51	0.005
	Shannon Diversity Index	0.05	0.02 – 0.14	<0.001	<0.001
	Rel. Abundance of H. abae	0.97	0.96 – 0.99	0.001	0.003
	Rel. Abundance of subadults	1.02	1.01 – 1.03	0.001	0.001
	CoV 2b ~ Shannon + Rel. Abundance of H. caffer D + Rel. Abundance of subadults + (1|Site/Sampling time)
	(Intercept)	0.12	0.03 – 0.40	0.001
	Shannon Diversity Index	0.36	0.16 – 0.79	0.011	0.011
	Rel. Abundance of H. caffer D	1.04	1.03 – 1.06	<0.001	<0.001
	Rel. Abundance of subadults	1.01	1.00 – 1.02	0.011	0.011
	CoV 2b ~ Shannon + Rel. Abundance of N. macrotis + Rel. Abundance of subadults + (1|Site/Sampling time)
	(Intercept)	1.57	0.56 – 4.42	0.395
	Shannon Diversity Index	0.13	0.05 – 0.34	<0.001	<0.001
	Rel. Abundance of N. macrotis	0.98	0.96 – 1.00	0.021	0.042
	Rel. Abundance of subadults	1.02	1.01 – 1.04	0.001	0.001

Significant results are in bold and are presented as original and FDR-corrected p-values.