Appendix 1—table 7. Relationship between model parameters and the clinical parameters estimated by experts.

Model parameter			Clinical parameter		Assumed relationship between model and clinical parameters
Name	Symbol	Description		Symbol
Colonization resistance	ε		Relative risk of acquiring colonization among patients experiencing microbiome dysbiosis	RRβ	${\displaystyle \epsilon =1-\frac{1}{{\mathrm{R}\mathrm{R}}_{\beta }}}$
Resource competition	η		Excess duration of colonization among patients experiencing microbiome dysbiosis	d	${\displaystyle \eta =\frac{\frac{1}{\gamma }}{\frac{1}{\gamma }+d}}$
Ecological release	ϕ		Relative risk of pathogen outgrowth among patients experiencing microbiome dysbiosis	RRα	${\displaystyle \varphi =\mathrm{R}{\mathrm{R}}_{\alpha }}$
HGT rate (dysbiosis)	χd		Proportion of antibiotic-exposed patients colonized with the specified species that acquire the specified resistance via HGT during their hospital stay	pχd	${\displaystyle {\mathrm{p}}_{{\chi }_d}=1-e^{-{\chi }_d\times \frac{1}{\mu }}}$
HGT rate (equilibrium)	χe		Relative risk of acquiring the specified resistance via HGT among patients experiencing microbiome dysbiosis	RRχ	${\displaystyle {\mathrm{R}\mathrm{R}}_{\chi }=\frac{{\chi }_{\mathrm{d}}}{{\chi }_{\mathrm{e}}}}$