AMP	antimicrobial peptide
BMBF	Federal Ministry of Education and Research
BMBF-DZG	Deutsche Zentren der Gesundheitsforschung
CFU	colony-forming unit
DFE	disease-free equilibrium
DFG	Deutsche Forschungsgemeinschaft
DZIF	German Center for Infection Research
GF	germ-free
GIT	gastrointestinal tract
mut	mutant
MyD88−/−	MyD88-deficient mice
ODE	Ordinary Differential Equation
PD	Process Description
RKI	Robert Koch Institute
SBGN	Systems Biology Graphical Notation
SI	small intestine
SPF	specific-pathogen-free
T3SS	Type iii@ secretion system
wt	wild-type
YadA	Yersinia adhesin A
Ye	Yersinia entercolitica
Yop	Yersinia outer protein