TABLE 3.

Virulence plasmid genes repressed ≥2-fold by ytxR expression under low-calcium, 37°C conditions

Genea	Normalized expressionb	P valuec	Comment(s)
yopE	0.04	7.97 × 10−8	YopE effector
lcrG	0.04	3.97 × 10−6	LcrG protein
sycD	0.05	1.47 × 10−6	YopB/D chaperone SycB
yopM	0.06	2.51 × 10−10	YopM effector
lcrD	0.07	1.79 × 10−8	LcrD protein
yopH	0.09	8.85 × 10−9	YopH effector
yopB	0.09	1.54 × 10−11	YopB translocator
lcrV	0.11	4.95 × 10−9	LcrV protein
tyeA	0.12	4.76 × 10−15	TyeA protein
yopQ	0.12	1.69 × 10−11	YopQ effector
yopD	0.13	4.29 × 10−11	YopD translocator
yscX	0.14	4.20 × 10−12	YscX protein
lcrR	0.14	2.00 × 10−8	LcrR protein
yscF	0.15	6.68 × 10−7	YscF T3SS apparatus protein
yscM2	0.15	3.38 × 10−5	YscM2 regulatory protein
yscI	0.18	9.32 × 10−6	YscI T3SS apparatus protein
sycE	0.19	4.03 × 10−7	YopE chaperone SycE
orf91B	0.21	3.43 × 10−4	Unknown function
yopT	0.21	2.13 × 10−10	YopT effector
sycN	0.22	2.20 × 10−9	YopN chaperone SycN
yscH	0.22	8.59 × 10−9	YscH T3SS apparatus protein
yopN	0.22	1.41 × 10−10	YopN regulatory protein
yopP	0.24	3.72 × 10−5	YopP effector
yscJ	0.25	2.64 × 10−6	YscJ T3SS apparatus protein
yscQ	0.26	7.27 × 10−6	YscQ T3SS apparatus protein
yopO	0.26	1.52 × 10−5	YopO effector
yadA	0.28	3.19 × 10−3	YadA adhesin
sycT	0.32	1.59 × 10−5	YopT chaperone SycT
yscS	0.33	1.57 × 10−6	YscS T3SS apparatus protein
yscE	0.33	2.97 × 10−4	YscE T3SS apparatus protein
yscD	0.33	1.56 × 10−6	YscD T3SS apparatus protein
yscC	0.34	2.96 × 10−7	YscC T3SS apparatus protein
yscP	0.35	5.95 × 10−10	YscP T3SS apparatus protein
yscG	0.35	2.38 × 10−4	YscG T3SS apparatus protein
yscR	0.36	3.27 × 10−7	YscR T3SS apparatus protein
yscK	0.38	1.92 × 10−8	YscK T3SS apparatus protein
yscM1	0.38	4.44 × 10−9	YscM2 regulatory protein
yscL	0.38	6.34 × 10−4	YscL T3SS apparatus protein
yscB	0.38	4.15 × 10−5	YscB T3SS apparatus protein
yscT	0.39	2.48 × 10−6	YscT T3SS apparatus protein
yscN	0.43	1.37 × 10−4	YscN T3SS apparatus protein
yscO	0.44	3.77 × 10−4	YscO T3SS apparatus protein
yscU	0.49	4.45 × 10−3	YscU T3SS apparatus protein

^aY. enterocolitica numerical annotation is from reference 30.

^bExpression with YtxR normalized to expression without YtxR, rounded to two decimal places (e.g., 0.04 corresponds to 25-fold repression by YtxR).

^cThe values are multiple testing corrected using the Benjamini and Hochberg false-discovery rate.