TABLE 1.

Information about genes with high mutation hits or in the SOS response pathway^a

Gene name	Expression change in log2 fold change (AgNPs vs control)	P value	Change	Expt(s)	Function
narU	−1.21	2.46 × 10−9	Down	MAC	Nitrate assimilation
alaW	0.99	5.10 × 10−3	NoDiff	MAC	Aminoacyl-tRNA synthetase
argG	−0.13	1.62 × 10−1	NoDiff	MAC	Amino acid biosynthesis
pheU	2.12	1.09 × 10−7	Up	MAC	Uncharacterized protein
cueO	1.4	2.55 × 10−7	Up	MAA	Copper efflux oxidase
ynbG	0.67	1.42 × 10−1	NoDiff	MAA	Uncharacterized protein
isrC	0.24	3.41 × 10−1	NoDiff	MAA	Acyltransferase
ompR	−1.04	1.18 × 10−25	Down	ARS	Osmoregulation
arcA	−1.19	3.81 × 10−32	Down	EE	Aerobic respiration control protein
cusS	0.70	1.15 × 10−8	NoDiff	MAA, EE, ARS	Cu2+ or Ag+ response regulation
cusR	0.61	6.35 × 10−6	NoDiff	MAA, EE, ARS	Cu2+ or Ag+ response regulation
polB	−0.37	3.37 × 10−3	NoDiff		Low-fidelity DNA polymerases
dinB	−0.21	1.07 × 10−1	NoDiff		Low-fidelity DNA polymerases
umuD	−0.64	3.02 × 10−3	NoDiff		Low-fidelity DNA polymerases
umuC	−0.12	2.39 × 10−1	NoDiff		Low-fidelity DNA polymerases
uvrA	0.36	3.08 × 10−3	NoDiff		SOS response pathway
recA	0.24	2.95 × 10−2	NoDiff		SOS response pathway
uvrB	−0.68	3.17 × 10−5	NoDiff		SOS response pathway
uvrD	0.06	5.63 × 10−1	NoDiff		SOS response pathway

^aMAC, MAA, ARS, and EE represent MA-control, MA-AgNPs, acute resistance screening, and experimental evolution, respectively. NoDiff, no difference. The cutoff P value is 0.01.