TABLE 2.

Genetic differences between household 2 E. coli strains^c

Genea	Gene product	Mutationb	Presence of mutation in strain
				Daughter's		Mother's
			Father's JJ2546 (urine)	JJ2547 (kidney drainage)	JJ2548 (blood)	JJ2963 (urine)	JJ2974 (feces)
P423_00080	Arylsulfatase	G32A (G11D)				+	+
degS	Peptidase RseP (regulator of sigma E)	C259A (H87N)	+
ykgC	Pyridine nucleotide-disulfide oxidoreductase	A445G (T149A)				+	+
nfsB	Dihydropteridine reductase	G73T (E25stop)	+
ybdK	Gamma-glutamyl:cysteine ligase	G759A (M253I)	+
cspE	Cold shock protein CspE (RNA chaperone)	G157T (E53stop)	+
lipA	Lipoyl synthase	T683C (I228T)				+	+
dps	Stationary-phase protection protein Dps	G127T (intergenic)			+
ycgJ	Hypothetical protein	C121T (intergenic)			+
dnaC	DNA replication protein DnaC (phage)	C333A (SYN)				+	+
ydbH	Hypothetical protein YdbH	G1937A (W646stop)				+	+
yebC	Putative transcriptional regulator	C239T (A80V)		+	+
yfaL	Autotransporter	C1431T (SYN)	+
lrhA	Transcriptional regulator LrhA	A41_T42ins 6 bp (D14_L15ins LD)			+
P423_12990	Peptidase S10	C476T (P159L)					+
fadJ	Fatty acid oxidation protein subunit alpha	G1863A (SYN)			+
P423_13360	Membrane protein	T129A (SYN)				+	+
crr	PTS glucose transporter subunit IIA (EIIA_Glc)	A260T (E87V)				+
fhlA	Sigma 54-dependent transcriptional regulator	G878A (W293stop)				+	+
sdaC	Serine/threonine transporter	A25G (I9V)	+
mltA	Murein transglycosylase A	C206T (S69L)	+
P423_16465	9-O-Acetyl-N-acetylneuraminic acid deacetylase	A351C (L117F)	+
P423_16480	N-Acetylneuraminic acid mutarotase	T407C (I136T)		+	+
P423_16705	Polysialic acid transporter	C44T (intergenic)				+	+
rapZ	GlmZ (sRNA)-inactivating NTPase	C1486T (N188S)				+	+
malT	Transcriptional regulator	A1004C (E335A)		+
ftsY	Signal recognition particle-docking protein	C1486T (R496stop)				+	+
P423_19450	Oligopeptidase A	A303G (SYN)				+
cspA	Cold shock protein upstream CspA	C74A (intergenic)	+
glyS	Glycyl-tRNA synthetase (subunit B)	C1933T (R645C)	+
gltS	Sodium/glutamate symport carrier protein GltS	C848T (L283P)		+
frvA	Fructose-specific PTS (EIIA_Frc)	C371T (A124V)				+	+
ilvN	Acetolactate synthase	A35C (E12A)				+	+
rbsR	Transcriptional regulator RbsR	G748T (V253F)			+
P423_21035	Arylsulfatase	C1292T (T431I)				+	+
P423_21850	Hypothetical protein	T765G (I255M)	+			+	+
ntrC	Sigma 54-dependent transcriptional regulator	G817A (A273T)				+	+
bsmA	Biofilm stress and motility protein BsmA	A133G (I45V)	+
P423_24355	Restriction endonuclease	C1223T (P408L)		+

^aGene number or name as in reference JJ1886 genome (NCBI accession number NC_022648). For those genes without a designated name in the JJ1886 annotation, the homolog designation available from annotations of other E. coli strains was used. Genes encoding transcriptional regulators are shown in bold.

^bThe position of an intergenic mutation is shown as the distance from a start codon of the gene. Amino acid changes are given in parentheses.

^cSYN, synonymous; ins, insertion; PTS, phosphotransferase system; +, mutation is present.