Table 2.
Essential genes in E. coli that are not as strongly selected in Typhimurium or Typhi*
S. Typhimurium 14028 gene symbol | Gene name | Gene description | Best hit in S. Typhimurium LT2 | Best hit in S. Typhi Ty2a | Best hit in ECOa | STM1 transposons | STM1 reads | STY1 transposons | STY1 reads | STY2 transposonsb | STY2 readsb | STY2 transposonsc | STY2 readsc |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
|
|
|
|
|
Percentile rank |
|||||||
STM14_0106 |
folA |
Dihydrofolate reductase |
STM0087 |
t0090 |
b0048 |
4 |
3 |
8 |
8 |
19 |
19 |
46 |
60 |
STM14_0217 |
folK |
2-amino-4-hydroxy-6-hydroxymethyldihyropteridine pyrophosphokinase |
STM0183 |
t0191 |
b0142 |
12 |
22 |
18 |
16 |
25 |
56 |
16 |
21 |
STM14_2754 |
yejM |
Putative hydrolase |
STM2228 |
t0626 |
b2188 |
14 |
16 |
30 |
25 |
13 |
19 |
17 |
20 |
STM14_4041d |
degS |
Serine endoprotease |
STM3349 |
t3265 |
b3235 |
50 |
34 |
14 |
14 |
6 |
7 |
4 |
4 |
STM14_4193 |
trpS |
Tryptophanyl-tRNA synthetase |
STM3481 |
t4024 |
b3384 |
18 |
16 |
14 |
14 |
78 |
64 |
12 |
12 |
STM14_4208 |
yrfF |
Intracellular growth attenuator protein |
STM3495 |
t4011 |
b3398 |
1 |
4 |
19 |
19 |
70 |
42 |
12 |
27 |
STM14_4460 |
gpsA |
NAD(P)H-dependent glycerol-3-phosphate dehydrogenase |
STM3700 |
t3819 |
b3608 |
10 |
10 |
14 |
17 |
45 |
46 |
8 |
11 |
STM14_4921 |
ftsN |
E cell division protein |
STM4093 |
t3525 |
b3933 |
42 |
38 |
14 |
15 |
20 |
27 |
15 |
15 |
STM14_4971.J | murB | UDP-N- acetylenolpyruvoylglucosamine reductase | STM4136 | t3489 | b3972 | 42 | 48 | 26 | 22 | 8 | 24 | 13 | 21 |
* Details for all genes can be found in Additional file 5: Table S2. Genes were ranked by the number of transposon insertions and number of independent reads per gene. Ranks above the 15th percentile are shown in bold.
a Best hits are listed only if gene is syntenic with S. Typhimurium strain 14028 and has at least 95% sequence identity.
b Growth on L-agar with “aro mix” (L-phe, L-trp, p-aminobenzoic acid and 2,3-dihydroxybenzoic acid) [3].
c Growth after six passages in LB broth [3].
d Considered essential in STY2 [3].