. 2018 Feb 13;3(1):e00172-17. doi: 10.1128/mSystems.00172-17

TABLE 2 .

Transcription of genes that showed increased distribution of RpoZ-defective RNAP in prophages (qRT-PCR assay)^b

Gene	Ratio^a	Function	Prophage
ydbA	7.66 ± 6.24	Predicted autotransporter
ybhJ	5.96 ± 1.93	Predicted hydratase
yfjQ	4.79 ± 1.44	OM protein assembly complex	CP4-57
paaE	4.69 ± 2.16	1,2-Phenylacetyl-CoA epoxidase
ydaY	4.69 ± 0.91	Phage protein	Rac
ybcH	4.54 ± 0.21	Predicted protein
yhcD	4.53 ± 0.46	Predicted OM usher porin protein
ymfN	3.42 ± 0.50	DNA-binding transcription regulator	e14
basS	3.27 ± 0.42	BasST TCS histidine kinase
yaiP	2.87 ± 1.18	Predicted glucosyltransferase
ybhA	2.32 ± 0.07	Pyridoxal phosphate/fructose-2P phosphatase
ycfK	2.29 ± 1.31	Predicted protein (e14 prophage)
ymfK	2.05 ± 0.08	DNA-binding transcription regulator	e14
nfrB	1.81 ± 0.35	NtrBC TCS histidine kinase (N4 receptor)
flu	1.74 ± 0.60	Ag43 autotransporter	CP4-44
isrC	1.68 ± 0.49	IsrC sRNA (flu gene attenuation)
rcsD	1.07 ± 0.19	RcsCDB phosphorelay phosphotransferase

^{^a}

Ratio indicates the relative level of mRNA (rpoZ mutant/wild type). When the target gene is located inside a prophage, the name of the prophage is given.

^{^b}

The level of mRNA was determined for E. coli K-12 mutants lacking the rpoZ gene by using the qRT-PCR method. The genes were selected from the list showing the decreased distribution of RpoZ-defective RNAP (Table 1 and Fig. 3).