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Table 2 Relative abundance of RNase III-dependent or -independent transcripts by different level of YmdB or RNase III

From: Escherichia coliYmdB regulates biofilm formation independently of its role as an RNase III modulator

RNase III-dependent genes Microarray1 qPCR-Δ ymdB2 qPCR-YmdB3 qPCR-rnc144
mltD 3.66 3.06 ± 0.04 7.37 ± 0.03 39.80 ± 0.01
PnP 3.06 0.84 ± 0.01 3.27 ± 0.36 8.02 ± 0.02
plsX 3.01 2.98 ± 0.01 2.86 ± 0.31 21.37 ± 0.01
ahpF 2.48 0.90 ± 0.02 3.34 ± 0.33 7.72 ± 0.01
yhdE 2.26 1.90 ± 0.01 2.37 ± 0.20 3.93 ± 0.01
RNase III-independent genes Microarray 1 qPCR- Δ ymdB 2 qPCR-YmdB 3 qPCR- rnc14 4
pspB 5.18 0.88 ± 0.13 1.53 ± 0.01 1.36 ± 0.01
pspA 4.46 0.78 ± 0.01 1.50 ± 0.01 1.15 ± 0.01
pspD 4.30 0.82 ± 0.01 2.45 ± 0.06 1.86 ± 0.02
pspC 3.86 1.01 ± 0.01 1.59 ± 0.02 1.38 ± 0.02
ahpC 2.81 0.67 ± 0.01 3.73 ± 0.01 3.30 ± 0.01
  1. 1Fold-change of each transcript levels from microarray analysis (Additional file 1: Table S3): YmdB overexpression from ASKA-ymdB(−) vs pCA24N (−gfp) in wild-type (BW25113) background.
  2. Relative ratios of each transcript levels determined by qPCR with specific primers (Additional file 1: Table S2) are indicated: 2ymdB knockout (ΔymdB: KSK002) vs BW25113 (ymdB), 3YmdB overexpression from ASKA-ymdB (−) vs pCA24N (−gfp) or 4RNase III mutant (rnc14:KSK001) vs BW25113 (rnc+).