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Table 3 Comparison of genes (or operons) showing differential expression in microarray analysis and identified to have a cep box motif.

From: Reciprocal regulation by the CepIR and CciIR quorum sensing systems in Burkholderia cenocepacia

Gene Functiona cep box motif name or genomic context of downstream geneb Change (fold) for K56-R2 (cepR) vs K56-2c Change (fold) for K56-2cciR vs K56-2c Change (fold) for K56-2cepRcciIR vs K56-2c
BCAL0051 periplasmic solute-binding protein MST2001 -2.1 2.5 NC
BCAL0052 putative oxidoreductase downstream from MST2001 -2.2 2.7 NC
BCAL0232 elongation factor Tu MST2002 -2.1 NC NC
BCAL0340 putative lipoprotein of T6SS MST005 & MST2004 -2.8 NC NC
BCAL0341 putative type VI secretion system protein TssB downstream from MST005 & MST2004 -2.5 NC -2.1
BCAL0342 putative type VI secretion system protein TssC downstream from MST005 & MST2004 -3.1 NC -2.3
BCAL0343 putative type VI secretion system protein TssD downstream from MST005 & MST2004 -3.2 2.1 NC
BCAL0344 putative type VI secretion system protein TssE downstream from MST005 & MST2004 -2.7 NC NC
BCAL0345 putative type VI secretion system protein TssF downstream from MST005 & MST2004 -5.1 2.8 -2.1
BCAL0346 putative type VI secretion system protein TssG downstream from MST005 & MST2004 -2.9 2.1 -2.1
BCAL0347 putative type VI secretion system protein TssH (ClpB) downstream from MST005 & MST2004 NC 2.1 NC
BCAL0348 putative type VI secretion system protein TssA downstream from MST005 & MST2004 -2.7 2.1 -2.2
BCAL0831 putative storage protein MST2009 -5.2 NC -4.0
BCAL0832 poly-beta-hydroxy-butyrate storage protein PhaA downstream from MST2009 -2.4 NC NC
BCAL0833 putative acetoacetyl-CoA reductase PhbB downstream from MST2009 -2.6 NC -3.6
BCAL0834 hypothetical protein downstream from MST2009 -2.4 NC NC
BCAL0999 sigma-E factor negative regulatory protein 2 RseA2 MST2013 NC NC -3.4
BCAL1124 conserved hypothetical protein MST2014 2.0 NC NC
BCAL1354 conserved hypothetical protein MST2020 NC NC -2.2
BCAL1562 hypothetical phage protein MST2024 NC 2.7 NC
BCAL2871 sigma-E factor negative regulatory protein 1 RseA1 MST2036 NC NC NC
BCAL2870 sigma-E factor regulatory protein RseB precursor 1 MucB1 downstream from MST2036 NC NC -3.5
BCAL3190 IclR family regulatory protein MST2039 NC 2.3 2.6
BCAL3205c hypothetical protein MST2040 -2.0 NC NC
BCAL3419 3-dehydroquinate dehydratase AroQ1 MST2043 -2.0 NC NC
BCAM1015 putative porin MST2050 -2.3 NC NC
BCAM1405 levansucrase MST2055 -2.9 NC NC
BCAM1502 hypothetical protein MST2056 -2.8 NC NC
BCAM1870 N-acylhomoserine lactone synthase CepI MST2059 -67.0 NC -6.9
BCAM1871 hypothetical protein downstream from MST2059 -37.6 NC -20.2
BCAM2502 3-dehydroquinate dehydratase AroQ (similar to BCAL3419) MST2064 -2.1 NC NC
BCAM2626 putative heme receptor protein HuvA MST2066 3.4 -2.2 2.7
BCAM2627 putative hemin ABC transport system protein HmuS downstream from MST2066 3.1 NC 2.9
BCAS0293 nematocidal protein AidA MST2069 -88.7 NC -214.9
BCAS0292 hypothetical protein downstream from MST2069 -137.3 NC -278.2
BCAS0409 zinc metalloprotease ZmpA MST2070 -5.3 4.0 -4.5
  1. aFunction derived from B. cenocepacia J2315 [34].
  2. bcep box motif name from Chambers et al. 2006 [28] or genomic context of downstream.
  3. cChange in 16-h cultures of cepR, cciR or cepRcciIR mutants compared to 16-h cultures of K56-2 as determined by microarray analysis with at least two biological replicates (NC, no change).