Table 3

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

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


aFunction derived from B. cenocepacia J2315 [34].

bcep box motif name from Chambers et al. 2006 [28] or genomic context of downstream.

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).

O'Grady et al. BMC Genomics 2009 10:441   doi:10.1186/1471-2164-10-441

Open Data