Table 2

Microarray and qRT-PCR analysis of selected genes showing differential expression in cepR, cciR or cepRcciIR mutants compared to K56-2.

Gene

Functiona

Change (fold) for K56-R2 (cepR) vs K56-2

Change (fold) for K56-2cciR vs K56-2

Change (fold) for K56-2cepRcciIR vs K56-2


microarrayb

qRT-PCRc

microarrayb

qRT-PCRc

microarrayb

qRT-PCRc


BCAS0409

zinc metalloprotease ZmpA

-5.3

-5.3

4.0

2.5

-4.5

-3.3

BCAL1814

MerR family regulatory protein

-2.9

-1.4

-2.7

-1.4

NC

2.7

BCAM0189

AraC family regulatory protein

-2.1

-1.3

NC

-2.6

NC

-3.4

BCAM0191

putative non-ribosomal peptide synthetase

-2.3

-7.4

NC

-2.1

NC

-6.8

BCAM0199

outer membrane efflux protein

2.1

1.6

NC

-1.5

NC

1.8

BCAS0293

nematocidal protein AidA

-88.7

-6647

NC

1.7

-214.9

-4632

BCAL0114

flagellin (type II) protein FliC

-2.4

-164.1

2.2

7.7

NC

-127.9

BCAS0225

Shiny variant regulator ShvR

-3.6

-2.6

NC

1.5

-2.3

-2.2

BCAS0220

putative permease

-3.0

-2.5

2.8

1.7

NC

-1.2

BCAS0204

ABC transporter ATP-binding protein

-7.4

-1.7

3.7

4.0

NC

-1.6

BCAM1420

RND family efflux system transporter protein

-4.8

-1.3

10.3

3.0

-7.4

-1.8

BCAM1418

two-component regulatory system, response

NC

-10.7

11.3

3.0

NC

-2.1

BCAM2626

heme receptor protein HuvA

3.4

2.2

-2.2

-2.0

2.7

2.6


aFunction derived from B. cenocepacia J2315 [34].

bChange 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).

cChange in 16-h cultures of cepR, cciR or cepRcciIR mutants compared to 16-h cultures of K56-2 as determined by qRT-PCR.

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

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