Table 1 List of genes significantly upregulated in FL samples both in BRIC-21 and BRIC-23 experiments^a

BSU02050

ybdO

1.94

2.03

1.25

1.24

Unknown

AbrB, SigD

BSU02140

glpT

1.43

1.48

1.06

1.10

Glycerol-3-phosphate transporter

GlpP, CcpA, PhoP, SigA

BSU02310

ybfO

1.46

1.51

1.89

1.99

Similar to erythromycin esterase

AbrB, SigW

BSU02700

lipA

1.44

1.50

1.23

1.27

Extracellular lipase

Unknown

BSU02710

yczC

1.93

1.99

1.08

1.07

Unknown

Unknown

BSU03200

putB

3.16

3.67

1.02

1.02

Proline dehydrogenase

CodY PutR, SigA, Spo0A

BSU03480

srfAA

2.61

2.91

1.84

1.85

Surfactin synthase subunit 1

Abh, CodY, ComA, PerR, PhoP, SigA, Spx

BSU03490

srfAB

3.06

3.28

2.19

2.22

Surfactin synthase subunit 2

Abh, CodY, ComA, PerR, PhoP, SigA, Spx

BSU03510

srfAC

3.16

3.37

2.47

2.51

Surfactin synthase subunit 3

Abh, CodY, ComA, PerR, PhoP, SigA, Spx

BSU03520

srfAD

3.18

3.46

2.63

2.67

Surfactin synthase thioesterase subunit

Abh, CodY, ComA, PerR, PhoP, SigA, Spx

BSU03530

ycxA

2.37

2.44

2.08

2.08

Unknown

ComA

BSU_tRNA_36

trnD-Thr

1.02

1.13

1.03

1.06

Threonyl transfer RNA

Unknown

BSU09710

bmrC

1.01

1.05

1.33

1.33

Multidrug resistance ABC transporter ATP-binding protein

AbrB, BmrB

BSU09720

bmrD

1.05

1.09

1.21

1.17

Multidrug resistance ABC transporter ATP-binding protein

AbrB, BmrB

BSU10370

bioY

3.81

4.10

1.40

1.43

S-protein of biotin ECF transporter

BirA

BSU11381

appA/1

2.36

2.45

1.31

1.30

Oligopeptide ABC transporter, inactive pseudogene in strain 168

CodY, ScoC, TnrA

BSU11382

appA/2

2.52

2.61

1.17

1.10

Oligopeptide ABC transporter, inactive pseudogene in strain 168

CodY, ScoC, TnrA

BSU12010

manP

2.38

2.67

1.38

1.47

PTS system-mannose-specific transporter subunit EIIBCA

ManR, SigA

BSU15960

sivC

2.89

3.06

2.67

2.71

Inhibitor of entry into sporulation via KinB or KinC

AbrB, SigD

BSU18000

citB

1.83

1.99

1.17

1.18

aconitase

CcpA, CcpC, CitB, CodY, FsrA, SigA

BSU21330

yomK

1.47

1.58

1.90

1.93

Unknown

SPβ prophage

BSU21420

bhlA

1.09

1.34

−1.05

−1.28

Holin-like protein

SPβ prophage

BSU24620

tasA

2.22

2.33

3.11

3.38

major component of biofilm matrix, forms amyloid fibers

AbrB, LutR, RemA, SigA, SinR

BSU24630

sipW

2.37

2.51

2.81

3.52

Bifunctional signal peptidase I that controls surface-adhered biofilm formation and processes TasA and TapA

AbrB, LutR, RemA, SigA, SinR

BSU24640

tapA

2.77

2.93

2.78

2.96

TasA anchoring/assembly protein

AbrB, LutR, RemA, SigA, SinR

BSU26490

yrkJ

1.73

1.85

1.96

1.92

Unknown

Unknown

BSU26500

yrkI

2.32

2.50

2.22

2.48

Unknown

Unknown

BSU26510

yrkH

2.63

2.80

2.50

2.89

Unknown

Unknown

BSU26530

yrkF

3.22

3.62

2.77

3.84

Unknown

Unknown

BSU26540

yrkE

3.16

3.47

2.76

3.65

Unknown

Unknown

BSU29440

argH

2.57

2.67

1.25

1.22

Argininosuccinate lyase

AhrC

BSU29450

argG

2.50

2.61

1.29

1.30

Argininosuccinate synthase

AhrC

BSU30200

bioB

4.35

4.64

1.20

1.16

Biotin synthase

BirA

BSU30210

bioD

4.77

5.05

1.67

1.73

Dethiobiotin synthase

BirA

BSU30230

bioA

4.57

4.75

1.36

1.31

Lysine-8-amino-7-oxononanoate aminotransferase

BirA

BSU30240

bioW

5.63

5.94

2.31

2.41

6-carboxyhexanoate–CoA ligase

BirA

BSU30740

mntD

3.95

4.11

3.13

3.32

Manganese ABC transporter (permease)

MntR

BSU30750

mntC

3.97

4.12

2.98

3.31

Manganese ABC transporter (membrane protein)

MntR

BSU30760

mntB

3.83

3.98

2.82

3.15

Manganese ABC transporter (ATP-binding protein)

MntR

BSU30770

mntA

3.12

3.32

2.70

2.76

Manganese ABC transporter (Mn-binding lipoprotein)

MntR

BSU31250

tlpA

1.42

1.47

1.32

1.33

Methyl-accepting chemotaxis protein

AbrB, SigD

BSU31990

dhbC

2.48

2.57

1.05

1.08

Isochorismate synthase; siderophore bacillibactin synthesis

AbrB, Fur, Kre, SigA, SigI

BSU32010

besA

2.31

2.51

1.39

1.40

Trilactone hydrolase, catalyzes ferri-bacillibactin hydrolysis leading to cytosolic iron release

AbrB, Fur

BSU32450

pucL

1.07

1.32

−1.14

−1.32

Urate oxidase

PucR, SigA, TnrA

BSU33140

yvqJ

1.20

1.50

1.29

1.34

Similar to to macrolide-efflux protein

AbrB

BSU33490

cadA

2.37

3.38

1.59

2.23

Cadmium transporting ATPase, resistance to cadmium

CzrA, SigA

BSU33770

sdpC

4.41

4.61

1.56

1.61

Toxin, collapses the proton motive force and induces autolysis, kills non-sporulating cells, induces activity of SigW

AbrB, Rok, Spo0A

BSU34290

epsI

1.01

1.10

1.66

1.68

Glycosyltransferase, synthesis of extracellular poly-N-acetylglucosamine

AbrB, EAR riboswitch, RemA, SigA, SinR

BSU34350

epsC

1.12

1.17

1.48

1.48

UDP-sugar epimerase, required for extracellular polysaccharide synthesis

AbrB, EAR riboswitch, RemA, SigA, SinR

BSU34360

epsB

1.01

1.04

2.29

2.41

Extracellular polysaccharide synthesis, protein tyrosine kinase

AbrB, EAR riboswitch, RemA, SigA, SinR

BSU35070

yvmC

1.93

2.11

1.15

1.13

Cyclodipeptide synthase; biosynthesis of the extracellular iron chelate pulcherrimin

AbrB, PchR

BSU35080

pchR

3.70

3.91

1.55

1.53

Transcriptional repressor (MarR family), controls the expression of genes involved in pulcherriminic acid biosynthesis

CcpA, PchR

BSU37780

rocA

1.10

1.31

−1.14

−1.35

3-hydroxy-1-pyrroline-5-carboxylate dehydrogenase; arginine, ornithine and citrulline utilization

AbrB, AhrC, CodY, RocR, SigL

BSU37800

sivA

1.62

1.79

2.14

2.20

Inhibitor of KinA autophosphorylation, and subsequently of entry into sporulation

AbrB

BSU40180

yydF

4.55

4.77

2.51

2.82

Secreted peptide, controls LiaR-LiaS activity

AbrB, Rok, SigA