Table 2

Putative cre sites present in the promoter region of some L. sakei genes up-regulated in the present study.

Gene locus

Gene

cre site sequencea

Positionb

Co-transcribed genes/operonc

Gene locus


LSA0123

lsa0123

TGAAAGCGTTA

    CA
A

-93

LSA0185

galP

    GA
ACATCGTTATCA

-46

LSA0200

rbsU

    GT
AAACCGTTTTCA

-113

rbsUDK

LSA0200-0202

LSA0254

lsa0254

TGTAAGCGTTTT

    AT

-56

lsa0254-lsa0255-lsa0256_a

LSA0254-0256_a

LSA0289

xpk

    CT
ATTACGATGACA

-8

LSA0292

budC

TGTAACCGTTTT

    A
A

-51

LSA0353

lsa0353

    A
GAAAGCGCTTA
    T
A

-102

LSA0370

arcA

TGAAAGCGATTAC

    C

-58

arcA-arcBe-arcC-arcTe-arcDe

LSA0370-0374

LSA0449

manL

TGTTAGCGTTTT

    T
A

-56

manL-manM-manN

LSA0449-0451

LSA0533

iunH2

    AA
AAAGCGTTCACA

-35

LSA0572

tdcB

TGAAAACGTTCT

    A
A

-134

LSA0608

Glo AN

TGTAACCGTTTT

    A
A

-100

gloAN-gloAC

LSA0608-0609

LSA0649

glpK

    A
GGAAACGTTTTC
    C

-42

glpK-glpD-glpF

LSA0649-0651

LSA0664

loxL1

    A
GAAAGCGA
    G
TACA

-82

loxL1N-loxLI-loxL1C

LSA0664-0666

LSA0764

galK

TGAAAGCGATTA

    AT

-30

galK-galE1-galT-galM

LSA0764-0767

LSA0795

deoC

TGAAAGCGTTAACA

-33

deoC-deoB-deoD-lsa0798-lsa0799-deoR-pdp

LSA0795-0801

LSA0974

pflB

TACGAACGCTTACA

-147

pflB-pflA

LSA0974-0973

LSA1048

fruRe

TGTAAACGATGACA

-39

fruRe-fruKe-fruA

LSA1048-1050

LSA1141

ppdK

    G
GTTATCGATAA
    A
A

-29

LSA1146

manA

    C
GAAATCGCTTT
    A
A

-98

LSA1188

pox1

TGTAATCGATTTCA

-88

LSA1204

lsa1204

TGTAATCGTTTT

    TT

-127

LSA1343

eutD

    GT
AAAACGCTCTCA

-94

LSA1399

loxL2

TGTAAACGATTTCA

-42

LSA1457

lsa1457

TGATAACGCTTACA

-85

LSA1463d

ptsH

TGAAAGCGGTAT

    AG

-161

ptsHI

LSA1463-1462

LSA1641

nanE

TGTAAGCGGTTA

    AT

-85

nanE-nanA

LSA1641-1640

LSA1643

lsa1643

TGATAACGCTTACA

-31

LSA1651

lsa1651

    G
GTAAGCGGTTA
    A
A

-148

LSA1711

lacL

TGAAACCGTTTT

    A
A

-36

lacL-lacM

LSA1711-1710

LSA1792

scrA

TGTAAACGGTT

    GT
A

-78

scrA-dexB-scrK

LSA1792-1790

LSA1830

pox2

T

    TG
TAACGCTTACA

-70


The identification is based on the genome sequence of L. sakei strain 23K, and the consensus sequence TGWNANCG NTNWCA (W = A/T, N = A/T/G/C), confirmed in Gram-positive bacteria [39] was used in the search, allowing up to two mismatches (underlined) in the conserved positions except for the two center positions, highlighted in boldface.

a mismatch to consensus sequence is underlined

b position of cre in relation to the start codon

c suggested co-transcribed genes or genes organized in an operon

d cre in preceding gene encoding hypothetical protein

e gene not regulated in this study

McLeod et al. BMC Microbiology 2011 11:145   doi:10.1186/1471-2180-11-145

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