Table 3

Selected genes down-regulated in tendril tip cells

Gene number

Gene name

Product name

Tip vs. non-swarming fold change (log2)


Adaptation, Protection

PA21471

katE

catalase HPII

-3.2

Chemotaxis

PA19301

mcpS

probable chemotaxis transducer

-2.8

PA27882

probable chemotaxis transducer

-2.3

PA4915

probable chemotaxis transducer

-1.6

Biosynthesis of cofactors, prosthetic groups and carriers

PA1985

pqqA

pyrroloquinoline quinone biosynthesis protein A

-2.2

PA1986

pqqB

pyrroloquinoline quinone biosynthesis protein B

-1.9

PA1987

pqqC

pyrroloquinoline quinone biosynthesis protein C

-1.8

PA19882

pqqD

pyrroloquinoline quinone biosynthesis protein D

-2.2

PA1989

pqqE

pyrroloquinoline quinone biosynthesis protein E

-1.6

Energy metabolism

PA01052

coxB

cytochrome c oxidase, subunit II

-2.9

PA01062

coxA

cytochrome c oxidase, subunit I

-2.7

PA01072

conserved hypothetical protein

-2.2

PA01082

coIII

cytochrome c oxidase, subunit III

-1.9

PA11752

napD

NapD protein of periplasmic nitrate reductase

-2.2

PA11772

napE

periplasmic nitrate reductase protein NapE

-2.3

PA1931

probable ferredoxin

-2.2

PA21532

glgB

1,4-alpha-glucan branching enzyme

-3.6

PA21652

probable glycogen synthase

-2.9

PA22902

gcd

glucose dehydrogenase

-1.6

PA3416

probable pyruvate dehydrogenase E1 component, beta chain

-1.9

PA3417

probable pyruvate dehydrogenase E1 component, alpha subunit

-1.6

PA5427

adhA

alcohol dehydrogenase

-2.2

Secreted Factors (toxins, enzymes, alginate)

PA25702

lecA

LecA

-4.5

PA1148

toxA

exotoxin A precursor

-1.5

PA12452

aprX

Hypothetical protein

-2.5

PA12462

aprD

alkaline protease secretion protein AprD

-3.0

PA1247

aprE

alkaline protease secretion protein AprE

-1.6

PA1249

aprA*

alkaline metalloproteinase precursor

-1.4

PA12502

aprI

alkaline proteinase inhibitor AprI

-1.9

PA18712

lasA

LasA protease precursor

-3.2

PA29393

pepB

Aminopeptidase

-1.5

PA1130

rhlC

rhamnosyltransferase 2

-1.5

PA1131

probable major facilitator superfamily (MFS) transporter

-1.6

PA3478

rhlB

rhamnosyltransferase 1

-2.3

PA34792

rhlA

HAA synthase

-2.0

PA22553

pvcB

paerucumarin biosynthesis protein PvcB

-1.7

PA2402

pvdI

non-ribosomal peptide synthase PvdI

-1.5

PA24063

hypothetical protein

-1.9

PA24083

probable ATP-binding component of ABC transporter

-1.7

PA24112

probable thioesterase

-1.7

PA24122

hypothetical protein

-1.6

PA24132

pvdH

L-2,4-diaminobutyrate:2-ketoglutarate 4-aminotransferase, PvdH

-2.0

PA24242

pvdL

Predicted non-ribosomal peptide synthetase PvdL

-2.3

PA2425

pvdG

Thioesterase PvdG

-1.8

PA4222

pchI

probable ATP-binding component of ABC transporter

-2.0

PA42232

pchH

probable ATP-binding component of ABC transporter

-2.0

PA42242

pchG

pyochelin biosynthesis protein PchG

-2.3

PA42252

pchF

pyochelin synthetase

-2.4

PA42262

pchE

dihydroaeruginoic acid synthetase

-2.2

PA4228

pchD

pyochelin biosynthesis protein PchD

-1.7

PA42292

pchC

pyochelin biosynthetic protein PchC

-1.8

PA4230

pchB

salicylate biosynthesis protein PchB

-1.8

PA4231

pchA

salicylate biosynthesis isochorismate synthase

-1.8

Transcription factors

PA2259

ptxS

transcriptional regulator PtxS

-2.0

PA0471

fiuR

Anti-sigma factor for FiuI

-1.9

PA0472

fiuI

sigma-70 factor, ECF subfamily

-1.5

PA1300

sigma-70 factor, ECF subfamily

-1.9

PA2895

Anti-sigma factor for PA2896

-1.9

PA2896

sigma-70 factor, ECF subfamily

-1.8

PA1912

sigma-70 factor, ECF subfamily

-1.8

PA2312

probable transcriptional regulator

-1.7

PA5116

probable transcriptional regulator

-1.6

Two-component regulatory systems

PA3346

probable two-component response regulator

-1.6

PA1243

probable sensor/response regulator hybrid

-2.2

PA2177

probable sensor/response regulator hybrid

-1.8


1: Genes down-regulated in tendril tip vs. NS and down-regulated in swarm center vs. NS.

2: Genes down-regulated in tendril tip vs. NS and down-regulated in tips vs. swarm center.

3: Genes down-regulated in tendril tip vs. swarm center only.

*:aprA was kept since it is part of a pertinent gene cluster found in our analysis.

Tremblay and D├ęziel BMC Genomics 2010 11:587   doi:10.1186/1471-2164-11-587

Open Data