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Table 1 Genes up-regulated at 18°C in P. syringae pv. phaseolicola NPS3121

From: Transcriptional profile of P. syringaepv. phaseolicola NPS3121 at low temperature: Physiology of phytopathogenic bacteria

Gen/ORF

Gene product

Ratio

Cluster 1: Phaseolotoxin production (Pht cluster)

PSPPH_4299

Hypothetical protein (phtU)

11.86

PSPPH_4300

Membrane protein, putative (phtT)

8.70

PSPPH_4301

Adenylylsulfate kinase (phtS)

13.50

PSPPH_4302

Conserved hypothetical protein (phtQ)

6.23

PSPPH_4305

Hypothetical protein (phtO)

8.78

PSPPH_4306

Hypothetical protein (phtM)

15.90

PSPPH_4306

Hypothetical protein (phtM)

7.29

PSPPH_4307

pyruvate phosphate dikinase PEP/pyruvate binding subunit

23.74

PSPPH_4317

Hypothetical protein

11.52

PSPPH_4323

Hypothetical protein

2.13

argK

control

3.30

phtA

control

4.96

phtD

control

6.50

desI

control

14.97

phtL

control

7.64

phtMN

control

1.81

amtA

control

10.34

Cluster 2: Genes involved in Non-ribosomal synthesis

PSPPH_4538

transposon Tn7-like transposase protein A

1.67

PSPPH_4539

transposon Tn7-like transposase protein B

1.70

PSPPH_4544

hypothetical protein PSPPH_4544

8.08

PSPPH_4544

hypothetical protein PSPPH_4544

7.26

PSPPH_4546

hypothetical protein

9.44

PSPPH_4549

hypothetical protein PSPPH_4549

9.13

PSPPH_4553

major facilitator family protein

15.83

PSPPH_4554

arginine aminomutase, putative

12.67

PSPPH_4555

conserved hypothetical protein

7.46

Cluster 3: Type VI secretion system

PSPPH_0122

hcp

2.13

PSPPH_0124

hypothetical protein

1.66

PSPPH_0125

icmF

1.94

PSPPH_0131

HsiG

1.61

PSPPH_0135

hypothetical protein

1.64

PSPPH_4978

prophage PSPPH06, putative reverse transcriptase/maturase

1.65

PSPPH_4979

prophage PSPPH06, putative reverse transcriptase/maturase

2.68

PSPPH_4984

prophage PSPPH06, site-specific recombinase, phage integrase family

1.70

Cluster 4: Genes involved in membrane synthesis

PSPPH_1430

leucine-rich repeat domain protein

1.75

PSPPH_1464

lipoprotein, putative

1.66

PSPPH_1708

ABC transporter, periplasmic substrate-binding protein

1.84

PSPPH_2260

UTP-glucose-1-phosphate uridylyltransferase

1.72

PSPPH_2542

membrane protein, putative

1.94

PSPPH_2643

outer membrane efflux protein

1.68

PSPPH_2654

lipoprotein, putative

1.55

PSPPH_2842

lipoprotein, putative

1.55

PSPPH_3226

glycosyl transferase, group 1 family protein

1.72

PSPPH_3288

predicted periplasmic lipoprotein

2.05

PSPPH_3810

lipoprotein

1.71

PSPPH_3916

membrane protein, putative

1.86

PSPPH_4139

UDP-N-acetylglucosamine 1-carboxyvinyltransferase

1.55

PSPPH_4669

acetyltransferase, GNAT family

1.73

PSPPH_4682

lipopolysaccharide biosynthesis protein, putative

3.03

PSPPH_5220

inner membrane protein, 60 kDa

1.61

Cluster 5: Genes involved in motility

PSPPH_0730

type IV pilus-associated protein, putative

1.74

PSPPH_0818

type IV pilus prepilin peptidase PilD

1.53

PSPPH_0820

type IV pilus biogenesis protein PilB

1.53

PSPPH_1200

pili assembly chaperone

2.03

PSPPH_3387

flagellar regulator FleQ

1.64

PSPPH_3880

CheW domain protein WspB

1.94

PSPPH_3881

methyl-accepting chemotaxis protein WspA

1.5

Cluster 6: Oxidative stress response genes and iron metabolism

PSPPH_1309

cysteine desulfurase IscS

1.93

PSPPH_1311

iron-sulfur cluster assembly protein IscA

1.69

PSPPH_1909

RNA polymerase sigma-70 family protein. pvdS

1.59

PSPPH_1923

pyoverdine sidechain peptide synthetase I, epsilon-Lys module

1.70

PSPPH_2117

FecR protein superfamily

2.05

PSPPH_3007

iron ABC transporter, permease protein, putative

1.61

PSPPH_3274

catalase KatB

2.31

PSPPH_3274

catalase KatB

1.65

PSPPH_3753

siderophore biosynthesis protein

1.57

Cluster 7: Unknown function

PSPPH_0317

conserved hypothetical protein

1.81

PSPPH_0611

conserved hypothetical protein

2.15

PSPPH_0612

hypothetical protein PSPPH_0612

1.94

PSPPH_1142

hypothetical protein PSPPH_1142

1.58

PSPPH_1230

hypothetical protein PSPPH_1230

1.59

PSPPH_1243

conserved hypothetical protein

1.98

PSPPH_1637

hypothetical protein

2.25

PSPPH_1835

conserved hypothetical protein

1.72

PSPPH_1938

conserved hypothetical protein

1.52

PSPPH_2103

conserved hypothetical protein

1.89

PSPPH_2116

conserved hypothetical protein

1.58

PSPPH_2147

hypothetical protein PSPPH_2147

2.51

PSPPH_2578

conserved hypothetical protein

1.53

PSPPH_3212

conserved hypothetical protein

1.53

PSPPH_3262

conserved hypothetical protein

1.60

PSPPH_5014

conserved hypothetical protein

1.52

Cluster 8: Uncharacterized Function

PSPPH_0210

DNA repair protein RadC

1.56

PSPPH_0398

glutamate synthase, large subunit

2.63

PSPPH_0581

radical SAM domain protein

1.53

PSPPH_0620

DNA primase

2.48

PSPPH_0622

O-sialoglycoprotein endopeptidase

1.87

PSPPH_0625

2-amino-4-hydroxy-6-hydroxymethyldihydropteridine pyrophosphokinase

1.62

PSPPH_0627

SpoVR like family protein

2.10

PSPPH_0629

protein kinase

1.65

PSPPH_0703

phosphonate ABC transporter permease protein phnE

1.73

PSPPH_1141

ISPsy20, transposase IstB

1.51

PSPPH_1150

conserved domain protein-Divergente HU family

1.61

PSPPH_1179

DNA-binding response regulator GltR

1.54

PSPPH_1244

transcriptional regulator, AsnC family

1.89

PSPPH_1306

RNA methyltransferase, TrmH family, group 1

1.545

PSPPH_1378

Methionyl-tRNA synthetase (Methionine--tRNA ligase)(MetRS)

2.56

PSPPH_1406

ATP-dependent helicase, DinG family

1.77

PSPPH_1468

nucleic acid binding protein

1.58

PSPPH_1595

transcriptional regulator, GntR family

2.58

PSPPH_1661

cvpA family protein

1.66

PSPPH_1746

oxidoreductase, aldo/keto reductase family

1.92

PSPPH_2216

zinc carboxypeptidase domain protein

1.89

PSPPH_2221

precorrin-4 C11-methyltransferase

1.52

PSPPH_2506

L-arabinose ABC transporter, periplasmic L-arabinose-binding protein

1.62

PSPPH_2551

oxidoreductase, putative

1.84

PSPPH_2563

transcriptional regulator, GntR family

1.53

PSPPH_2580

transcriptional regulator, LysR family

1.97

PSPPH_2620

5-methyltetrahydrofolate--homocysteine methyltransferase

1.85

PSPPH_2690

oxidoreductase, FAD-binding, putative

1.56

PSPPH_2781

TspO/MBR family protein

1.99

PSPPH_2840

sodium/hydrogen exchanger family protein

1.55

PSPPH_2847

general secretion pathway protein GspK, putative

1.89

PSPPH_3045

transporter, AcrB/AcrD/AcrF family

1.64

PSPPH_3252

glycolate oxidase, GlcD subunit

1.97

PSPPH_3291

oxidoreductase, molybdopterin-binding

1.88

PSPPH_3294

DNA-binding heavy metal response regulator

1.81

PSPPH_3654

transcriptional regulator, TetR family

1.51

PSPPH_3906

sensor histidine kinase

1.65

PSPPH_3946

DNA repair protein RecO

1.66

PSPPH_3962

DNA-binding response regulator TctD

1.77

PSPPH_4137

histidinol dehydrogenase

1.63

PSPPH_4151

RNA polymerase sigma-54 factor RpoN

1.69

PSPPH_4152

ribosomal subunit interface protein

1.86

PSPPH_4332

DNA repair protein RadA

1.76

PSPPH_4372

RNA 2'-phosphotransferase

1.55

PSPPH_4634

bmp family protein

2.99

PSPPH_4641

YccA

1.68

PSPPH_4717

dethiobiotin synthetase

2.09

PSPPH_4866

proline-specific permease proY

1.54

PSPPH_4925

imidazole glycerol phosphate synthase, glutamine amidotransferase subunit

1.62

PSPPH_5142

oxaloacetate decarboxylase alpha subunit

2.35

  1. The described functions were obtained from the literature. The up-regulated genes were identified using cutoff criteria ≥1.5 of ratio. The ratio is in relation to expression levels obtained between 18°C and 28°C (18°C/28°C). Control: corresponds to genes obtained by PCR amplification that were printed in the microarray.