Table 1 List of proteins differentially expressed in ΔldcF.

Downregulated proteins in ΔldcF

cadA

FTN_0504

Lysine decarboxylase

− 6.135487177

6.5901E−12

udp

FTN_0652

Uridine phosphorylase

− 2.442473795

0.000355044

uvrB

FTN_1176

Excinuclease ABC subunit B

− 2.359970258

1.5872E−07

yhiP

FTN_0885

Proton-dependent oligopeptide transporter (POT) family protein, di- or tripeptide:H + symporter

− 2.233739832

1.28816E−08

–

FTN_1453

Two-component regulator, sensor histidine kinase

− 2.225623368

0.000269144

–

FTN_0705

Abortive infection bacteriophage resistance protein

− 1.909345488

0.006797082

–

FTN_0655

N6-adenine-specific methylase

− 1.645819843

0.009836595

–

FTN_1348

Acetyltransferase

− 1.493386099

3.68028E−07

–

FTN_0898

Amino acid permease

− 1.424644622

3.5435E−06

panD

FTN_1354

Aspartate 1-decarboxylase

− 1.405501066

0.006567341

–

FTN_0862

Hypothetical protein

− 1.276557703

0.000969217

ung

FTN_1486

Uracil-DNA glycosylase

− 1.261354286

4.40904E−07

–

FTN_0308

Membrane protein of unknown function

− 1.255628185

0.000806353

–

FTN_1272

Proton-dependent oligopeptide transporter (POT) family protein, di- or tripeptide:H + symporter

− 1.243209089

1.20616E−05

dapD

FTN_1727

2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase

− 1.185622324

0.000977552

–

FTN_1258

Hypothetical protein

− 1.11437438

0.000177817

hsdM

FTN_1152

Type I restriction-modification system, subunit M (methyltransferase)

− 1.098834276

0.000436818

–

FTN_1316

Hypothetical protein

− 1.075883638

0.005337719

–

FTN_1628

LysR family transcriptional regulator

− 1.010217775

0.001268379

hdsR

FTN_0710

Type I restriction-modification system, subunit R (restriction)

− 0.974133834

0.00046316

–

FTN_1212

Glycosyl transferases group 1 family protein

− 0.967248679

7.07496E−06

–

FTN_1397

Hypothetical protein

− 0.962399859

6.53792E−05

–

FTN_0976

ThiF family protein

− 0.962086728

6.76869E−05

waaG

FTN_1218

Glycosyl transferase, group 1

− 0.942030987

0.000643833

pilE4

FTN_0389

Type IV pili, pilus assembly protein

− 0.94007106

2.01122E−05

–

FTN_1440

Hypothetical protein

− 0.935671185

0.007635418

ubiC

FTN_0386

Chorismate pyruvate lyase

− 0.934045712

6.57717E−05

–

FTN_0137

Hypothetical protein

− 0.928404833

3.73274E−06

mglA

FTN_1290

Macrophage growth locus, protein A

− 0.926959218

6.24086E−07

–

FTN_1697

Galactose mutarotase

− 0.901042767

0.008192095

–

FTN_1148

Glycoprotease family protein

− 0.816650922

0.005012835

galP1

FTN_0687

Major facilitator superfamily galactose-proton symporter

− 0.746905316

5.94864E−05

–

FTN_1459

Short chain dehydrogenase

− 0.723695755

0.001285646

–

FTN_1254

Hypothetical protein

− 0.716291799

0.00237079

–

FTN_1266

ABC transporter membrane protein

− 0.66256701

0.001562237

–

FTN_0923

Hypothetical protein

− 0.654493997

0.002785307

yhbG

FTN_0902

ABC transporter, ATP-binding protein

− 0.652797305

3.32447E−05

rpsF

FTN_0951

30S ribosomal protein S6

− 0.641616628

5.78051E−05

yrbI

FTN_0905

3-Deoxy-d-manno-octulosonate 8-phosphate phosphatase

− 0.627622272

0.001032099

–

FTN_1547

Hypothetical protein

− 0.608477024

0.000859667

Upregulated proteins in ΔldcF

rimM

FTN_1561

Ribosome maturation factor rimM

0.626513088

0.000555064

apaH

FTN_0561

Diadenosine tetraphosphatase

0.629366731

0.000669224

–

FTN_0118

S49 family serine peptidase

0.635972422

0.006578849

–

FTN_1468

Putative deoxyribonucleotide triphosphate pyrophosphatase

0.640919668

0.000191944

–

FTN_0089

Allophanate hydrolase subunit 2

0.672742647

0.000997506

rnc

FTN_1463

Ribonuclease 3

0.681039745

0.001289497

–

FTN_0789

Putative rhodanese, sulfurtransferase

0.68404703

0.000345296

secF

FTN_1094

Preprotein translocase subunit SecF

0.695399198

3.15477E−05

murD

FTN_0542

UDP-N-acetylmuramoylalanine–d-glutamate ligase

0.715198106

5.10756E−05

xthA

FTN_0838

Exodeoxyribonuclease III

0.726407142

1.90678E−05

sun

FTN_1347

tRNA and rRNA cytosine-C5-methylases, sun protein

0.73058117

0.00042405

–

FTN_0872

Small conductance mechanosensitive ion channel (MscS) family protein

0.78091602

2.90828E−05

–

FTN_1387

Hypothetical protein

0.812379067

0.00883337

ispD

FTN_0623

2-C-methyl-d-erythritol 4-phosphate cytidylyltransferase

0.824072741

5.66929E−06

–

FTN_0041

Hypothetical protein

0.828287322

0.002571557

mltA

FTN_1286

Membrane-bound lytic murein transglycosylase

0.843953091

0.000666109

–

FTN_1080

Phosphosugar binding protein

0.857709173

0.000844453

–

FTN_1015

Isochorismatase family protein

0.860701266

0.000470586

pilW

FTN_0307

Type IV pilus assembly protein

0.903906623

0.004575204

–

FTN_1061

Acid phosphatase, HAD superfamily protein

0.951666713

0.001807004

pilV

FTN_0413

Type IV pili, pilus assembly protein

0.975215693

0.001866241

murQ

FTN_1504

N-acetylmuramic acid 6-phosphate etherase

0.994710363

1.2722E−06

tdh

FTN_0625

l-Threonine 3-dehydrogenase

1.02107175

2.99619E−05

ruvA

FTN_1025

Holliday junction ATP-dependent DNA helicase RuvA

1.125358669

5.65196E−07

–

FTN_1506

Hypothetical protein

1.20406212

0.000656496

putP

FTN_0299

Proline/Na + symporter

1.206589507

0.001401361

–

FTN_0452

Hypothetical protein

1.274923951

4.08167E−08

–

FTN_0006

Hypothetical protein

1.345660313

1.02878E−06

–

FTN_0004

Aspartate/glutamate transporter

1.352713527

0.003023321

–

FTN_0829

Hypothetical protein

1.454738617

6.98601E−07

–

FTN_1388

Oxidoreductase

1.515433578

0.000565317

–

FTN_1267

ABC transporter ATP-binding protein

1.74578111

3.84443E−09

lptC

FTN_0904

Lipopolysaccharide export ABC transporter periplasmic protein

1.999604273

1.63282E−05

rnpA

FTN_0075

Ribonuclease P protein component

2.366923256

0.000708316

–

FTN_0384

Hypothetical protein

2.702678582

0.002040018

–

FTN_0987

tRNA-dihydrouridine synthase

2.830069785

5.08771E−06

–

FTN_1386

Hypothetical protein

2.845246288

4.58158E−09

–

FTN_0722

l-lysine 2,3-aminomutase

3.467288507

1.01829E−10

–

FTN_1220

Lipopolysaccharide synthesis sugar transferase

3.613912551

0.000821341

recB

FTN_1357

ATP-dependent exoDNAse (exonuclease V) beta subunit

3.825585172

1.16584E−11