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Table 3 DEGs between GTB/ST8 and GTS/ST398 strains

From: Genomic and transcriptomic comparison between Staphylococcus aureus strains associated with high and low within herd prevalence of intra-mammary infection

LocusTag SAOUHSC

Function

Protein Description

padj

log2 FC

GTB/ST8

GTS/ST398

_01451

1

catalyzes the formation of 2-oxobutanoate from L-threonine; catabolic

1.28E-56

−5.35

_01450

1

Amino acid transporters

3.35E-52

−5.25

_01452

1

alanine dehydrogenase

1.34E-50

−5.16

_01448

1

Permeases of the major facilitator superfamily

1.82E-41

−5.16

_02969

1

catalyzes the degradation of arginine to citruline and ammonia

3.51E-22

−4.34

_02968

1

catalyzes the formation of ornithine and carbamylphosphate from citrulline in the arginine catabolic pathway

2.42E-15

−3.62

_00108

1

Zinc peptidase

8.34E-11

−6.03

_02967

1

arginine/ornithine antiporter, putative

2.00E-09

−2.65

_01803

1

Gamma-aminobutyrate permease and related permeases

2.86E-08

2.41

_02767

1

peptide ABC transporter, peptide-binding protein, putative

3.75E-08

−2.17

_02435

1

Permeases of the major facilitator superfamily

2.63E-07

−2.42

_01307

1

Threonine aldolase

1.95E-06

−3.19

_02766

1

peptide ABC transporter, permease protein, putative

3.06E-05

−1.95

_02763

1

peptide ABC transporter, ATP-binding protein, putative

5.33E-05

−1.97

_01825

1

Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes

5.72E-05

1.95

_01320

1

catalyzes the formation of L-aspartate 4-semialdehyde from L-homoserine

5.97E-05

−1.71

_00076

1

ornithine cyclodeaminase, putative

6.44E-05

−2.70

_01833

1

catalyzes the formation of 3-phosphonooxypyruvate from 3-phospho-D-glycerate in serine biosynthesis;

7.00E-05

−1.77

_02740

1

drug transporter, putative

0.000142

1.65

_02697

1

amino acid ABC transporter, ATP-binding protein, putative

0.000231

1.57

_02825

1

Lactoylglutathione lyase and related lyases

0.000256

−2.77

_00733

1

catalyzes the formation of L-histidinol phosphate in histidine biosynthesis

0.000257

−1.78

_01321

1

catalyzes the formation of L-threonine from O-phospho-L-homoserine

0.000283

−1.60

_00075

1

siderophore biosynthesis protein SbnA

0.00032

−2.62

_02559

1

ureases

0.00039

−2.37

_01991

1

ABC transporter, permease protein, putative

0.00047

1.83

_01991

1

ABC transporter, permease protein, putative

0.00047

1.83

_02765

1

nickel ABC transporter, permease protein, putative

0.000471

−1.75

_02433

1

Predicted amino acid racemase

0.000512

−1.60

_02764

1

peptide ABC transporter, ATP-binding protein, putative

0.000687

−1.70

_02561

1

ureases

0.000724

−1.65

_00421

1

Cysteine synthase

0.000785

−1.60

_01319

1

catalyzes the formation of 4-phospho-L-aspartate from L-aspartate and ATP; lysine and threonine sensitive

0.000879

−2.01

_00740

1

Permeases of the drug/metabolite transporter (DMT) superfamily

0.001181

1.71

_02839

1

L-serine dehydratase, iron-sulfur-dependent, alpha subunit

0.001587

−1.51

_01395

1

aspartate-semialdehyde dehydrogenase

0.001826

−1.64

_00703

1

quinolone resistance norA protein, putative

0.002597

1.67

_02558

1

UreA, with UreB and UreC

0.005062

−2.29

_01990

1

amino acid ABC transporter, ATP-binding protein, putative

0.005951

1.50

_02932

1

catalyzes the oxidation of choline to betaine aldehyde and betain aldehyde to glycine betaine

0.006268

−1.53

_01394

1

catalyzes the formation of 4-phospho-L-aspartate from L-aspartate and ATP, in Bacillus, lysine sensitive; regulated by response to starvation,

0.006704

−1.68

_00170

1

peptide/nickel transport system substrate-binding protein

0.008873

−1.55

_02972

2

immunodominant antigen B IsaB

6.70E-24

5.79

_01079

2

neurofilament protein

7.69E-23

−4.51

_02127

2

staphopain thiol proteinase

4.50E-18

−3.61

_01933

2

type I restriction-modification system, M subunit

5.20E-18

−5.10

_02708

2

gamma-hemolysin h-gamma-ii subunit, putative

4.61E-17

−3.60

_01115

2

staphylococcal complement inhibitor SCIN

3.05E-15

5.06

_01135

2

anti protein (phenol soluble modulin)

2.18E-13

−3.07

_01964

2

signal transduction protein TRAP

3.38E-13

3.35

_00668

2

ABC transporter permease, putative

3.60E-13

3.99

_02420

2

multidrug resistance protein SepA

2.58E-11

3.99

_02963

2

clumping factor B, putative

2.92E-11

2.75

_02419

2

methicillin resistance protein FmtB

2.69E-10

5.00

_00256

2

staphyloxanthin biosynthesis protein, secretory antigen precursor SsaA

1.48E-09

−2.69

_02802

2

fibronectin binding protein B, putative

3.09E-09

2.32

_02709

2

leukocidin s subunit precursor, putative

1.30E-08

−2.45

_02710

2

leukocidin f subunit precursor

1.50E-08

−2.43

_01084

2

Heme ABC transporter

7.71E-08

−2.72

_01081

2

heme transporter IsdA

2.63E-07

−2.11

_01136

2

anti protein (phenol soluble modulin)

3.38E-07

−2.57

_01121

2

alpha-hemolysin precursor

4.12E-07

−2.07

_02696

2

fmhA protein, putative

4.40E-07

−2.29

_01082

2

heme transporter IsdC

1.40E-06

−2.81

_00354

2

putative enterotoxin

1.43E-05

3.22

_02740

2

drug transporter, putative

0.000142

1.65

_02129

2

staphostatin A

0.000392

−2.16

_00395

2

homology to known superantigen proteins

0.000545

2.81

_02718

2

ABC Transporters

0.000631

−2.09

_01932

2

type I restriction-modification enzyme, S subunit, EcoA family, putative

0.000692

2.06

_00998

2

fmt protein, putative

0.00072

1.59

_00261

2

type VII secretion protein EssB

0.000785

−1.84

_00426

2

ABC transporter, substrate-binding protein, putative

0.001147

−1.74

_00397

2

type I restriction-modification system, M subunit

0.002795

1.56

_02719

2

methicillin resistance protein FmtB

0.00383

−2.08

_00249

2

ABC-2 type transport system ATP-binding protein

0.005426

−1.83

_01448

3

Permeases of the major facilitator superfamily

1.82E-41

−5.16

_02420

3

Permeases of the major facilitator superfamily

2.58E-11

3.99

_01085

3

multidrug resistance protein SepA

1.17E-08

−3.16

_02687

3

ABC-type Fe3 + -hydroxamate transport system, periplasmic component

8.11E-08

2.50

_02435

3

formate/nitrite transporter, putative

2.63E-07

−2.42

_01087

3

Permeases of the major facilitator superfamily

9.18E-07

−3.16

_01086

3

iron compound ABC transporter, permease protein

9.72E-07

−2.74

_00105

3

iron compound ABC transporter, permease protein, putative

1.76E-06

−2.81

_00074

3

phosphonate ABC transporter, substrate-binding protein, putative

2.13E-06

−1.95

_02864

3

periplasmic binding protein, putative

1.36E-05

−2.13

_02766

3

ferrous iron transport protein B

3.06E-05

−1.95

_02763

3

peptide ABC transporter, permease protein, putative

5.33E-05

−1.97

_00423

3

peptide ABC transporter, ATP-binding protein, putative

0.000135

−2.30

_02740

3

ABC-type metal ion transport system, ATPase component

0.000142

1.65

_01893

3

drug transporter, putative

0.000208

−2.53

_02765

3

arsenical pump membrane protein subfamily

0.000471

−1.75

_00424

3

nickel ABC transporter, permease protein, putative

0.000582

−2.47

_02764

3

ABC transporter, permease protein, putative

0.000687

−1.70

_00325

3

peptide ABC transporter, ATP-binding protein, putative

0.000864

−2.44

_00104

3

Predicted periplasmic lipoprotein involved in iron transport

0.001514

−2.10

_00703

3

amino acid ABC transporter, ATP-binding protein, putative

0.002597

1.67

_02865

3

quinolone resistance norA protein, putative

0.004758

−2.19

_00102

3

ferrous iron transport protein A

0.00479

−1.91

_00103

3

phosphonates ABC transporter, permease protein CC0363, putative

0.008185

−1.78

  1. For each Locus Tag, Function: 1) Amino acid transport and metabolism, 2) Defence mechanisms, and 3) Inorganic ion transport and metabolism; Protein Description, P-value adjusted (padj), log2FoldChange (log2FC) and (↑) up and (↓) down-regulation were reported