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Table 2 Differentially expressed virulence genes in vivo compared to in vitro. The RNA-seq data are compared with the microarray data of Staphylococcus aureus subsp. aureus USA300_FPR3757 (community-acquired methicillin-resistant) infected cutaneous abscesses in humans retrieved from Date et al. [6]

From: In vivo gene expression in a Staphylococcus aureus prosthetic joint infection characterized by RNA sequencing and metabolomics: a pilot study

SAU060112

USA300

Gene name

Product

Fold change

Number/100000 mapped mRNA reads

Fold change during human cutaneous abscesses

Infection

LB

Toxins

 SAU060112_40253

SAUSA300_2365

hlgA

Gamma-hemolysin component A

776

574

1

12.56

 SAU060112_40254

SAUSA300_2366

hlgC

Gamma-hemolysin component C

701

524

1

5.76

 SAU060112_20343

SAUSA300_0396

 

Superantigen-like protein

503

78

0

1.48

 SAU060112_40255

SAUSA300_2367

hlgB

Gamma-hemolysin component B

482

531

2

17.65

 SAU060112_50039

SAUSA300_1974

 

Uncharacterized leukocidin-like protein 1

376

453

2

9.72

 SAU060112_50038

SAUSA300_1975

 

Uncharacterized leukocidin-like protein 2

140

198

2

14.42

 SAU060112_20344

SAUSA300_0398

 

Toxin, beta-grasp domain protein. superantigen-like protein

128

29

0

1.65

 SAU060112_20345

-

 

Toxin, beta-grasp domain protein, superantigen-like protein

109

41

1

 

 SAU060112_20347

SAUSA300_0399

set

Exotoxin 3

104

23

0

1.1

 SAU060112_10176

SAUSA300_1058

hly

Alpha-hemolysin

91

136

2

2.08

 SAU060112_20348

SAUSA300_0401

set

Exotoxin 1

80

21

0

1.33

 SAU060112_20350

SAUSA300_0403

ssl7nm

Enterotoxin-like toxin

56

8

0

1.34

 SAU060112_110014

SAUSA300_1918

 

Truncated beta-hemolysin

36

2

0

7.84

 SAU060112_10172

SAUSA300_1061

 

Superantigen-like protein

21

9

1

4.93

 SAU060112_10173

SAUSA300_1060

 

Beta-grasp domain toxin protein, superantigen-like protein

17

9

1

2.64

 SAU060112_10457

-

entC

Enterotoxin type C-2

15

72

7

 

 SAU060112_10174

SAUSA300_1059

 

putative superantigen-like protein

11

10

1

2.35

 SAU060112_20351

SAUSA300_0404

 

Superantigen-like protein

9

6

1

1.39

 SAU060112_10456

SAUSA300_0800

sel

Extracellular enterotoxin L

3

5

2

1.13

Exoenzymes

 SAU060112_20156

SAUSA300_0224

coa

Staphylocoagulase

12

55

7

1.5

 SAU060112_40510

SAUSA300_2603

lip

Lipase 1

4

95

32

0.51

Adhesins

 SAU060112_110015

SAUSA300_1917

map

MHC analogous protein

458

2894

10

No data

 SAU060112_10448

SAUSA300_0774

emp

Extracellular matrix protein-binding protein emp

77

50

1

2.02

 SAU060112_40332

SAUSA300_2441

fnbA

Fibronectin-binding protein A

17

116

10

1.73

 SAU060112_40330

SAUSA300_2440

fnbB

Fibronectin-binding protein B

5

108

31

1.67

 SAU060112_10180

SAUSA300_1055

fib

Fibrinogen-binding protein

5

6

2

1.02

 SAU060112_70131

SAUSA300_1327

ebh

Extracellular matrix-binding protein ebh

3

28

14

1.08

Immune evasion

 SAU060112_110009

SAUSA300_1920

chp

Chemotaxis inhibitory protein

29

11

1

6.1

 SAU060112_10179

SAUSA300_1056

scn

Staphylococcal complement inhibitor

26

5

0

0.91

 SAU060112_40252

SAUSA300_2364

sbi

Immunoglobulin-binding protein sbi

15

230

22

1.9

 SAU060112_110010

SAUSA300_1919

scn

Staphylococcal complement inhibitor

3

27

15

1.55

 SAU060112_20047

SAUSA300_0113

spa

Immunoglobulin G-binding protein A

−6

63

618

1.48

 SAU060112_10182

SAUSA300_1053

flr

FPRL1 inhibitory protein

26

2

0

3.16

Exopolysaccharides

 SAU060112_20094

-

cap8J

Capsular polysaccharide synthesis enzyme Cap8J

−16

0

8

 

Secretion system

 SAU060112_20221

SAUSA300_0285

esxB

Virulence factor EsxB

−10

1

382

0.85

 SAU060112_20220

SAUSA300_0284

esaC

Protein EsaC

−9

1

9

0.83

 SAU060112_20216

SAUSA300_0280

essA

Protein EssA

−9

1

9

1.3

 SAU060112_20218

SAUSA300_0282

essB

Protein EssB

−8

1

12

0.86

 SAU060112_20215

SAUSA300_0279

esaA

Protein EsaA

−6

6

56

0.61

 SAU060112_20219

SAUSA300_0283

essC

Protein EssC

−5

10

81

0.79

Iron acquisition

 SAU060112_20052

SAUSA300_0118

sbnA

putative siderophore biosynthesis protein SbnA

27

14

1

7.02

 SAU060112_20056

SAUSA300_0122

sbnE

IucA/IucC family siderophore biosynthesis protein

20

34

3

1.99

 SAU060112_20055

SAUSA300_0121

sbnD

Transporter, major facilitator family protein

15

20

2

5.02

 SAU060112_20057

SAUSA300_0123

sbnF

Siderophore biosynthesis protein

14

44

5

2.9

 SAU060112_20053

SAUSA300_0119

sbnB

Ornithine cyclodeaminase

13

15

2

6.35

 SAU060112_20054

SAUSA300_0120

sbnC

Siderophore biosynthesis protein, IucA/IucC family

11

24

3

5.17

 SAU060112_20060

SAUSA300_0126

sbnI

conserved protein of unknown function

9

22

4

4.25

 SAU060112_20059

SAUSA300_0125

sbnH

Conserved protein of unknown function

7

33

8

4.33

 SAU060112_20058

SAUSA300_0124

sbnG

Conserved protein of unknown function

4

14

5

4

Virulence regulators

 SAU060112_110071

SAUSA300_1866

vraS

Sensor protein VraS

28

275

15

1.14

 SAU060112_10560

SAUSA300_0691

saeR

Response regulator SaeR

19

309

24

3.72

 SAU060112_110072

SAUSA300_1865

vraR

Response regulator protein VraR

14

141

15

0.63

 SAU060112_10561

SAUSA300_0690

saeS

Histidine protein kinase SaeS

8

394

75

2.53

 SAU060112_20048

SAUSA300_0114

sarS

HTH-type transcriptional regulator SarS

−13

1

18

0.35