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Table 4 Structure-related proteins identified by dMS and SC.

From: A label-free differential quantitative mass spectrometry method for the characterization and identification of protein changes during citrus fruit development

   

Stage II (55 mm) vs. early stage II (35 mm)

Stage III (80 mm) vs. Stage II (55 mm)

   

dMS

SC

dMS

SC

Annotation

iCitrus ID

Blast Hit TAIR ID

Peptides

Ratio

Bayes Factor

Fold Change

Direction*

Peptides

Ratio

Bayes Factor

Fold Change

Direction*

TUB1 (tubulin beta-1)

33157

AT1G75780

4

0.024

--

--

--

2

0.06

--

--

--

TUA3 (tubulin alpha-3)

46363

AT5G19770

4

0.07

--

--

--

--

--

--

--

--

TUA4 (tubulin alpha-4)

22742

AT1G04820

10

0.025

24.68

2.83

-1

  

1473619

13.49

-1

TUA4 (tubulin alpha-4)

28975

AT1G04820

10

0.025

--

--

--

4

0.16

--

--

--

TUA4 (tubulin alpha-4)

37760

AT1G04820

8

0.026

884.12

10.19

-1

3

0.7

0.6

1.4

0

TUB5 (tubulin beta-5)

30386

AT1G20010

9

0.02

17.65

4.6

-1

4

0.41

527

9.15

-1

TUB5 (tubulin beta-5)

32879

AT1G20010

9

0.04

3125

46.15

-1

--

--

--

--

--

TUB5 (tubulin beta-5)

50323

AT1G20010

10

0.02

27.89

14.3

-1

3

0.4

16293

33.34

-1

TUB5 (tubulin beta-5)

51971

AT1G20010

10

0.025

537

26.95

-1

4

0.39

12048

32.23

-1

TUB5 (tubulin beta-5)

53023

AT1G20010

9

0.033

3784

49.2

-1

--

--

--

--

--

TUA6 (tubulin alpha-6)

2232

AT4G14960

7

0.044

--

--

--

--

--

--

--

--

TUA6 (tubulin alpha-6)

48045

AT4G14960

4

0.025

--

--

--

2

21.7

--

--

--

TUB6 (tubulin beta-6)

54455

AT5G12250

6

0.027

--

--

--

 

2.18

--

--

--

TUB7 (tubulin beta-7)

54189

AT2G29550

2

0.6

--

--

--

2

2.19

--

--

--

TUB8 (tubulin beta-8)

55174

AT5G23860

5

0.022

--

--

--

3

45.85

--

--

--

ACT1 (actin 1)

45172

AT2G37620

3

0.3

--

--

--

3

22.49

--

--

--

ACT7 (actin 7)

3401

AT5G09810

6

0.025

42.61

2.24

-1

--

--

--

--

--

ACT7 (actin 7)

31765

AT5G09810

6

0.22

--

--

--

5

17.50

--

--

--

ACT8 (actin 8)

57479

AT1G49240

13

0.04

20.5

2.12

-1

8

21.93

20.36

2.12

1

ACT11 (actin 11)

51444

AT3G12110

4

0.26

--

--

--

3

27.16

--

--

--

CAM5 (Calmodulin 5)

18478

AT2G27030

--

--

7135

1.85

-1

--

--

32767

2.69

-1

CAM5 (Calmodulin 5)

51416

AT2G27030

7

0.15

--

--

--

--

--

--

--

--

KIS (KIESEL)

26013

AT2G30410

--

--

51.78

4.89

-1

--

--

48.8

8.36

-1

VLN3 (VILLIN 3)

11096

AT3G57410

--

--

1.19

3.00

0

--

--

1.55

1.74

0

microtubule associated protein (MAP65/ASE1)

38803

AT4G26760

4

0.03

95.54

28.3

-1

--

--

135.6

13.6

-1

PFN1/PRF1 (PROFILIN 1)

4145

AT2G19760

2

1.36

--

--

--

2

15.81

0.80

1.14

0

PFN3/PRF3 (PROFILIN 3)

23065

AT5G56600

3

1.47

0.85

1.4

0

2

15.81

1.4

3.8

0

PRF5 (PROFILIN5)

5851

AT2G19770

--

--

0.9

1.34

0

--

--

0.6

1.03

0

ADF4 actin depolymerizing

7407

AT5G59890

--

--

6.8

5.2

0

--

--

28.89

10.4

-1

  1. * The column "direction" under spectral counting measurement represent expression direction, 1 = up-regulated, 0 = no change, -1 = down-regulated.
  2. Proteins identified by dMS were considered to be up-regulated when expression fold > 2, not changed when 0.5 < fold < 2 and down-regulated when fold change was < 2. For spectral counting Bayes factor of > 10 was used for significance difference.