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Table 2 Differentially expressed proteins in stacked transgenic maize variety versus controls (single event transgenic maize variety with the same genetic background) and non-genetically modified counterpart and a landrace by 2D-DIGE analysis

From: Effect of stacking insecticidal cry and herbicide tolerance epsps transgenes on transgenic maize proteome

Match ID

Genebank ID

Protein name

Mascot score

Sequence coverage (%)

Peptides

Theor. mass (kDa)

Theor. pI (pH)

Exp. mass (kDa)

Exp. pI (pH)

Fold change (ANOVA P  < 0.05)

Biological process (KEGG Orthology)

55

gi|11467199

ATP synthase CF1 beta subunit [Zea mays]

2248

72

62

54

5.31

56

5.80

Conv, RR, RRxBt > Bt > Land

Metabolism (energy metabolism)

155

gi|413948212

hypothetical protein ZEAMMB73_661450 [Zea mays]

723

44

21

46

5.62

44

5.96

Land > Conv, RR, Bt, RRxBt

Metabolism (energy metabolism)

156

gi|413939324

glutamate-oxaloacetate transaminase2 [Zea mays]

1201

61

43

50

8.43

44

6.12

Land > Bt > Conv, RR, RRxBt

Metabolism (carbohydrate metabolism; biosynthesis of amino acids)

231

gi|195622374

fructose-bisphosphate aldolase [Zea mays]

798

40

19

40

5.39

37

5.50

Land > Conv, RR, Bt, RRxBt

Metabolism (carbohydrate metabolism; biosynthesis of amino acids)

406

gi|414591286

APx2-cytosolic ascorbate peroxidase [Zea mays]

1036

59

20

31

5.77

27

5.78

Conv, RR, Bt, RRxBt > Land

Metabolism (carbohydrate metabolism; biosynthesis of amino acids)

426

gi|226504576

APx1 - cytosolic ascorbate peroxidase [Zea mays]

772

54

18

27

5.65

26

5.74

Bt > Conv > RRxBt > RR > Land

Metabolism (carbohydrate metabolism; biosynthesis of amino acids)

171

gi|414586172

3-isopropylmalate dehydrogenase [Zea mays]

1042

44

23

43

5.62

42

5.18

Conv > Bt > Land> RR > RRxBt

Metabolism (biosynthesis of amino acids)

175

gi|195645514

acyl-desaturase [Zea mays]

441

24

8

45

6.61

42

6.15

Bt > Conv, RR, RRxBt > Land

Metabolism (fatty acid metabolism)

177

gi|308081433

coproporphyrinogen III oxidase [Zea mays]

321

24

9

47

7.23

42

6.12

Conv, Bt > RR, RRxBt > Land

Metabolism (cofactors and vitamins metabolism)

762

gi|226499080

dihydroflavonol-4-reductase [Zea mays]

534

36

14

35

5.43

33

5.83

RR > Conv, Bt, RRxBt > Land

Metabolism (biosynthesis of other secondary metabolites)

64

gi|226492645

vacuolar ATP synthase subunit B [Zea mays]

711

45

17

54

5.07

54

5.19

Bt, RRxBt > Conv, Land, RR

Metabolism (energy metabolism); Cellular Processes (transport and catabolism; phagosome)

105

gi|162458207

enolase 1 [Zea mays]

1604

67

29

48

5.20

49

5.60

RR > Bt > Conv > RRxBt > Land

Metabolism (carbohydrate metabolism; biosynthesis of amino acids); Genetic Information Processing (Folding, sorting and degradation); Environmental Information Processing (signal transduction)

437

gi|413951084

hypothetical protein ZEAMMB73_536198 [Zea mays]

416

32

9

28

5.14

26

5.39

Land > Conv > Bt > RR > RRxBt

Metabolism (metabolism of cofactors and vitamins); Genetic Information Processing (transfer RNA biogenesis)

714

gi|195619804

enolase [Zea mays]

663

40

16

48

5.59

56

6.05

Land > Conv, Bt, RRxBt > RR

Metabolism (carbohydrate metabolism; biosynthesis of amino acids); Genetic Information Processing (Folding, sorting and degradation); Environmental Information Processing (signal transduction)

137

gi|226505740

DIMBOA UDP-glucosyltransferase BX9 [Zea mays]

1197

49

23

50

5.15

45

5.43

RR > Conv, RRxBt > Bt > Land

Metabolism (biosynthesis of other secondary metabolites); Genetic Information Processing (folding, sorting and degradation)

415

gi|414591366

6-phosphogluconolactonase isoform 1 [Zea mays]

333

28

7

35

7.71

26

5.08

Conv, RR, Bt, RRxBt > Land

Metabolism (carbohydrate metabolism; biosynthesis of amino acids)

421

gi|195611274

14-3-3-like protein [Zea mays]

858

67

23

29

4.82

26

4.93

Bt, RRxBt > Conv, Land, RR

Environmental Information Processing (signal transduction); Cellular Processes (cell growth and death); Exosome (exosomal protein)

572

gi|226504688

uncharacterized protein LOC100272933 precursor [Zea mays]

202

13

9

22

6.02

19

6.62

Bt, RRxBt only

Metabolism (carbohydrate metabolism)

345

gi|195619262

gibberellin receptor GID1L2 [Zea mays]

244

20

5

33

4.93

31

5.06

Bt, RRxBt only

Environmental Information Processing (signal transduction)

545

gi|195626524

2-cys peroxiredoxin BAS1 [Zea mays]

160

23

4

28

5.81

21

4.56

Bt, RRxBt only

Cellular Processes (transport and catabolism)

38

gi|226493235

LOC100281701 [Zea mays]

1110

41

17

61

5.20

59

5.15

RR only

Genetic Information Processing (folding, sorting and degradation)

750

gi|226530174

ankyrin repeat domain-containing protein 2 [Zea mays]

619

57

16

38

4.57

36

4.66

RR only

Genetic Information Processing (folding, sorting and degradation)

  1. Proteins were considered differentially modulated at statistical significant difference in normalized volume in stacked vs. single GM events and control samples at ANOVA P < 0.05. Proteins were classified in functional categories based on the ExPASy, KEGG Orthology databases and on careful literature evaluation. The Table reports spot number (Match ID), accession number and protein name, together with Mascot score, sequence coverage, number of matched peptides, theoretical and experimental molecular weight (MW), isoelectric point (pI) and fold change. Abbreviations for each plant variety are provided within ‘Methods’ section.