Species & Dataset

Experiment

Foliar Ozone Injury

  • Glycine max

  • Common name: Soybean

  • Family: Fabaceae

  • Cultivar: Glycine max L.

  • Tissue: Third trifoliate

  • Ozone concentration: Ambient ozone (12.5 nL L−1)                   Elevated ozone (151.2 nL L−1 ± 0.72 nL L−1)

  • Ozone exposure: Throughout the  experiment (8 hours/day)

  • Sampling time: 11-13 days after planting

  • Platform: Hiseq 2000 (Illumina)

  • Year of study: 2015

  • Location: Urbana, USA

Glycine INJURY.jpeg

Title: A comparative analysis of transcriptomic, biochemical, and physiological responses to elevated ozone identifies species-specific mechanisms of resilience in legume crops

 

Summary: Current concentrations of tropospheric ozone ([O3]) pollution negatively impact plant metabolism, which can result in decreased crop yields. Interspecific variation in the physiological response of plants to elevated [O3] exists; however, the underlying cellular responses explaining species-specific differences are largely unknown. Here, a physiological screen has been performed on multiple varieties of legume species. Three varieties of garden pea (Pisum sativum L.) were resilient to elevated [O3]. Garden pea showed no change in photosynthetic capacity or leaf longevity when exposed to elevated [O3], in contrast to varieties of soybean (Glycine max (L.) Merr.) and common bean (Phaseolus vulgaris L.). Global transcriptomic and targeted biochemical analyses were then done to examine the mechanistic differences in legume responses to elevated [O3]. In all three species, there was an O3-mediated reduction in specific leaf weight and total non-structural carbohydrate content, as well as increased abundance of respiration-related transcripts. Differences specific to garden pea included a pronounced increase in the abundance of GLUTATHIONE REDUCTASE transcript, as well as greater contents of foliar glutathione, apoplastic ascorbate, and sucrose in elevated [O3]. These results suggest that garden pea may have had greater capacity for detoxification, which prevented net losses in CO2 fixation in an elevated [O3] environment.

 

Data repository: NCBI [GenBank: SRP009826]

Reference: Yendrek, C.R., Koester, R.P. and Ainsworth, E.A., 2015. A comparative analysis of transcriptomic, biochemical, and physiological responses to elevated ozone identifies species-specific mechanisms of resilience in legume crops. Journal of experimental botany, 66(22), pp.7101-7112.

Gene id
log2FC
Ambient RPKM
Elevated RPKM
Gene Annotation
Glyma09g33650.1
0.63
36.48
57.62
Gluconeogenesis / glyoxylate cycle: PEPCK
Glyma07g38390.2
-0.62
94.03
62.58
Gluconeogenesis / glyoxylate cycle: PYRUVATE DIKINASE
Glyma18g53700.1
0.74
2.52
4.37
Pentose phosphate pathway, non-reductive: TRANSALDOLASE
Glyma19g43310.1
0.83
5.22
9.6
Pentose phosphate pathway, non-reductive: RIBOSE 5-PHOSPHATE ISOMERASE
Glyma08g39510.2
0.86
10.91
20.63
CARBONIC ANHYDRASE
Glyma19g01050.1
-1.21
7.27
3.17
CARBONIC ANHYDRASE
Glyma19g01050.10
-0.84
6.97
3.84
CARBONIC ANHYDRASE
Glyma04g27580.1
0.58
14.57
22.32
NADH-DEHYDROGENASE [complex I]
Glyma03g37250.1
0.54
22.63
33.63
NADH-DEHYDROGENASE [localization unclear]
Glyma04g14250.1
2.11
14.99
66.56
NADH-DEHYDROGENASE [localization unclear]
Glyma06g47560.1
1.24
4.32
10.64
NADH-DEHYDROGENASE [localization unclear]
Glyma06g47560.2
1.98
1.27
5.45
NADH-DEHYDROGENASE [localization unclear]
Glyma0776s50.2
-0.56
35.03
24.2
NADH-DEHYDROGENASE [localization unclear]
Glyma08g41251.1
-1.53
5.94
2.21
NADH-DEHYDROGENASE [localization unclear]
Glyma1000s00350.1
-0.9
17.27
9.25
NADH-DEHYDROGENASE [localization unclear]
Glyma1246s00210.1
-1.25
3.49
1.48
NADH-DEHYDROGENASE [localization unclear]
Glyma15g21361.1
-0.91
24.11
13.07
NADH-DEHYDROGENASE [localization unclear]
Glyma15g21381.1
-1.01
9.53
4.87
NADH-DEHYDROGENASE [localization unclear]
Glyma17g23830.1
-0.65
12.87
8.29
NADH-DEHYDROGENASE [localization unclear]
Glyma02g39280.2
1.21
3.66
8.62
NADH-DEHYDROGENASE [type II, internal matrix]
Glyma07g31050.1
-0.74
4.22
2.64
NADH-DEHYDROGENASE [type II, internal matrix]
Glyma06g42140.1
0.8
16.41
29.05
Electron transfer flavoprotein
Glyma10g33110.1
0.78
14.93
26.25
Electron transfer flavoprotein
Glyma12g16291.1
2.04
0.49
2.07
Electron transfer flavoprotein
Glyma04g14800.1
0.71
37.69
63.25
ALTERNATIVE OXIDASE
Glyma03g23306.1
-1.03
3.15
1.49
CYTOCHROME C OXIDASE
Glyma12g36106.1
-1.02
93.78
47.05
ATPase
Glyma17g23821.1
-0.9
17.34
9.64
ATPase
Glyma2269s00200.1
-0.79
9.77
5.63
ATPase
Glyma05g04520.2
1.21
15.62
37.04
Fermentation: LACTATE DEHYDROGENASE
Glyma09g08150.1
0.53
25.75
37.9
Fermentation: LACTATE DEHYDROGENASE
Glyma07g18570.1
-0.79
13.51
7.97
Fermentation: PYRUVATE DECARBOXYLASE
Glyma08g18830.1
-7.35
9.93
0.07
Fermentation: PYRUVATE DECARBOXYLASE
Glyma13g30490.1
-1.65
1.2
0.37
Fermentation: PYRUVATE DECARBOXYLASE
Glyma14g38860.1
0.8
16.6
29.61
Fermentation: PYRUVATE DECARBOXYLASE
Glyma18g43460.1
-0.6
72.13
48.49
Fermentation: PYRUVATE DECARBOXYLASE
Glyma01g03820.1
1.58
23.8
72.95
Fermentation: ALDEHYDE DEHYDROGENASE
Glyma02g03870.1
1.23
22.75
54.5
Fermentation: ALDEHYDE DEHYDROGENASE
Glyma02g05760.1
-0.75
31.34
19.04
Fermentation: ALDEHYDE DEHYDROGENASE
Glyma04g35220.2
1.54
0.76
2.34
Fermentation: ALDEHYDE DEHYDROGENASE
Glyma07g09630.1
4.13
0.47
9.08
Fermentation: ALDEHYDE DEHYDROGENASE
Glyma09g08150.1
0.53
25.75
37.9
Fermentation: ALDEHYDE DEHYDROGENASE
Glyma09g32170.1
-0.7
28.58
18.06
Fermentation: ALDEHYDE DEHYDROGENASE
Glyma09g32180.1
1.8
7.15
25.54
Fermentation: ALDEHYDE DEHYDROGENASE
Glyma12g06130.1
-1.49
6.05
2.13
Fermentation: ALDEHYDE DEHYDROGENASE
Glyma15g03910.1
-0.96
32.57
16.97
Fermentation: ALDEHYDE DEHYDROGENASE
Glyma16g24420.1
-0.6
17.66
11.85
Fermentation: ALDEHYDE DEHYDROGENASE
Glyma18g18910.1
1.11
11.53
25.35
Fermentation: ALDEHYDE DEHYDROGENASE
Glyma19g01390.1
1.01
6.4
13.06
Fermentation: ALDEHYDE DEHYDROGENASE
Glyma02g45790.1
0.58
15.81
24.41
Gluconeogenesis / glyoxylate cycle: CITRATE SYNTHASE
Glyma17g13730.1
1.21
5.27
12.64
Gluconeogenesis / glyoxylate cycle: CITRATE SYNTHASE
Glyma11g04720.1
0.56
33.47
50.44
Gluconeogenesis / glyoxylate cycle: MALATE DEHYDROGENASE
Glyma01g02330.1
-0.55
14.49
10.1
Gluconeogenesis / glyoxylate cycle: PEPCK
Glyma04g09510.1
0.86
15.68
29.01
Gluconeogenesis / glyoxylate cycle: PEPCK
Glyma11g35990.2
1.04
0.78
1.34
?-GLUTAMYL TRANSPEPTIDASE
Glyma18g02450.1
-0.9
3.51
1.88
?-GLUTAMYL TRANSPEPTIDASE
Glyma08g01750.3
0.02
37.83
39.22
GLUTAMATE-CYSTEINE LIGASE
Glyma03g40050.1
-0.41
22.54
17.31
GLUTATHIONE SYNTHETASE
Glyma19g42600.1
0.03
9.99
10.32
GLUTATHIONE SYNTHETASE
Glyma06g03560.2
0.48
22.98
32.62
GLUCOSE-6-PHOSPHATE ISOMERASE [cytoplasm]
Glyma09g01050.1
-1.35
1.22
0.52
PHOSPHOFRUCTOKINASE [cytoplasm]
Glyma15g11890.1
-1.48
2
0.69
PHOSPHOFRUCTOKINASE [cytoplasm]
Glyma03g22790.1
-1.07
12.99
6.29
GLYCERALDEHYDE 3-PHOSPHATE DEHYDROGENASE [cytoplasm]
Glyma11g37360.1
0.66
31.46
50.85
GLYCERALDEHYDE 3-PHOSPHATE DEHYDROGENASE [cytoplasm]
Glyma20g37486.1
1.19
24.86
58.38
PHOSPHOGLYCERATE MUTASE [cytoplasm]
Glyma18g22780.1
0.72
6.95
12.01
ENOLASE [cytoplasm]
Glyma06g33380.1
-0.73
32.74
20.07
PHOSPHO-ENOL-PYRUVATE CARBOXYLASE [cytoplasm]
Glyma12g33820.1
-0.58
85.11
58.13
PHOSPHO-ENOL-PYRUVATE CARBOXYLASE [cytoplasm]
Glyma20g02220.1
-0.59
104.19
70.69
PHOSPHOGLUCOMUTASE [plastid]
Glyma02g37590.1
-0.47
49.4
36.47
GLUCOSE-6-PHOSPHATE ISOMERASE [cytoplasm]
Glyma01g03040.1
1.84
0.54
1.93
PHOSPHOFRUCTOKINASE [plastid]
Glyma08g03570.1
0.87
4.3
8.21
PHOSPHOFRUCTOKINASE [plastid]
Glyma08g21370.1
-0.82
26.2
15.06
PHOSPHOFRUCTOKINASE [plastid]
Glyma09g23150.1
-0.69
33.17
21.11
PYRUVATE KINASE [plastid]
Glyma16g28980.1
-4.43
5.07
0.24
PYRUVATE KINASE [plastid]
Glyma11g19400.1
-0.99
31.91
16.3
PHOSPHOGLYCERATE MUTASE [localization unclear]
Glyma12g09100.1
-0.54
74.65
52.35
PHOSPHOGLYCERATE MUTASE [localization unclear]
Glyma13g01970.1
-5.87
5.09
0.08
PHOSPHOGLYCERATE MUTASE [localization unclear]
Glyma20g37486.1
1.19
24.86
58.38
PHOSPHOGLYCERATE MUTASE [localization unclear]
Glyma05g27260.1
-0.83
2.72
1.54
PYRUVATE DEHYDROGENASE [E1]
Glyma14g10550.1
-0.67
34.09
21.9
PYRUVATE DEHYDROGENASE [E1]
Glyma01g20720.1
-3.93
4.6
0.31
PYRUVATE DEHYDROGENASE [E2]
Glyma07g37540.1
0.71
6.27
10.47
PYRUVATE DEHYDROGENASE [E2]
Glyma07g37050.2
-1.89
1.47
0.41
PYRUVATE DEHYDROGENASE [E3]
Glyma15g15310.1
-1
18.64
9.45
PYRUVATE DEHYDROGENASE [E3]
Glyma17g03560.1
-0.71
8.09
5.14
PYRUVATE DEHYDROGENASE [E3]
Glyma12g10580.1
0.57
6.09
9.24
ACONITASE
Glyma13g38480.1
0.72
6.34
10.74
ACONITASE
Glyma20g34160.1
1.29
1.77
4.56
ACONITASE
Glyma10g43610.2
2.39
1.41
7.62
2-OXOGLUTARATE DEHYDROGENASE
Glyma10g02040.3
1.01
3.01
6.13
FUMARASE
Glyma01g01180.1
0.96
4.85
9.56
MALATE OXIDOREDUCTASE
Glyma08g21530.1
-1.01
5.89
3.01
MALATE OXIDOREDUCTASE
Glyma16g08460.1
0.49
15.13
21.8
MALATE OXIDOREDUCTASE
Glyma18g46340.1
0.84
1.67
3.07
MALATE OXIDOREDUCTASE
Glyma01g03530.1
0.57
39.24
59.64
ATP-CITRATE LYASE
Glyma02g04120.1
0.76
3.32
5.94
ATP-CITRATE LYASE
Glyma09g04000.2
-1.19
1.08
0.47
ATP-CITRATE LYASE
Glyma15g15010.1
-1.22
1.91
0.76
ATP-CITRATE LYASE
Glyma08g17450.1
0.85
4.45
8.22
Misc. organic acid transformatons
Glyma01g03720.3
-0.82
6.77
3.79
CARBONIC ANHYDRASE
Glyma02g37710.1
1.04
1.41
2.98
CARBONIC ANHYDRASE
Glyma02g37710.2
1.66
0.61
2.05
CARBONIC ANHYDRASE
Glyma06g19400.1
1.63
2.31
6.95
CARBONIC ANHYDRASE
Glyma05g33470.1
2.93
3.37
25.93
ASCORBATE OXIDASE [cell wall]
Glyma13g03650.1
-0.31
18.32
15.14
ASCORBATE OXIDASE [cell wall]
Glyma20g12150.1
-0.99
21.01
10.7
ASCORBATE OXIDASE [cell wall]
Glyma11g15680.5
-0.26
78.73
67
ASCORBATE PEROXIDASE 1 [cytoplasm]
Glyma12g07780.3
0.068
192.14
205.72
ASCORBATE PEROXIDASE 1 [cytoplasm]
Glyma11g08320.1
-2.02
6.41
1.56
ASCORBATE PEROXIDASE 3 [microsome]
Glyma11g11460.1
0.1
93.79
102.49
ASCORBATE PEROXIDASE 3 [microsome]
Glyma12g03610.1
0.42
8.33
11.32
ASCORBATE PEROXIDASE 3 [microsome]
Glyma14g35440.2
0.35
1.5
1.97
ASCORBATE PEROXIDASE 4 [chloroplast]
Glyma06g07180.1
-0.27
4.5
3.84
ASCORBATE PEROXIDASE 6 [cytoplasm]
Glyma04g42720.2
0.33
0.84
1.04
ASCORBATE PEROXIDASE [thylakoid]
Glyma06g12020.1
-0.13
29.81
27.82
ASCORBATE PEROXIDASE [thylakoid]
Glyma04g01920.1
0.21
14.93
17.6
CATALASE 2
Glyma04g01920.2
0.18
2.13
2.4
CATALASE 2
Glyma06g02040.4
-0.24
2.16
1.96
CATALASE 2
Glyma14g39810.1
0.33
74.56
95.98
CATALASE 2
Glyma17g38140.1
-0.01
92.79
93.94
CATALASE 2
Glyma10g43730.1
-0.37
19.37
15.51
DEHYDROASCORBATE REDUCTASE 2
Glyma20g38440.1
-0.42
63.15
48.31
DEHYDROASCORBATE REDUCTASE 2
Glyma11g33700.3
0.01
23.53
24.15
DEHYDROASCORBATE REDUCTASE 3 [chloroplast]
Glyma18g04510.1
-0.09
71.68
69.03
DEHYDROASCORBATE REDUCTASE 3 [chloroplast]
Glyma05g34490.5
0.35
4.05
5.34
GLUTATHIONE PEROXIDASE 3
Glyma05g34490.6
0.87
1.64
3.2
GLUTATHIONE PEROXIDASE 3
Glyma08g05200.4
0.06
10.48
11.06
GLUTATHIONE PEROXIDASE 3
Glyma03g30800.1
0.29
36.79
45.7
GLUTATHIONE PEROXIDASE 4
Glyma01g42840.1
0.84
71.66
131.13
GLUTATHIONE PEROXIDASE 6
Glyma05g37900.1
0.35
13.37
17.33
GLUTATHIONE PEROXIDASE 6
Glyma08g01700.1
0.03
102.18
106.75
GLUTATHIONE PEROXIDASE 6
Glyma11g02630.1
0.37
47.88
63.38
GLUTATHIONE PEROXIDASE 6
Glyma14g11685.1
-0.06
5.71
5.43
GLUTATHIONE PEROXIDASE 7
Glyma17g34110.1
0.03
17.88
18.57
GLUTATHIONE PEROXIDASE 7
Glyma02g08180.1
0.32
36.95
47.14
GLUTATHIONE REDUCTASE [cytoplasm]
Glyma16g27210.1
-0.11
1.08
1
GLUTATHIONE REDUCTASE [cytoplasm]
Glyma02g16010.3
0.7
1.92
3.15
GLUTATHIONE REDUCTASE [chloroplast]
Glyma02g16010.4
-0.13
2.1
2.03
GLUTATHIONE REDUCTASE [chloroplast]
Glyma10g03740.5
0.23
3.22
3.86
GLUTATHIONE REDUCTASE [chloroplast]
Glyma0169s00210.1
-0.02
158.97
160.81
MONODEHYDROASCORBATE REDUCTASE 1
Glyma10g07820.1
-0.25
139.46
120.09
MONODEHYDROASCORBATE REDUCTASE 1
Glyma16g07970.1
-0.32
54.2
44.53
MONODEHYDROASCORBATE REDUCTASE 4
Glyma05g37430.2
1.26
1.27
3.22
MONODEHYDROASCORBATE REDUCTASE 6
Glyma11g19840.2
-1.07
10.49
4.85
SUPEROXIDE DISMUTASE 2 [Cu,Zn]
Glyma12g08650.1
-1.68
33.11
10.37
SUPEROXIDE DISMUTASE 2 [Cu,Zn]
Glyma12g30260.1
-2
22.9
5.64
SUPEROXIDE DISMUTASE 2 [Cu,Zn]
Glyma16g27020.2
-0.29
19.12
16.1
SUPEROXIDE DISMUTASE 3 [Cu,Zn]
Glyma10g33710.1
0.26
52.8
64.44
SUPEROXIDE DISMUTASE 2 [Fe; chloroplast]
Glyma10g33710.2
0.47
7.33
10.16
SUPEROXIDE DISMUTASE 2 [Fe; chloroplast]
Glyma20g33880.2
0.53
346.98
512.39
SUPEROXIDE DISMUTASE 2 [Fe; chloroplast]
Glyma20g12510.1
0.38
12.3
16.34
SUPEROXIDE DISMUTASE 3 [Fe; chloroplast]
Glyma04g39930.1
0.52
26.54
38.72
SUPEROXIDE DISMUTASE 1 [Mn]
Glyma06g14960.1
0.44
44.52
61.46
SUPEROXIDE DISMUTASE 1 [Mn]