Species & Dataset
Experiment
Foliar Ozone Injury
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Pisum sativum
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Common name: Garden pea
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Family: Fabaceae
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Cultivar: Pisum sativum L.
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Tissue: Fifth leaf from the top
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Ozone concentration: Ambient ozone (12.5 nL L−1 ± 0.96 nL L−1)
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Elevated ozone (151.2 nL L−1 ± 0.72 nL L−1)
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Ozone exposure: Throughout the experiment (8 hours/day)
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Sampling time: ​ 11-13 days after planting
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Platform: Hiseq 2000 (Illumina)
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Year of study: 2015
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Location: Urbana, USA
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]
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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 | AGI Gene Code | Uniprot ID | Bin Code | Bin Name | log2FC | Functional Annotation |
---|---|---|---|---|---|---|
ID_Pisum_sativum_v2_Contig4373 | AT4G35830 | Q42560 | 8.1.3 | TCA / org transformation.TCA.aconitase | 0.52 | ACONITASE |
ID_Pisum_sativum_v2_Contig3045 | AT1G65930 | Q9SRZ6 | 8.1.4 | TCA / org transformation.TCA.IDH | 1.01 | ISOCITRATE DEHYDROGENASE |
ID296188_p.sativum_wa1_contig11295 | AT1G65930 | Q9SRZ6 | 8.1.4 | TCA / org transformation.TCA.IDH | 0.67 | ISOCITRATE DEHYDROGENASE |
ID_Pisum_sativum_v2_Contig5799 | AT5G23250 | Q8LAD2 | 8.1.6 | TCA / org transformation.TCA.succinyl-CoA ligase | 0.59 | SUCCINYL-CoA LIGASE |
ID_Pisum_sativum_v2_Contig238 | AT1G04410 | P93819 | 8.2.9 | TCA / org transformation.other organic acid transformatons.cyt MDH | -0.81 | MALATE DEHYDROGENASE |
ID284036_p.sativum_wa1_contig18557 | AT5G25880 | Q9XGZ0 | 8.2.10 | TCA / org transformation.other organic acid transformatons.malic | 2.01 | MALATE OXIDOREDUCTASE |
ID_Pisum_sativum_v2_Contig4372 | AT5G11670 | Q9LYG3 | 8.2.10 | TCA / org transformation.other organic acid transformatons.malic | 0.85 | MALATE OXIDOREDUCTASE |
ID_Pisum_sativum_v2_Contig1835 | AT3G06650 | Q9C522 | 8.2.11 | TCA / org transformation.other organic acid transformatons.atp-citrate lyase | 0.61 | ATP-CITRATE LYASE |
ID298794_p.sativum_wa1_contig09721 | AT5G14740 | P42737 | 8.3 | TCA / org transformation.carbonic anhydrases | 0.82 | CARBONIC ANHYDRASE |
ID_Pisum_sativum_v2_Contig7774 | AT3G27890 | Q9LK88 | 9.1.1 | mitochondrial electron transport / ATP synthesis.NADH-DH.complex I | 2.43 | NADH-DEHYDROGENASE [complex I] |
ID271967_p.sativum_wa1_contig23606 | AT4G28510 | O49460 | 9.1.1 | mitochondrial electron transport / ATP synthesis.NADH-DH.complex I | -1.32 | NADH-DEHYDROGENASE [complex I] |
ID266822_p.sativum_wa1_contig10263 | AT3G27890 | Q9LK88 | 9.1.1 | mitochondrial electron transport / ATP synthesis.NADH-DH.complex I | 4.31 | NADH-DEHYDROGENASE [complex I] |
ID_Pisum_sativum_v2_Contig2147 | AT1G74730 | Q94F10 | 35.2 | not assigned.unknown | -0.69 | NADH-DEHYDROGENASE [complex I, carbonic anhydrase] |
ID266675_p.sativum_wa1_contig28876 | AT4G29330 | Q8VZU9 | 29.5 | protein.degradation | 4.1 | NADH-DEHYDROGENASE [localization unclear] |
ID_Pisum_sativum_v2_Contig3718 | ATMG00980 | P92532 | 29.2.1.1.2.2.2 | protein.synthesis.ribosomal protein.prokaryotic.mitochondrion.50S subunit.L2 | -0.82 | NADH-DEHYDROGENASE [localization unclear] |
ID_Pisum_sativum_v2_Contig4589 | AT4G05020 | Q94BV7 | 9.2.1.2 | mitochondrial electron transport / ATP synthesis.NADH-DH.type II.external | 1.45 | NADH-DEHYDROGENASE [type II, external] |
ID_Pisum_sativum_v2_Contig3315 | AT2G29990 | O80874 | 9.2.1.4 | mitochondrial electron transport / ATP synthesis.NADH-DH.type II.internal matrix | 3.31 | NADH-DEHYDROGENASE [type II, internal matrix] |
ID_Pisum_sativum_v2_Contig8415 | AT1G07180 | Q8GWA1 | 9.2.1.4 | mitochondrial electron transport / ATP synthesis.NADH-DH.type II.internal matrix | -0.75 | NADH-DEHYDROGENASE [type II, internal matrix] |
ID270489_p.sativum_wa1_contig25191 | AT3G22370 | Q39219 | 9.4 | mitochondrial electron transport / ATP synthesis.alternative oxidase | 1.24 | ALTERNATIVE OXIDASE |
ID_Pisum_sativum_v2_Contig2718 | AT5G64210 | O22049 | 9.4 | mitochondrial electron transport / ATP synthesis.alternative oxidase | 2.52 | ALTERNATIVE OXIDASE |
ID272230_p.sativum_wa1_contig10126 | AT5G64210 | O22049 | 9.4 | mitochondrial electron transport / ATP synthesis.alternative oxidase | 2.7 | ALTERNATIVE OXIDASE |
ID281263_p.sativum_wa1_contig28984 | AT4G10040 | Q9T0G2 | 9.6 | mitochondrial electron transport / ATP synthesis.cytochrome c | 1.5 | CYTOCHROME C |
ID281290_p.sativum_wa1_contig30839 | AT4G10040 | Q9T0G2 | 9.6 | mitochondrial electron transport / ATP synthesis.cytochrome c | 0.66 | CYTOCHROME C |
ID_Pisum_sativum_v2_Contig7865 | AT1G49380 | Q9XIA4 | 9.6 | mitochondrial electron transport / ATP synthesis.cytochrome c | -0.71 | CYTOCHROME C |
ID297249_p.sativum_wa1_contig34819 | AT1G49380 | Q9XIA4 | 9.6 | mitochondrial electron transport / ATP synthesis.cytochrome c | -0.69 | CYTOCHROME C |
ID17056_EX570908 | #N/A | #N/A | #N/A | 0.61 | CYTOCHROME C | |
ID263334_p.sativum_wa1_contig08262 | AT3G51790 | Q96326 | 9.6 | mitochondrial electron transport / ATP synthesis.cytochrome c | 1.02 | CYTOCHROME C |
ID_Pisum_sativum_v2_Contig2148 | AT1G80230 | Q9SSB8 | 9.7 | mitochondrial electron transport / ATP synthesis.cytochrome c oxidase | 1.03 | CYTOCHROME C OXIDASE |
ID274179_p.sativum_wa1_contig22645 | AT4G17260 | O23569 | 5.1 | fermentation.LDH | 2.33 | Fermentation: LACTATE DEHYDROGENASE |
ID270381_p.sativum_wa1_contig10911 | AT4G36250 | Q70E96 | 5.10 | fermentation.aldehyde dehydrogenase | -1.25 | Fermentation: ALDEHYDE DEHYDROGENASE |
ID266021_p.sativum_wa1_contig20179 | AT1G44170 | Q70DU8 | 5.10 | fermentation.aldehyde dehydrogenase | 4.35 | Fermentation: ALDEHYDE DEHYDROGENASE |
ID_Pisum_sativum_v2_Contig5230 | AT4G36250 | Q70E96 | 5.10 | fermentation.aldehyde dehydrogenase | -1.19 | Fermentation: ALDEHYDE DEHYDROGENASE |
ID295295_p.sativum_wa1_contig08348 | AT1G23800 | Q8S528 | 5.10 | fermentation.aldehyde dehydrogenase | 1 | Fermentation: ALDEHYDE DEHYDROGENASE |
ID263664_p.sativum_wa1_contig13195 | AT5G09660 | Q9ZP05 | 6.3 | gluconeogenesis / glyoxylate cycle.Malate DH | -0.63 | Gluconeogenesis / glyoxylate cycle: MALATE DEHYDROGENASE |
ID268005_p.sativum_wa1_contig11567 | AT1G24280 | Q8L743 | 7.1.1 | OPP.oxidative PP.G6PD | -1.1 | Pentose phosphate pathway, oxidative: GLUCOSE 6-PHOSPHATE DEHYDROGENASE |
ID_Pisum_sativum_v2_Contig3116 | AT5G13110 | Q9FY99 | 7.1.1 | OPP.oxidative PP.G6PD | -0.55 | Pentose phosphate pathway, oxidative: GLUCOSE 6-PHOSPHATE DEHYDROGENASE |
ID262852_p.sativum_wa1_contig18926 | AT5G40760 | Q9FJI5 | 7.1.1 | OPP.oxidative PP.G6PD | 1.91 | Pentose phosphate pathway, oxidative: GLUCOSE 6-PHOSPHATE DEHYDROGENASE |
ID_Pisum_sativum_v2_Contig5003 | AT3G02360 | Q9FWA3 | 7.1.3 | OPP.oxidative PP.6-phosphogluconate dehydrogenase | 0.68 | Pentose phosphate pathway, oxidative: 6-PHOSPHOGLUCONATE DEHYDROGENASE |
ID_Pisum_sativum_v2_Contig1969 | AT3G04790 | Q9S726 | 1.3.10 | PS.calvin cycle.Rib5P Isomerase | -0.73 | Pentose phosphate pathway, non-reductive: RIBOSE 5-PHOSPHATE ISOMERASE |
ID299182_p.sativum_wa1_contig21283 | AT2G01290 | Q9ZU38 | 35.2 | not assigned.unknown | 0.5 | Pentose phosphate pathway, non-reductive: RIBOSE 5-PHOSPHATE ISOMERASE |
ID292516_p.sativum_wa1_contig29219 | AT4G14890 | O23344 | 26.30 | misc. other Ferredoxins and Rieske domain | -0.57 | Pentose phosphate pathway: electron transfer |
ID296830_p.sativum_wa1_contig18841 | AT4G39830 | A0A1P8B4N7 | 21.2.1 | redox.ascorbate and glutathione.ascorbate | 5.45 | ASCORBATE OXIDASE [cell wall] |
ID_Pisum_sativum_v2_Contig4699 | AT5G21105 | F4K6Z6 | 21.2.1 | redox.ascorbate and glutathione.ascorbate | -0.12 | ASCORBATE OXIDASE [cell wall] |
ID270485_p.sativum_wa1_contig24721 | AT1G07890 | Q05431 | 21.2.1 | redox.ascorbate and glutathione.ascorbate | -0.09 | ASCORBATE PEROXIDASE 1 [cytoplasm] |
ID290629_p.sativum_wa1_contig26708 | AT4G35000 | Q42564 | 21.2.1 | redox.ascorbate and glutathione.ascorbate | -0.27 | ASCORBATE PEROXIDASE 3 [microsome] |
ID284080_p.sativum_wa1_contig21676 | AT4G35000 | Q42564 | 21.2.1 | redox.ascorbate and glutathione.ascorbate | -0.28 | ASCORBATE PEROXIDASE 3 [microsome] |
ID_Pisum_sativum_v2_Contig5697 | AT1G77490 | Q42593 | 21.2.1 | redox.ascorbate and glutathione.ascorbate | 0.01 | ASCORBATE PEROXIDASE [thylakoid] |
ID_Pisum_sativum_v2_Contig4094 | AT4G35090 | P25819 | 21.6 | redox.dismutases and catalases | -0.63 | CATALASE 2 |
ID_Pisum_sativum_v2_Contig1642 | AT1G75270 | Q9FRL8 | 21.2.1 | redox.ascorbate and glutathione.ascorbate | 0.57 | DEHYDROASCORBATE REDUCTASE 2 |
ID_Pisum_sativum_v2_Contig8801 | AT5G16710 | Q8LE52 | 21.2.1 | redox.ascorbate and glutathione.ascorbate | -0.42 | DEHYDROASCORBATE REDUCTASE 3 [chloroplast] |
ID262802_p.sativum_wa1_contig12414 | AT5G16710 | Q8LE52 | 21.2.1 | redox.ascorbate and glutathione.ascorbate | 0.01 | DEHYDROASCORBATE REDUCTASE 3 [chloroplast] |
ID281337_p.sativum_wa1_contig33760 | AT2G43350 | O22850 | 21.2 | redox.ascorbate and glutathione | 0.07 | GLUTATHIONE PEROXIDASE 3 |
ID263199_p.sativum_wa1_contig27565 | AT2G43350 | O22850 | 21.2 | redox.ascorbate and glutathione | 0.28 | GLUTATHIONE PEROXIDASE 3 |
ID_Pisum_sativum_v2_Contig7800 | AT3G63080 | Q9LYB4 | 21.2.2 | redox.ascorbate and glutathione.glutathione | -0.45 | GLUTATHIONE PEROXIDASE 4 |
ID_Pisum_sativum_v2_Contig1327 | AT4G11600 | O48646 | 21.2.2 | redox.ascorbate and glutathione.glutathione | 0.19 | GLUTATHIONE PEROXIDASE 6 |
ID270618_p.sativum_wa1_contig03738 | AT2G25080 | P52032 | 21.2 | redox.ascorbate and glutathione | -0.07 | GLUTATHIONE PEROXIDASE 7 |
ID_Pisum_sativum_v2_Contig8768 | AT3G24170 | P48641 | 21.2.2 | redox.ascorbate and glutathione.glutathione | 1.23 | GLUTATHIONE REDUCTASE [cytoplasm] |
ID_Pisum_sativum_v2_Contig4628 | AT3G54660 | P42770 | 21.2.2 | redox.ascorbate and glutathione.glutathione | -0.2 | GLUTATHIONE REDUCTASE [chloroplast] |
ID_Pisum_sativum_v2_Contig4113 | AT3G52880 | Q9LFA3 | 21.2 | redox.ascorbate and glutathione | -0.08 | MONODEHYDROASCORBATE REDUCTASE 1 |
ID289338_p.sativum_wa1_contig19560 | AT3G27820 | Q9LK94 | 21.2.1 | redox.ascorbate and glutathione.ascorbate | -0.36 | MONODEHYDROASCORBATE REDUCTASE 4 |
ID_Pisum_sativum_v2_Contig4052 | AT5G18100 | Q9FK60 | 21.6 | redox.dismutases and catalases | -0.24 | SUPEROXIDE DISMUTASE 3 [Cu,Zn] |
ID_Pisum_sativum_v2_Contig4187 | AT3G10920 | O81235 | 21.6 | redox.dismutases and catalases | -0.04 | SUPEROXIDE DISMUTASE 1 [Mn] |
ID291601_p.sativum_wa1_contig26572 | AT4G39640 | Q8VYW6 | 20.2 | stress.abiotic | 4.74 | ?-GLUTAMYL TRANSPEPTIDASE |
ID278435_p.sativum_wa1_contig34236 | AT4G39650 | Q680I5 | 21.2.2 | redox.ascorbate and glutathione.glutathione | 5.21 | ?-GLUTAMYL TRANSPEPTIDASE |
ID_Pisum_sativum_v2_Contig4841 | #N/A | #N/A | #N/A | -0.03 | GLUTAMATE-CYSTEINE LIGASE | |
ID286494_p.sativum_wa1_contig25210 | AT5G27380 | P46416 | 21.2.2 | redox.ascorbate and glutathione.glutathione | -0.29 | GLUTATHIONE SYNTHETASE |
ID295758_p.sativum_wa1_contig30872 | AT5G27380 | P46416 | 21.2.2 | redox.ascorbate and glutathione.glutathione | -0.24 | GLUTATHIONE SYNTHETASE |
ID_Pisum_sativum_v2_Contig36 | AT3G04120 | P25858 | 4.1.8 | glycolysis.cytosolic branch.glyceraldehyde 3-phosphate dehydrogenase (GAP-DH) | -0.57 | GLYCERALDEHYDE 3-PHOSPHATE DEHYDROGENASE [cytoplasm] |
ID_Pisum_sativum_v2_Contig6409 | AT1G13440 | Q9FX54 | 4.1.8 | glycolysis.cytosolic branch.glyceraldehyde 3-phosphate dehydrogenase (GAP-DH) | 0.83 | GLYCERALDEHYDE 3-PHOSPHATE DEHYDROGENASE [cytoplasm] |
ID282363_p.sativum_wa1_contig24234 | AT3G05170 | Q9MAA2 | 4.3.12 | glycolysis.unclear/dually targeted.phosphoglycerate mutase | -0.76 | PHOSPHOGLYCERATE MUTASE [cytoplasm] |
ID290074_p.sativum_wa1_contig28839 | AT3G50520 | Q9SCS3 | 4.3.12 | glycolysis.unclear/dually targeted.phosphoglycerate mutase | 0.93 | PHOSPHOGLYCERATE MUTASE [cytoplasm] |
ID282982_p.sativum_wa1_contig26055 | AT3G05170 | Q9MAA2 | 4.3.12 | glycolysis.unclear/dually targeted.phosphoglycerate mutase | 1.61 | PHOSPHOGLYCERATE MUTASE [cytoplasm] |
ID286398_p.sativum_wa1_contig19099 | AT1G74030 | Q9C9C4 | 4.1.13 | glycolysis.cytosolic branch.enolase | 1.53 | ENOLASE [cytoplasm] |
ID_Pisum_sativum_v2_Contig4678 | AT1G53310 | Q9MAH0 | 4.1.15 | glycolysis.cytosolic branch.phospho-enol-pyruvate carboxylase (PEPC) | 0.51 | PHOSPHO-ENOL-PYRUVATE CARBOXYLASE [cytoplasm] |
ID297143_p.sativum_wa1_contig21264 | AT1G53310 | Q9MAH0 | 4.1.15 | glycolysis.cytosolic branch.phospho-enol-pyruvate carboxylase (PEPC) | 1.2 | PHOSPHO-ENOL-PYRUVATE CARBOXYLASE [cytoplasm] |
ID14082_GH719589 | #N/A | #N/A | #N/A | 1.7 | PHOSPHO-ENOL-PYRUVATE CARBOXYLASE [cytoplasm] | |
ID_Pisum_sativum_v2_Contig7139 | AT3G14940 | Q84VW9 | 4.1.15 | glycolysis.cytosolic branch.phospho-enol-pyruvate carboxylase (PEPC) | 1.38 | PHOSPHO-ENOL-PYRUVATE CARBOXYLASE [cytoplasm] |
ID296901_p.sativum_wa1_contig28437 | AT2G22480 | Q8VYN6 | 4.2.4 | glycolysis.plastid branch.phosphofructokinase (PFK) | 1.47 | PHOSPHOFRUCTOKINASE [plastid] |
ID_Pisum_sativum_v2_Contig6823 | AT2G22480 | Q8VYN6 | 4.2.4 | glycolysis.plastid branch.phosphofructokinase (PFK) | 1.26 | PHOSPHOFRUCTOKINASE [plastid] |
ID265166_p.sativum_wa1_contig23674 | AT1G32440 | Q93Z53 | 4.2.14 | glycolysis.plastid branch.pyruvate kinase (PK) | -0.53 | PYRUVATE KINASE [plastid] |
ID284266_p.sativum_wa1_contig33550 | AT1G32440 | Q93Z53 | 4.2.14 | glycolysis.plastid branch.pyruvate kinase (PK) | -0.52 | PYRUVATE KINASE [plastid] |
ID_Pisum_sativum_v2_Contig2999 | AT5G08570 | Q9FNN1 | 4.1.14 | glycolysis.cytosolic branch.pyruvate kinase (PK) | 0.59 | PYRUVATE KINASE [plastid] |
ID277035_p.sativum_wa1_contig18485 | AT5G52920 | Q9FLW9 | 4.2.14 | glycolysis.plastid branch.pyruvate kinase (PK) | -0.81 | PYRUVATE KINASE [plastid] |
ID272847_p.sativum_wa1_contig12510 | AT3G22960 | Q9LIK0 | 4.2.14 | glycolysis.plastid branch.pyruvate kinase (PK) | -0.8 | PYRUVATE KINASE [plastid] |
ID_Pisum_sativum_v2_Contig4652 | AT3G22960 | Q9LIK0 | 4.2.14 | glycolysis.plastid branch.pyruvate kinase (PK) | -0.5 | PYRUVATE KINASE [plastid] |
ID282363_p.sativum_wa1_contig24234 | AT3G05170 | Q9MAA2 | 4.3.12 | glycolysis.unclear/dually targeted.phosphoglycerate mutase | -0.76 | PHOSPHOGLYCERATE MUTASE [localization unclear] |
ID290074_p.sativum_wa1_contig28839 | AT3G50520 | Q9SCS3 | 4.3.12 | glycolysis.unclear/dually targeted.phosphoglycerate mutase | 0.93 | PHOSPHOGLYCERATE MUTASE [localization unclear] |
ID286427_p.sativum_wa1_contig20903 | AT1G22170 | Q9LM13 | 4.2.12 | glycolysis.plastid branch.phosphoglycerate mutase | 2.14 | PHOSPHOGLYCERATE MUTASE [localization unclear] |
ID282982_p.sativum_wa1_contig26055 | AT3G05170 | Q9MAA2 | 4.3.12 | glycolysis.unclear/dually targeted.phosphoglycerate mutase | 1.61 | PHOSPHOGLYCERATE MUTASE [localization unclear] |
ID278763_p.sativum_wa1_contig17872 | AT1G34430 | Q9C8P0 | 8.1.1.2 | TCA / org transformation.TCA.pyruvate DH.E2 | 0.97 | PYRUVATE DEHYDROGENASE [E2] |
ID_Pisum_sativum_v2_Contig4865 | AT2G44350 | P20115 | 8.1.2 | TCA / org transformation.TCA.CS | 0.73 | CITRATE SYNTHASE |