Table 1. Expression changes of genes and proteins mentioned in the text and/or displayed in the figures.
| Gene ID | Symbol | Description | ΔRPKM (−Mn/+Mn) | iTRAQ (−Mn/+Mn) | Pathway |
|---|---|---|---|---|---|
| Glucosinolate metabolism | |||||
| AT4G39940 | AKN2 | APS-kinase 2 | 21.31 | 1.13 | Sulphur metabolism |
| AT1G18570 | MYB51 | Myb domain protein 51 | 20.34 | Transcription factor | |
| AT5G23010 | IMS3 | Methylthioalkylmalate synthase 1 | 46.67 | 1.32 | Chain Elongation |
| AT5G23020 | IMS2 | 2-isopropylmalate synthase 2 | 102.33 | 1.39 | Chain Elongation |
| AT2G43100 | LEUD1 | Isopropylmalate isomerase 2 | 30.01 | 0.93 | Chain Elongation |
| AT1G16400 | CYP79F2 | Cytochrome P450, family 79, subfamily F, polypeptide 2 | 19.99 | 1.52 | CYP oxidation |
| AT1G62570 | GS-OX4 | Flavin-monooxygenase glucosinolate S-oxygenase 4 | 17.9 | 0.98 | CYP oxidation |
| AT2G22330 | CYP79B3 | Cytochrome P450, family 79, subfamily B, polypeptide 3 | 22.41 | CYP oxidation | |
| AT4G31500 | CYP83B1 | Cytochrome P450, family 83, subfamily B, polypeptide 1 | 62.13 | 1.34 | CYP oxidation |
| AT1G78370 | GSTU20 | Glutathione S-transferase TAU 20 | 1.76 | GSH conjugation | |
| AT2G30870 | GSTF10 | Glutathione S-transferase PHI 10 | 141.57 | 1.31 | GSH conjugation |
| AT3G03190 | GSTF11 | Glutathione S-transferase F11 | 1.47 | GSH conjugation | |
| AT2G43820 | SAGT1 | UDP-glucosyltransferase 74F2 | 1.62 | Glucose conjugation | |
| AT5G26000 | TGG1 | Thioglucoside glucohydrolase 1 | 1.56 | Breakdown | |
| AT3G09260 | BGLU23 | Glycosyl hydrolase superfamily protein | 935.1 | 1.13 | Breakdown |
| AT3G16400 | MLP-470 | Nitrile specifier protein 1 | 1.68 | Breakdown | |
| Photosyntesis | |||||
| AT1G15820 | CP24 | Light harvesting complex photosystem II subunit 6 | −48.07 | 1.03 | LHC II |
| AT1G29910 | AB180 | Chlorophyll A/B binding protein 3 | −44.57 | 0.62 | LHC II |
| AT1G29930 | AB140 | Chlorophyll A/B binding protein 1 | −755.74 | LHC II | |
| AT2G05070 | LHCB2 | Photosystem II light harvesting complex gene 2.2 | −36.05 | LHC II | |
| AT2G05100 | LHCB2 | Photosystem II light harvesting complex gene 2.1 | −39.79 | 0.87 | LHC II |
| AT2G34420 | LHB1B2 | Photosystem II light harvesting complex gene B1B2 | −154.71 | 0.73 | LHC II |
| AT3G08940 | LHCB4.2 | Light harvesting complex photosystem II | −52.46 | 0.96 | LHC II |
| AT4G10340 | LHCB5 | Light harvesting complex of photosystem II 5 | −136.41 | 0.90 | LHC II |
| AT5G01530 | LHCB4.1 | Light harvesting complex photosystem II | −78.17 | 1.04 | LHC II |
| AT5G54270 | LHCB3 | Light-harvesting chlorophyll B-binding protein 3 | −75.34 | 0.95 | LHC II |
| AT1G03600 | PSB27 | Photosystem II family protein | −39.8 | 0.79 | PS II |
| AT1G06680 | OE23 | Photosystem II subunit P-1 | −91.79 | 0.76 | PS II |
| AT1G44575 | CP22 | Chlorophyll A-B binding family protein | −30.84 | 1.04 | PS II |
| AT1G51400 | NFU1 | Photosystem II 5 kD protein | −22.61 | 0.80 | PS II |
| AT1G67740 | PSBY | Photosystem II BY | −29.75 | PS II | |
| AT2G06520 | PSBX | Photosystem II subunit X | −77.31 | PS II | |
| AT2G30570 | PSBW | Photosystem II reaction center W | −62.72 | PS II | |
| AT3G21055 | PSBTN | Photosystem II subunit T | −45.86 | 0.74 | PS II |
| AT3G50820 | OEC33 | Photosystem II subunit O-2 | −36.6 | 0.7 | PS II |
| AT4G05180 | PSBQ | Photosystem II subunit Q-2 | −36.54 | 0.66 | PS II |
| AT4G21280 | PSBQ | Photosystem II subunit QA | −42.95 | 0.79 | PS II |
| AT5G66570 | MSP-1 | Photosystem II oxygen-evolving complex 1 | −133.64 | 0.77 | PS II |
| ATCG00710 | PSBH | Photosystem II reaction center protein H | 0.5 | PS II | |
| AT2G26500 | UGT76D1 | Cytochrome b6f complex subunit (petM), putative | −49.41 | Redox chain | |
| AT4G03280 | PETC | Photosynthetic electron transfer C | −39.14 | 0.74 | Redox chain |
| AT1G20340 | DRT112 | Cupredoxin superfamily protein | −58.42 | 0.81 | Redox chain |
| AT4G04640 | PC1 | ATPase, F1 complex, gamma subunit protein | −19.75 | 1.35 | Redox chain |
| AT4G09650 | PD | ATP synthase delta-subunit gene | −16.51 | 0.90 | Redox chain |
| AT4G32260 | PDE334 | ATPase, F0 complex, subunit bacterial/chloroplast | −30.64 | 0.91 | Redox chain |
| AT1G03130 | PSAD-2 | Photosystem I subunit D-2 | −16.58 | 0.75 | PS I |
| AT1G08380 | PSAO | Photosystem I subunit O | −67.2 | 0.95 | PS I |
| AT1G30380 | PSAK | Photosystem I subunit K | −31.53 | 0.72 | PS I |
| AT1G31330 | PSAF | Photosystem I subunit F | −67.05 | 0.85 | PS I |
| AT1G52230 | PSAH-2 | Photosystem I subunit H2 | −20.98 | 0.72 | PS I |
| AT1G55670 | PSAG | Photosystem I subunit G | −83.33 | 0.99 | PS I |
| AT2G20260 | PSAE-2 | Photosystem I subunit E-2 | −27.77 | 0.81 | PS I |
| AT2G46820 | PSAP | Photosystem I P subunit | −16.9 | 1.02 | PS I |
| AT3G16140 | PSAH-1 | Photosystem I subunit H-1 | −32.9 | 0.87 | PS I |
| AT4G02770 | PSAD-1 | Photosystem I subunit D-1 | −36.21 | 0.73 | PS I |
| AT4G12800 | PSAL | Photosystem I subunit l | −61.76 | 0.84 | PS I |
| AT4G28750 | PSAE-1 | Photosystem I reaction centre subunit IV/PsaE | −34.63 | 0.66 | PS I |
| AT5G64040 | PSAN | Photosystem I reaction center subunit PSI-N, chloroplast, putative/PSI-N, putative | −62.37 | 0.73 | PS I |
| AT1G61520 | LHCA3 | Photosystem I light harvesting complex gene 3 | −56.35 | 0.81 | LHC I |
| AT3G47470 | CAB4 | Light-harvesting chlorophyll-protein complex I subunit A4 | −113 | 0.93 | LHC I |
| AT3G54890 | LHCA1 | Photosystem I light harvesting complex gene 1 | −53.58 | 0.91 | LHC I |
| AT3G61470 | LHCA2 | Photosystem I light harvesting complex gene 2 | −84.36 | 0.89 | LHC I |
| AT1G60950 | FD2 | 2Fe-2S ferredoxin-like superfamily protein | −44.5 | 0.91 | Final |
| AT5G66190 | LFNR1 | Ferredoxin-NADP(+)-oxidoreductase 1 | −26.21 | 1.20 | Final |
| AT1G32060 | PRK | Phosphoribulokinase | −34.94 | 0.95 | Calvin cycle |
| AT1G67090 | RBCS1A | Ribulose bisphosphate carboxylase small chain 1A | −341.12 | 0.85 | Calvin cycle |
| AT5G38410 | LCR80 | Ribulose bisphosphate carboxylase (small chain) | −59.24 | Calvin cycle | |
| AT2G39730 | RCA | Rubisco activase | −87.93 | 0.88 | Calvin cycle |
| AT1G12900 | GAPA-2 | Glyceraldehyde 3-phosphate dehydrogenase A subunit 2 | −37.94 | 1.01 | Calvin cycle |
| AT1G42970 | GAPB | Glyceraldehyde-3-phosphate dehydrogenase B subunit | −33.63 | 1.04 | Calvin cycle |
| AT3G26650 | GAPA | Glyceraldehyde 3-phosphate dehydrogenase A subunit | −98.66 | 1.31 | Calvin cycle |
| AT2G01140 | PDE345 | Aldolase superfamily protein | −59.01 | 0.91 | Calvin cycle |
| AT2G21330 | FBA1 | Fructose-bisphosphate aldolase 1 | −27.05 | 0.81 | Calvin cycle |
| AT4G38970 | FBA2 | Fructose-bisphosphate aldolase 2 | −49.19 | 0.89 | Calvin cycle |
| AT3G60750 | CHO | Transketolase | −52.41 | 1.28 | Calvin cycle |
| AT5G61410 | EMB2728 | D-ribulose-5-phosphate-3-epimerase | −22.8 | 0.95 | Calvin cycle |
| Central metabolism | |||||
| AT4G26270 | PFK3 | Phosphofructokinase 3 | −21.65 | 0.98 | Glycolysis |
| AT2G36460 | FBA6 | Aldolase superfamily protein | −197.05 | 0.73 | Glycolysis |
| AT2G21170 | TIM | Triosephosphate isomerase | −38.87 | 0.95 | Glycolysis |
| AT1G13440 | GAPC2 | Glyceraldehyde-3-phosphate dehydrogenase C2 | −1286.09 | 0.94 | Glycolysis |
| AT3G12780 | PGK1 | Phosphoglycerate kinase 1 | −23.93 | 0.93 | Glycolysis |
| AT2G36530 | LOS2 | Enolase | −89.97 | 0.89 | Glycolysis |
| AT2G36580 | Pyruvate kinase family protein | −95.38 | 1.22 | Glycolysis | |
| AT2G44350 | CSY4 | Citrate synthase family protein | 18.94 | 1.04 | TCA cycle |
| AT1G65930 | CICDH | Cytosolic NADP + -dependent isocitrate dehydrogenase | 1.42 | TCA cycle | |
| AT5G08530 | CI51 | 51 kDa subunit of complex I | −21.11 | 0.99 | Respiration |
| AT3G22370 | AOX1A | Alternative oxidase 1A | 16.86 | 1.10 | Respiration |
| AT4G17260 | Lactate/malate dehydrogenase family protein | −43.97 | 0.78 | Fermentation | |
| AT1G77120 | ADH1 | Alcohol dehydrogenase 1 | −1957.5 | 0.55 | Fermentation |
| AT4G33070 | PDC1 | Thiamine pyrophosphate dependent pyruvate decarboxylase family protein | −707.92 | 0.65 | Fermentation |
| AT5G66985 | Unknown | −187.13 | 0.81 | Fermentation | |
| AT5G15120 | PCO1 | Protein of unknown function (DUF1637) | −60.33 | 0.74 | Fermentation |
| Cluster C2( Fig. 5) | |||||
| AT1G80830 | NRAMP1 | Natural resistance-associated macrophage protein 1 | 27.73 | 1.51 | |
| AT3G25820 | TPS-CIN | Terpene synthase-like sequence-1,8-cineole | 5.64 | 2.11 | |
| AT4G34135 | UGT73B2 | UDP-glucosyltransferase 73B2 | 1.83 | ||
| AT1G78340 | GSTU22 | Glutathione S-transferase TAU 22 | 1.69 | ||
| AT2G01520 | MLP328 | MLP-like protein 328 | 1.67 | ||
| AT1G17180 | GSTU25 | Glutathione S-transferase TAU 25 | 22.59 | 1.64 | |
| AT3G01420 | DOX1 | Peroxidase superfamily protein | 1.62 | ||
| AT1G17170 | GSTU24 | Glutathione S-transferase TAU 24 | 24.51 | 1.56 | |
| AT2G01530 | MLP329 | MLP-like protein 329 | 243.22 | 1.56 | |
| AT1G70850 | MLP34 | MLP-like protein 34 | 1.51 | ||
| AT1G22440 | Zinc-binding alcohol dehydrogenase family protein | 21.43 | 1.49 | ||
| AT2G15490 | UGT73B4 | UDP-glycosyltransferase 73B4 | 23.43 | 1.48 | |
| AT3G09270 | GSTU8 | Glutathione S-transferase TAU 8 | 66.19 | 1.48 | |
| AT3G14990 | DJ1A | Class I glutamine amidotransferase-like superfamily protein | 341.33 | 1.48 | |
| AT1G17190 | GSTU26 | Glutathione S-transferase tau 26 | 10.53 | 1.46 | |
| AT3G14680 | CYP72A14 | Cytochrome P450, family 72, subfamily A, polypeptide 14 | 1.43 | ||
| AT5G26280 | TRAF-like family protein | 133.09 | 1.41 | ||
| AT2G29420 | GSTU7 | Glutathione S-transferase tau 7 | 1.41 | ||
| AT3G16450 | JAL33 | Mannose-binding lectin superfamily protein | 228.35 | 1.4 | |
| AT1G17860 | Kunitz family trypsin and protease inhibitor protein | 40.72 | 1.4 | ||
| AT3G25830 | TPS-CIN | Terpene synthase-like sequence-1,8-cineole | 97.45 | ||
| AT3G15950 | NAI2 | DNA topoisomerase-related | 81.69 | 1.20 | |
| AT4G01450 | Nodulin MtN21/EamA-like transporter | 81.41 | |||
| AT4G04830 | MSRB5 | Methionine sulfoxide reductase B5 | 72.38 | 1.01 | |
| AT3G50970 | LTI30 | Dehydrin family protein | 71.95 | 1.21 | |
| AT4G13180 | NAD(P)-binding Rossmann-fold | 54.24 | 1.07 | ||
| AT5G63790 | ANAC102 | NAC domain containing protein 102 | 53.02 | ||
| AT2G17500 | Auxin efflux carrier family protein | 41.68 | |||
| AT1G64200 | VHA-E3 | Vacuolar H + -ATPase subunit E isoform 3 | 37.23 | 1.18 | |
| AT2G29490 | GSTU1 | Glutathione S-transferase TAU 1 | 37.14 | 1.34 | |
| AT5G26260 | TRAF-like family protein | 36.24 | 1.18 | ||
| AT3G13790 | BFRUCT1 | Glycosyl hydrolases family 32 protein | 35.46 | 1.07 | |
| AT1G78000 | SEL1 | Sulfate transporter 1;2 | 34.83 | 1.13 | |
| AT4G23680 | Polyketide cyclase/dehydrase and lipid transport | 34.68 | 1.36 | ||
| AT1G62660 | Glycosyl hydrolases family 32 protein | 34.23 | 1.27 | ||
| AT1G21440 | Phosphoenolpyruvate carboxylase family protein | 33.73 | 1.23 | ||
| AT2G36380 | ABCG34 | Pleiotropic drug resistance 6 | 29.82 | 1.25 | |
| AT5G13750 | ZIFL1 | Zinc induced facilitator-like 1 | 29.66 | ||
| AT1G78660 | GGH1 | Gamma-glutamyl hydrolase 1 | 26.72 | 1.13 | |
| AT4G24160 | Alpha/beta-Hydrolases superfamily protein | 23.28 | 1.23 | ||
| AT4G16760 | ACX1 | Acyl-CoA oxidase 1 | 19.87 | 1.25 | |
| AT4G12390 | PME1 | Pectin methylesterase inhibitor 1 | 19.3 | 1.08 | |
| AT1G34370 | STOP1 | C2H2 and C2HC zinc fingers superfamily protein | 18.68 | ||
| AT1G54030 | GOLD36 | GDSL-like Lipase/Acylhydrolase superfamily protein | 16.92 | 1.11 | |
| AT3G23560 | ALF5 | MATE efflux family protein | 16.9 | ||
| AT2G15480 | UGT73B5 | UDP-glucosyl transferase 73B5 | 16.38 | 1.18 | |
| AT2G28780 | Unknown | −30.55 | |||
| AT5G43150 | Unknown | −43.56 | |||
| AT1G28400 | Unknown | −119.83 | 0.80 | ||
| AT5G05960 | Bifunctional inhibitor/lipid-transfer protein/seed storage 2S albumin superfamily protein | −168.75 | 0.93 | ||
| Robustly Mn-responsive genes (i.e. changed at the mRNA and protein level) with miscellaneous functions | |||||
| AT4G15610 | Uncharacterised protein family (UPF0497) | 93.23 | 1.78 | ||
| AT1G18670 | IBS1 | Protein kinase superfamily protein | −21.49 | 1.58 | |
| AT5G42250 | Zinc-binding alcohol dehydrogenase family protein | 21.69 | 1.58 | ||
| AT1G45145 | H5 | Thioredoxin H-type 5 | 107.51 | 1.5 | |
| AT3G26450 | Polyketide cyclase/dehydrase and lipid transport superfamily protein | 22.43 | 1.5 | ||
| AT5G60660 | PIP2;4 | Plasma membrane intrinsic protein 2;4 | 21.92 | 1.5 | |
| AT2G45960 | HH2 | Plasma membrane intrinsic protein 1B | 353.05 | 1.49 | |
| AT5G40890 | CLC-A | Chloride channel A | 17.06 | 1.49 | |
| AT5G14120 | Major facilitator superfamily protein | 53.91 | 1.46 | ||
| AT4G30020 | PA-domain containing subtilase family protein | −36.43 | 0.74 | ||
| AT2G28950 | EXP6 | Pxpansin A6 | −22.64 | 0.73 | |
| AT3G11930 | Adenine nucleotide alpha hydrolases-like superfamily protein | −102.64 | 0.73 | ||
| AT3G15650 | alpha/beta-Hydrolases superfamily protein | −20.76 | 0.72 | ||
| AT4G01630 | EXP17 | Expansin A17 | −33.42 | 0.72 | |
| AT2G16060 | AHB1 | Hemoglobin 1 | −894.75 | 0.7 | |
| AT1G03820 | Unknown | −23.67 | 0.69 | ||
| AT4G12880 | ENODL19 | Early nodulin-like protein 19 | −38.37 | 0.69 | |
| AT5G19550 | AAT2 | Aspartate aminotransferase 2 | −341.57 | 0.69 | |
| AT1G69230 | SP1L2 | SPIRAL1-like2 | −51.23 | 0.68 | |
| AT5G15970 | Cor6.6 | Stress-responsive protein (KIN2)/stress-induced protein (KIN2)/cold-responsive protein (COR6.6)/cold-regulated protein (COR6.6) | −147.81 | 0.68 | |
| AT2G38530 | cdf3 | Lipid transfer protein 2 | −55.52 | 0.66 | |
| AT1G09750 | Eukaryotic aspartyl protease family protein | −18.27 | 0.64 | ||
| AT5G02380 | MT2B | Metallothionein 2B | −204.51 | 0.64 | |
| AT5G15960 | KIN1 | Stress-responsive protein (KIN1)/stress-induced protein (KIN1) | −64.62 | 0.63 | |
| AT5G38980 | Unknown | −18.37 | 0.62 | ||
| AT4G27450 | Aluminium induced protein with YGL and LRDR motifs | −1161.92 | 0.61 | ||
| AT2G46630 | Unknown | −16.73 | 0.6 | ||
| AT3G03270 | Adenine nucleotide alpha hydrolases-like superfamily protein | −490.84 | 0.51 | ||
| AT2G17850 | Rhodanese/Cell cycle control phosphatase superfamily protein | −279.68 | 0.41 | ||
Numbers represent log2 values. Bold letters indicate statistically significant changes.