Table 2. List of the differential expressed genes between Gleva and G123.
The tagwise dispersions using the EDGE test for fold change, p-value and FDR p-value correction are shown. Genes included in different classification groups are indicated as: (f) flowering, (t) transport, (p) photosynthesis, light harvesting, and responses to blue, red and far red light, (m) membrane, (pl) plastid and chloroplast and (c) cytoplasm components.
| Feature ID | Gene annotation | Fold change | P-value | FDR p-value correction | |
|---|---|---|---|---|---|
| LOC_Os04g58200 | protochlorophyllide reductase A, chloroplast precursor, putative | 69.41 | 4.10E-09 | 0.000 | p, m, pl |
| LOC_Os06g18670 | anthocyanidin 3-O-glucosyltransferase, putative | 40.48 | 3.74E-05 | 0.027 | |
| LOC_Os03g28170 | expressed protein | 38.95 | 2.48E-06 | 0.003 | |
| LOC_Os09g25810 | nodulin, putative | 38.12 | 8.26E-06 | 0.008 | m |
| LOC_Os06g06320 | Hd3a/OsFTL2 FT-Like2 homologous to the Flowering Locus T gene; contains Pfam profile PF01161: Phosphatidylethanolamine-binding protein | 37.86 | 3.67E-08 | 0.000 | f |
| LOC_Os07g34570 | FAD-dependent oxidoreductase domain containing protein | 33.38 | 5.67E-19 | 0.000 | t, m, pl |
| LOC_Os03g39610 | chlorophyll A-B-binding protein, putative | 27.57 | 4.29E-22 | 0.000 | p, m, pl |
| LOC_Os09g17740 | chlorophyll A-B-binding protein, putative | 23.44 | 7.77E-15 | 0.000 | p, m, pl |
| LOC_Os03g54160 | OsMADS14—MADS-box family gene with MIKCc type-box | 20.53 | 1.58E-06 | 0.002 | f |
| LOC_Os05g06780 | LTPL104—Protease inhibitor/seed storage/LTP family protein precursor | 20.32 | 5.77E-05 | 0.039 | t |
| LOC_Os04g38220 | transporter family protein, putative | 16.90 | 9.39E-06 | 0.009 | t, m |
| LOC_Os01g41710 | chlorophyll A-B binding protein, putative | 14.83 | 4.89E-10 | 0.000 | p, m, pl |
| LOC_Os02g45225 | expressed protein | 12.51 | 3.17E-05 | 0.024 | |
| LOC_Os05g38680 | plant-specific domain TIGR01589 family protein | 12.47 | 3.11E-06 | 0.004 | |
| LOC_Os03g06570 | IQ calmodulin-binding motif family protein, putative | 10.18 | 1.70E-04 | 0.086 | |
| LOC_Os01g52250 | starch synthase, putative | 9.29 | 1.06E-06 | 0.002 | pl |
| LOC_Os08g33820 | chlorophyll A-B binding protein, putative | 9.28 | 6.82E-07 | 0.001 | p, m, pl |
| LOC_Os05g51150 | RNA polymerase sigma factor, putative | 8.52 | 9.00E-07 | 0.001 | p. pl |
| LOC_Os03g28160 | jacalin-like lectin domain containing protein | 7.91 | 2.40E-05 | 0.019 | |
| LOC_Os04g32850 | basic proline-rich protein, putative | 7.71 | 6.11E-07 | 0.001 | t |
| LOC_Os06g01250 | cytochrome P450, putative | 7.24 | 4.08E-06 | 0.004 | |
| LOC_Os04g52260 | LTPL124—Protease inhibitor/seed storage/LTP family protein precursor | 7.01 | 2.18E-07 | 0.000 | t |
| LOC_Os07g37550 | chlorophyll A-B binding protein, putative | 6.55 | 2.13E-06 | 0.003 | p, m, pl |
| LOC_Os01g08020 | boron transporter protein, putative | 6.54 | 2.01E-04 | 0.098 | t, m |
| LOC_Os04g08828 | cytochrome P450, putative | 6.43 | 1.07E-06 | 0.002 | pl |
| LOC_Os03g29770 | EF hand family protein | 6.35 | 2.64E-05 | 0.020 | |
| LOC_Os11g13890 | chlorophyll A-B-binding protein, putative | 5.76 | 2.07E-10 | 0.000 | p, m, pl |
| LOC_Os01g60730 | RING-H2 finger protein, putative | 5.39 | 8.82E-06 | 0.008 | |
| LOC_Os04g57880 | Heat-shock protein DnaJ, putative | 4.79 | 1.67E-07 | 0.000 | pl |
| LOC_Os06g21590 | chlorophyll A-B-binding protein, putative | 4.71 | 4.18E-05 | 0.030 | p, m, pl |
| LOC_Os11g31190 | nodulin MtN3 family protein, putative | 4.54 | 6.42E-07 | 0.001 | t, m |
| LOC_Os12g37510 | UDP-glucoronosyl and UDP-glucosyl transferase domain-containing protein | 4.53 | 1.23E-04 | 0.069 | |
| LOC_Os01g37590 | peptide transporter PTR2, putative | 4.52 | 9.44E-07 | 0.001 | t, m |
| LOC_Os01g63190 | laccase precursor protein, putative | 4.45 | 6.22E-06 | 0.006 | |
| LOC_Os06g06290 | GDSL-like lipase/acylhydrolase, putative | 4.38 | 1.32E-12 | 0.000 | |
| LOC_Os05g28740 | universal stress protein domain-containing protein, putative | 3.98 | 3.33E-05 | 0.025 | |
| LOC_Os02g15120 | RING-H2 finger protein, putative | 3.92 | 6.50E-06 | 0.007 | |
| LOC_Os05g02070 | expressed protein | 3.91 | 8.62E-10 | 0.000 | |
| LOC_Os02g10390 | chlorophyll A-B-binding protein, putative | 3.85 | 1.90E-08 | 0.000 | p, m, pl |
| LOC_Os07g41370 | OsMADS18—MADS-box family gene with MIKCc type-box | 3.82 | 2.48E-08 | 0.000 | f |
| LOC_Os03g08470 | AP2 domain-containing protein | 3.81 | 3.33E-07 | 0.001 | pl |
| LOC_Os03g06520 | sulfate transporter, putative | 3.80 | 7.07E-06 | 0.007 | t, m |
| LOC_Os03g15920 | expressed protein | 3.79 | 7.19E-05 | 0.047 | |
| LOC_Os03g47610 | thiamine biosynthesis protein thiC, putative | 3.76 | 4.99E-06 | 0.005 | pl |
| LOC_Os04g52250 | LTPL123—Protease inhibitor/seed storage/LTP family protein precursor | 3.73 | 6.36E-07 | 0.001 | t |
| LOC_Os05g33840 | transketolase, putative | 3.64 | 1.57E-06 | 0.002 | pl |
| LOC_Os01g40860 | aldehyde dehydrogenase, putative | 3.62 | 4.80E-05 | 0.033 | |
| LOC_Os01g01340 | light-induced protein 1-like, putative | 3.48 | 2.20E-08 | 0.000 | pl |
| LOC_Os08g35860 | cytokinin dehydrogenase precursor, putative | 3.47 | 4.90E-08 | 0.000 | |
| LOC_Os04g16450 | aquaporin protein, putative | 3.47 | 6.90E-06 | 0.007 | t, m |
| LOC_Os02g50960 | auxin efflux carrier component, putative | 3.10 | 1.34E-04 | 0.071 | t, m |
| LOC_Os02g41630 | phenylalanine ammonia-lyase, putative | 3.02 | 3.51E-05 | 0.026 | |
| LOC_Os12g29220 | nodulin MtN3 family protein, putative | 2.81 | 1.85E-05 | 0.016 | t, m |
| LOC_Os08g04450 | DAG protein, chloroplast precursor, putative | 2.76 | 3.80E-05 | 0.028 | pl |
| LOC_Os08g10080 | no apical meristem protein, putative | 2.64 | 3.08E-07 | 0.001 | |
| LOC_Os05g31140 | glycosyl hydrolases family 17, putative | 2.60 | 2.21E-08 | 0.000 | m |
| LOC_Os06g22960 | aquaporin protein, putative | 2.57 | 3.76E-07 | 0.001 | t, m, pl |
| LOC_Os05g35470 | dienelactone hydrolase family protein | 2.56 | 1.93E-05 | 0.016 | pl |
| LOC_Os03g50310 | CCT/B-box zinc finger protein, putative | 2.54 | 7.01E-05 | 0.046 | m, pl |
| LOC_Os08g03310 | zinc finger family protein, putative | 2.35 | 1.34E-05 | 0.012 | |
| LOC_Os03g20700 | magnesium-chelatase, putative | 2.28 | 1.07E-04 | 0.063 | p, m, pl |
| LOC_Os09g35940 | cytochrome P450, putative | 1.76 | 2.01E-04 | 0.098 | |
| LOC_Os09g29200 | glutathione S-transferase, putative | -1.89 | 1.92E-04 | 0.096 | c |
| LOC_Os03g20370 | OsCam1-1—Calmodulin | -1.96 | 9.23E-05 | 0.057 | c |
| LOC_Os03g28940 | ZIM domain-containing protein, putative | -1.96 | 1.17E-04 | 0.068 | |
| LOC_Os03g55240 | cytochrome P450, putative | -1.97 | 2.03E-04 | 0.098 | |
| LOC_Os11g47809 | metallothionein, putative | -2.01 | 1.60E-05 | 0.014 | |
| LOC_Os01g27210 | glutathione S-transferase, putative | -2.09 | 8.78E-05 | 0.055 | c |
| LOC_Os07g09340 | plasma membrane ATPase, putative | -2.14 | 9.63E-05 | 0.058 | |
| LOC_Os08g01160 | Membrane-associated DUF588 domain-containing protein, putative | -2.18 | 1.67E-04 | 0.086 | |
| LOC_Os10g38489 | glutathione S-transferase GSTU6, putative | -2.23 | 1.65E-04 | 0.086 | c |
| LOC_Os07g39350 | transporter family protein, putative | -2.34 | 2.23E-06 | 0.003 | |
| LOC_Os06g04070 | pyridoxal-dependent decarboxylase protein, putative | -2.37 | 7.85E-05 | 0.050 | |
| LOC_Os05g38880 | expressed protein | -2.38 | 9.85E-05 | 0.059 | |
| LOC_Os02g42990 | OsSAUR11—Auxin-responsive SAUR gene family member | -2.56 | 1.34E-04 | 0.071 | |
| LOC_Os06g48250 | ATPase, putative | -2.66 | 1.87E-04 | 0.094 | |
| LOC_Os01g41010 | DUF581 domain containing protein | -2.66 | 1.87E-05 | 0.016 | |
| LOC_Os12g04500 | response regulator receiver domain-containing protein | -2.66 | 4.87E-05 | 0.033 | |
| LOC_Os10g31330 | retrotransposon protein, putative, unclassified | -2.69 | 4.08E-06 | 0.004 | |
| LOC_Os11g04720 | OsRR10 type-A response regulator | -2.72 | 3.98E-06 | 0.004 | |
| LOC_Os03g53540 | expressed protein | -2.73 | 1.27E-04 | 0.070 | |
| LOC_Os04g37490 | oxidoreductase, aldo/keto reductase family protein, putative | -2.80 | 1.48E-05 | 0.013 | |
| LOC_Os01g04330 | OsCML16—Calmodulin-related calcium sensor protein | -2.95 | 1.64E-04 | 0.086 | |
| LOC_Os07g12890 | metal cation transporter, putative | -3.00 | 6.73E-06 | 0.007 | |
| LOC_Os02g20360 | tyrosine aminotransferase, putative | -3.13 | 9.18E-05 | 0.057 | |
| LOC_Os03g11900 | transporter family protein, putative | -3.13 | 2.62E-13 | 0.000 | |
| LOC_Os07g32060 | UDP-glucoronosyl/UDP-glucosyl transferase, putative | -3.14 | 1.01E-04 | 0.060 | |
| LOC_Os12g39360 | aspartic proteinase nepenthesin precursor, putative | -3.20 | 2.12E-07 | 0.000 | |
| LOC_Os05g50100 | expressed protein | -3.25 | 1.47E-05 | 0.013 | |
| LOC_Os03g10100 | transporter family protein, putative | -3.34 | 2.33E-05 | 0.019 | |
| LOC_Os01g72530 | OsCML31—Calmodulin-related calcium sensor protein | -3.38 | 1.28E-04 | 0.070 | c |
| LOC_Os01g45110 | anthocyanin 3-O-beta-glucosyltransferase, putative | -3.76 | 3.49E-06 | 0.004 | |
| LOC_Os01g28450 | SCP-like extracellular protein | -3.84 | 3.45E-06 | 0.004 | |
| LOC_Os05g38860 | expressed protein | -4.05 | 2.14E-05 | 0.017 | |
| LOC_Os07g48800 | VQ domain-containing protein, putative | -4.30 | 2.04E-04 | 0.098 | |
| LOC_Os06g05420 | expressed protein | -4.43 | 1.29E-04 | 0.070 | |
| LOC_Os04g47360 | OsPOP9—Putative Prolyl Oligopeptidase homolog | -4.46 | 9.85E-08 | 0.000 | |
| LOC_Os06g48560 | transferase family protein, putative | -4.81 | 6.09E-06 | 0.006 | |
| LOC_Os03g58300 | indole-3-glycerol phosphate lyase, chloroplast precursor, putative | -6.49 | 4.30E-05 | 0.030 | |
| LOC_Os03g60580 | actin-depolymerizing factor, putative | -6.57 | 7.06E-08 | 0.000 | |
| LOC_Os03g58320 | indole-3-glycerol phosphate lyase, chloroplast precursor, putative | -6.59 | 4.58E-05 | 0.032 | |
| LOC_Os04g43200 | caleosin-related protein, putative | -6.71 | 1.18E-04 | 0.068 | |
| LOC_Os09g34230 | UDP-glucoronosyl/UDP-glucosyl transferase, putative | -6.87 | 2.47E-08 | 0.000 | |
| LOC_Os11g03760 | expressed protein | -6.90 | 2.39E-07 | 0.001 | |
| LOC_Os06g46740 | early nodulin 20 precursor, putative | -8.65 | 1.70E-04 | 0.086 | |
| LOC_Os07g45080 | expressed protein | -9.36 | 3.56E-06 | 0.004 | |
| LOC_Os01g10110 | cytokinin dehydrogenase precursor, putative | -9.52 | 4.81E-07 | 0.001 | |
| LOC_Os03g17790 | OsRCI2-5—Putative low-temperature and salt-responsive protein | -10.43 | 2.10E-08 | 0.000 | |
| LOC_Os10g18150 | crooked neck, putative | -15.84 | 8.75E-07 | 0.001 | |
| LOC_Os05g46480 | late embryogenesis abundant protein, group 3, putative | -17.33 | 6.11E-05 | 0.041 | |
| LOC_Os11g26790 | dehydrin, putative | -26.49 | 8.16E-05 | 0.052 | c |
| LOC_Os01g72090 | SE13/OsHY2, phycoerythrobilin ferredoxin oxidoreductase, putative | -35.33 | 1.23E-04 | 0.069 | f |
| LOC_Os01g72120 | glutathione S-transferase, putative | -35.97 | 1.23E-04 | 0.069 | c |
| LOC_Os01g72130 | glutathione S-transferase, putative | -84.91 | 1.65E-14 | 0.000 | c |
| LOC_Os01g72100 | OsCML10—Calmodulin-related calcium sensor protein | -115.59 | 7.53E-18 | 0.000 | c |
| LOC_Os01g72170 | glutathione S-transferase, putative | -259.89 | 1.27E-36 | 0.000 | c |