Table 2.
Gene ontology for genes with differential transcript abundance.
| BIN code | “S” | “T” | “T”/”S”* | MapMan classification |
|---|---|---|---|---|
| 35 | 197 | 232 | 1.18 | Not assigned, no ontology/unknown* |
| 29 | 114 | 142 | 1.25 | Protein, aa activation/synthesis/targeting/postranslational modification/degradation/folding/glycosylation/assembly and cofactor ligation |
| 27 | 77 | 91 | 1.18 | RNA, processing/transcription/regulation of transcription/RNA binding/ |
| 26 | 31 | 37 | 1.19 | Misc |
| 34 | 30 | 37 | 1.23 | Transport, p- and v-ATPases/metal/peptides and oligopeptides/unspecified cations/potassium/ABC transporters and multidrug resistance systems/unspecified anions/Major Intrinsic |
| Proteins/sugars/porins/cyclic nucleotide or calcium regulated channels/amino acids/H+ transporting pyrophosphatase/ammonium/sulfate/metabolite transporters at the envelope membrane/metabolite transporters at the mitochondrial membrane/misc | ||||
| 20 | 31 | 35 | 1.13 | Stress, biotic/abiotic |
| 30 | 27 | 37 | 1.37 | Signaling, in sugar and nutrient physiology/light/receptor kinase/calcium/phosphinositides/G-proteins/MAP kinases/14-3-3 proteins/misc/lipis/ |
| 31 | 30 | 25 | 0.83 | Cell, organization/division/cycle/vesicle transport |
| 28 | 31 | 19 | 0.61 | DNA, synthesis/repair/unspecified |
| 1 | 9 | 29 | 3.22 | PS, lightreaction/photorespiration/calvin cycle |
| 33 | 16 | 22 | 1.38 | Development, storage proteins/late embryogenesis abundant/squamosa promoter binding like (SPL)/unspecified |
| 11 | 15 | 18 | 1.20 | Lipid metabolism, FA synthesis and FA elongation/glycolipid synthesis/FA desaturation/Phospholipid synthesis/TAG synthesis/lipid transfer proteins/unassigned/exotcs/lipid degradation |
| 13 | 13 | 19 | 1.46 | Amino acid metabolism, synthesis/degradation |
| 10 | 22 | 7 | 0.32 | Cell wall, cellulose synthesis/hemicellulose synthesis/call wall proteins/degradation/modification/pectin esterases |
| 16 | 10 | 19 | 1.90 | Secondary metabolism, isoprenoids/phenylpropanoids/N misc.alkaloid-like/sulfur-containing/flavonoids |
| 17 | 12 | 10 | 0.83 | Hormone metabolism, abscisic acid/auxin/brassinosteroid/cytokinin/gibberelin/salicylic acid |
| 23 | 9 | 9 | 1.00 | Nucleotide metabolism, synthesis/degradation/salvage/phosphotransfer and pyrophosphatases/deoxynucleotide metabolism |
| 9 | 1 | 15 | 15.0 | Mitochondrial electron transport / ATP synthesis, NADH-DH/electron transfer flavoprotein/cytochrome c reductase/cytochrome c/cytochrome c oxidase/F1-ATPase |
| 3 | 7 | 7 | 1.00 | Minor CHO metabolism, others/raffinose family/trehalose/myo-inositol/callose/sugar kinases/galactose |
| 21 | 4 | 10 | 2.50 | Redox, thioredoxin/ascorbate/glutaredoxins |
| 8 | 5 | 7 | 1.40 | TCA / org transformation, TCA/other organic acid transformatons |
| 4 | 4 | 5 | 1.25 | Glycolysis, cytosolic branch/plastid branch |
| 2 | 4 | 1 | 0.25 | Major CHO metabolism, synthesis.starch/ degradation.starch |
| 18 | 3 | 2 | 0.67 | Co-factor and vitamine metabolism, molybdenum cofactor/lipoic acid/riboflavin/folate |
| 19 | 3 | 2 | 0.67 | Tetrapyrrole synthesis, glu-tRNA synthetase/protochlorophyllide reductase/heme oxygenase/regulation/unspecified |
| 7 | 3 | 1 | 0.33 | OPP, oxidative PP |
| 5 | 1 | 2 | 2.00 | Fermentation, aldehyde dehydrogenase/PDC |
| 12 | 2 | 1 | 0.50 | N-metabolism, ammonia metabolism/N-degradation/misc |
| 15 | 1 | 2 | 2.00 | Metal handling, acquisition/binding |
| 14 | 1 | 1 | 1.00 | S-assimilation, AKN/APR |
| 24 | 1 | 1 | 1.00 | Biodegradation of Xenobiotics |
| 32 | 0 | 2 | Inf | Micro RNA, natural antisense etc |
| 6 | 1 | 0 | 0.00 | Gluconeogenesis / glyoxylate cycle.Malate DH |
| 22 | 1 | 0 | 0.00 | Polyamine metabolism |
| 25 | 1 | 0 | 0.00 | C1-metabolism |
For each MapMan category (BIN) the number of genes up-regulated in accession 3170 (“T”) and up-regulated in accession 3231 (“S”) is given.
*
(number of T-calls)/(number of “S” calls); ratio<0.5 and ratio>2 is indicated in bold. See also Supplementary Table 3A. *BIN classification, 2nd level sub-BIN's of a gene set are listed separated by “/”).