Table 2.
Aluminum regulated genes in soybean genotype PI 416937 48 h post treatment†.
| Unigene ID | Fold change | Average ± SD | Functional category | Annotation | e-value |
|---|---|---|---|---|---|
| Gma.6089 | 226.57 (up) | 6.48 ± 1.80 | Unclassified | Unknown | — |
| BM139770 | 176.22 (up) | 5.91 ± 0.80 | Unclassified | Unknown | — |
| Gma.2586 | 154.32 (up) | 5.86 ± 0.94 | Unclassified | Unknown | — |
| Gma.1654 | 130.42 (up) | 4.69 ± 0.64 | Transport | Coatomer protein complex subunit 2 protein transporter | 2e − 51 |
| Gma.26937 | 115.43 (up) | 5.43 ± 1.37 | Unclassified | Unknown | — |
| Gma.35222 | 113.94 (up) | 4.67 ± 0.56 | Stress response | Syringolide-induced protein B13-1-9 defense protein | 4e − 64 |
| Gma.24062 | 89.44 (up) | 5.15 ± 1.37 | Unclassified | Unknown | — |
| Gma.8048 | 79.07 (up) | 5.03 ± 0.94 | Unclassified | Unknown | — |
| Gma.27466 | 72.87 (up) | 4.96 ± 1.57 | Unclassified | Unknown | — |
| Gma.12326 | 71.14 (up) | 4.84 ± 1.90 | Unclassified | Unknown | — |
| Gma.6948 | 69.75 (up) | 4.69 ± 1.27 | Unclassified | Unknown | — |
| BU551397 | 65.63 (up) | 4.37 ± 0.70 | Unclassified | Hypothetical protein | 2e − 15 |
| Gma.2523 | 61.59 (up) | 4.78 ± 0.96 | Stress response | Secretory protein (R14 protein soybean-defense protein) | 6e − 64 |
| Gma.35601 | 59.51 (up) | 3.61 ± 0.43 | Transport | Heavy-metal transport/detoxification | 2e − 19 |
| Gma.6948 | 58.09 (up) | 4.45 ± 0.98 | Unclassified | Unknown | — |
| Gma.16246 | 55.90 (up) | 4.27 ± 0.59 | Unclassified | BAP2 (BON associated protein 2) | 1e − 15 |
| Gma.30731 | 54.43 (up) | 4.14 ± 0.90 | Unclassified | Unknown | — |
| BI967874 | 53.43 (up) | 4.4 ± 1.35 | Unclassified | Unknown | — |
| Gma.4526 | 50.59 (up) | 4.38 ± 1.02 | Transcription factor | Zinc finger (C2H2 family protein) | 7e − 27 |
| Gma.25191 | 47.41 (up) | 5.06 ± 1.11 | Unclassified | Unknown | — |
| Gma.9397 | 47.24 (up) | 4.28 ± 0.98 | Stress response | Syringolide-induced protein B13-1-9/defense protein | 1e − 53 |
| Gma.25462 | 46.34 (up) | 4.34 ± 0.65 | Transcription factor | WRKY19 DNA-binding protein 19 | 1e − 62 |
| BU579058 | 45.35 (up) | 4.44 ± 1.44 | Metabolism | N-acetyltransferase activity | 2e − 40 |
| Gma.28852 | 43.12 (up) | 4.10 ± 0.58 | Metabolism | Cytochrome P450 | 0.0 |
| Gma.27514 | 41.91 (up) | 3.91 ± 0.98 | Stress response | Basic secretory protein/defense protein | 3e − 69 |
| Gma.23347 | 41.67 (up) | 4.08 ± 1.79 | Unclassified | Unknown | — |
| Gma.22079 | 41.46 (up) | 4.34 ± 0.70 | Stress response | Glutathione s-transferase | 5e − 57 |
| Gma.32994 | 40.77 (up) | 3.71 ± 0.62 | Stress response | Acidic endochitinase (chitinase III-A) | 7e − 93 |
| Gma.27743 | 39.93 (up) | 4.14 ± 0.98 | Unclassified | Unknown | — |
| Gma.1622 | 39.56 (up) | 3.93 ± 1.02 | Unclassified | Hypothetical protein/ABC transporter like | 8e − 31 |
| Gma.36756 | 36.68 (up) | 4.27 ± 1.08 | Transcription factor | WRKY17 protein/transcription factor | 1e − 101 |
| Gma.5622 | 32.77 (up) | 4.29 ± 0.75 | Unclassified | Unknown | — |
| Gma.26204 | 32.06 (up) | 3.82 ± 0.46 | Metabolism | Transferase/transferase activity | 2e − 29 |
| Gma.27239 | 31.70 (up) | 3.83 ± 1.35 | Unclassified | Unknown | — |
| Gma.36287 | 31.08 (up) | 4.56 ± 0.48 | Metabolism | Carboxylesterase/lipase activity | 3e − 64 |
| Gma.28246 | 30.45 (up) | 3.54 ± 0.64 | Unclassified | Unknown | — |
| Gma.36753 | 30.41 (up) | 4.50 ± 0.74 | Transcription factor | WRKY 30(DNA binding protein | 1e − 104 |
| Gma.8565 | 29.01 (up) | 3.45 ± 0.70 | Metabolism | Hydrolase /xyloglucan endotransglycosylase | 5e − 18 |
| Gma.7861 | 28.48 (up) | 3.48 ± 1.34 | Unclassified | Unknown | 5e − 20 |
| Gma.32790 | 28.00 (up) | 3.63 ± 0.99 | Stress response | Band 7 family protein/hypersensitive inducible reaction protein 1 | 3e − 27 |
| Gma.7697 | 27.48 (down) | −3.66 ± 0.81 | Unclassified | Hypothetical protein/31 kDa glycoprotein | 2e − 137 |
| Gma.31827 | 27.44 (up) | 4.22 ± 0.65 | Transcription factor | WRKY70/DNA-binding protein 70 | 5e − 87 |
| Gma.21022 | 27.36 (up) | 4.13 ± 1.18 | Unclassified | Unknown | — |
| Gma.28273 | 27.29 (up) | 3.84 ± 0.87 | Transcription factor | NAC6 /NAC domain protein/apical elongation plant development protein | 2e − 156 |
| Gma.35830 | 27.20 (up) | 3.48 ± 0.77 | Signaling | Regulation of gene silencing/calcium-sensor | 9e < ?b h l t?>−<?ehlt?>33 |
| Gma.8262 | 26.92 (up) | 3.73 ± 1.33 | Stress response | AGc 2-1(oxidative signal-inducible kinase | 3e − 57 |
| Gma.14080 | 26.50 (up) | 3.81 ± 0.80 | Transport | Similar to ATMRP3/multidrug resistance glutathione s-conjugate-exporting ATPase | 8e − 11 |
| Gma.27371 | 25.99 (up) | 3.78 ± 1.33 | Unclassified | Unknown | — |
| BM523736 | 25.34 (up) | 3.76 ± 0.83 | Metabolism | Transferase family protein | 1e − 23 |
| Gma.28330 | 25.32 (up) | 3.84 ± 1.53 | Unclassified | Calcium-binding protein | 7e − 23 |
| Gma.34717 | 24.87 (up) | 3.83 ± 1.15 | Unclassified | Unknown | — |
| Gma.26682 | 24.58 (up) | 3.95 ± 1.15 | Unclassified | Unknown | — |
| Gma.17184 | 24.42 (up) | 3.77 ± 0.52 | Transport | Glycolipid-binding/transport protein | 2e − 57 |
| Gma.11888 | 24.39 (up) | 3.19 ± 0.25 | Transport | ATPP2-B10 (pheloem protien2) carbohydrate binding | 6e − 27 |
| Gma.4222 | 23.57 (up) | 3.14 ± 0.97 | Unclassified | Hypothetical protein | 2e − 57 |
| Gma.26712 | 23.39 (up) | 2.82 ± 0.18 | Unclassified | Unknown | — |
| Gma.33327 | 23.16 (up) | 3.56 ± 0.29 | Transcription factor | Transcription factor | 2e − 166 |
| Gma.17019 | 23.08 (up) | 3.67 ± 1.54 | Unclassified | Unknown | — |
| Gma.33178 | 23.07 (up) | 3.81 ± 1.54 | Unclassified | Plastocyanin-like domain-containing copper ion binding | 3e − 33 |
| Gma 35364 | 22.81 (up) | 3.55 ± 0.40 | Stress response | FAD-linked oxidoreductase 1/carbohydrate-oxidase | 1e − 52 |
| Gma.15839 | 22.63 (down) | −4.00 ± 0.36 | Metabolism | GDSL-motif lipase/hydrolase | 2e − 39 |
| Gma.6948 | 22.54 (up) | 3.73 ± 1.24 | Unclassified | Unknown | — |
| Gma.2821 | 22.36 (up) | 3.40 ± 0.95 | Stress response | PR-5 protein (pathogenesis related) | 4e − 134 |
| Gma.8628 | 21.20 (up) | 3.19 ± 1.11 | Unclassified | Unknown protein | — |
| BQ473604 | 20.51 (up) | 3.43 ± 0.83 | Unclassified | Hypothetical protein | 8e − 46 |
| Gma.9913 | 20.34 (up) | 3.81 ± 0.44 | Unclassified | Unknown protein | — |
| Gma.144 | 20.01 (up) | 3.72 ± 1.00 | Transport | Nodulin protein/transport function | 0.0 |
| Gma.34099 | 19.67 (up) | 2.93 ± 0.93 | Unclassified | Hypothetical protein | 2e − 77 |
| Gma.4305 | 19.63 (up) | 3.82 ± 0.62 | Stress response | Glutathione s-transferase (GST 15) | 7e − 128 |
| Gma.4336 | 19.56 (up) | 3.16 ± 0.98 | Unclassified | Unknown | — |
| Gma.24625 | 19.40 (up) | 3.50 ± 1.12 | Transport | Heavy metal transport/detoxification | 2e − 20 |
| Gma.7726 | 19.18 (up) | 3.36 ± 1.22 | Signalling | Calcium-binding EF hand family protein | 4e − 25 |
| Gma.26531 | 18.95 (up) | 3.55 ± 1.31 | Transcription factor | Zinc finger (C3HC4-type ring familyn) | 2e − 26 |
| Gma.34717 | 18.94 (up) | 3.46 ± 1.24 | Unclassified | Unknown | — |
| BE822282 | 18.64 (up) | 2.87 ± 0.66 | Unclassified | Unknown | — |
| Gma.27062 | 18.22 (up) | 2.96 ± 0.95 | Transcription factor | NAc domain containing protein 2 plant development/apical elongation | 3e − 103 |
| Gma.4478 | 18.03 (up) | 3.54 ± 1.03 | Unclassified | Hypothetical protein | 2e − 10 |
| Gma.24807 | 18.01 (up) | 3.09 ± 0.76 | Unclassified | Unknown | — |
| BK000119.1 | 17.98 (up) | 3.36 ± 0.87 | Cell cycle | Phytosulfokines 4 precursor/ growth factor cell differentiation, cell proliferation | 3e − 19 |
| Gma.29479 | 17.92 (up) | 3.16 ± 0.52 | Unclassified | Unknown | — |
| Gma.10956 | 17.76 (up) | 3.32 ± 0.74 | Stress response | Similar to pathogenesis-related protein (STH-2) | 1e − 40 |
| BI967589 | 17.25 (up) | 3.08 ± 0.49 | Unclassified | Unknown | — |
| Gma.17184 | 17.16 (up) | 2.94 ± 0.11 | Transport | Heavy-metal-associated domain containing protein metal ion transport | 1e − 10 |
| Gma.24561 | 17.08 (up) | 3.15 ± 0.31 | Unclassified | Unknown | — |
| Gma.21739 | 17.05 (up) | 3.33 ± 0.82 | Metabolism | AAA-type ATpase protein/ATpase activity | 5e − 39 |
| Gma.17184 | 16.89 (up) | 3.27 ± 0.63 | Transport | Glycolipid-binding protein/glycolipid transport | |
| Gma.4366 | 16.62 (up) | 3.29 ± 1.27 | Metabolism | VTc2 (Vitamin C defective 2)/ L-ascorobic-acid biosynthesis | 1e − 36 |
| Gma.26405 | 15.37 (up) | 3.04 ± 0.83 | Unclassified | Unknown | — |
| DQ222982 | 15.09 (up) | 3.42 ± 1.04 | Transport | Lipocalin/ fatty acid transport | 2e − 107 |
| Gma.17929 | 15.05 (up) | 3.12 ± 0.58 | Metabolism | Transferase family protein | 8e − 76 |
| Gma.21512 | 14.99 (up) | 2.71 ± 0.78 | Unclassified | Unknown | — |
| BE440732 | 14.85 (up) | 3.48 ± 0.97 | Unclassified | Unknown | — |
| Gma.29663 | 14.64 (up) | 2.52 ± 1.04 | Unclassified | Unknown | — |
| Gma.31861 | 14.60 (up) | 3.09 ± 1.07 | Unclassified | Unknown | — |
| Gma.29655 | 14.52 (up) | 3.00 ± 0.34 | Metabolism | CytochromeP50 subfamily B polypeptide 1 | 3e − 58 |
| Gma.11257 | 14.51 (up) | 2.65 ± 0.86 | Unclassified | Hypothetical protein exo-1, 3-beta-glucanase precursor | 9e − 64 |
| Gma.26640 | 14.48 (up) | 2.93 ± 1.18 | Unclassified | Unknown | — |
| Gma.28243 | 14.18 (up) | 3.28 ± 0.85 | Unclassified | Unknown | — |
| CD394418 | 14.12 (up) | 3.08 ± 1.24 | Metabolism | Ribulose-1, 5-bisphosphate carboxylase | 2e − 30 |
| Gma.1527 | 14.09 (down) | −2.26 ± 1.40 | Metabolism | Dihydroflavonol reductase (anthocyanin biosynthesis) | 0.0 |
| Gma.25234 | 14.08 (up) | 2.96 ± 0.18 | Transcription factor | WRKY43 protein | 4e − 131 |
| Gma.28057 | 13.62 (up) | 2.52 ± 0.68 | Transcription factor | Sali5-4a protein (ADR6) | 8e − 60 |
| Gma.8480 | 13.58 (up) | 3.20 ± 0.69 | Stress response | Resistance protein LM12 | 0.0 |
| Gma.28756 | 13.53 (up) | 2.89 ± 0.53 | Unclassified | Unknown | — |
| BM177218 | 13.45 (up) | 3.14 ± 0.45 | Unclassified | Unknown | — |
| BG551078 | 13.37 (up) | 3.09 ± 0.42 | Unclassified | Conserved hypothetical protein | 6e − 11 |
| Gma.728 | 13.28 (up) | 2.78 ± 0.99 | Unclassified | Unknown | — |
| Gma.35332 | 13.23 (up) | 3.45 ± 0.73 | Unclassified | Unknown | — |
| Gma.26712 | 13.17 (up) | 3.09 ± 1.01 | Unclassified | Unknown | — |
†Significance threshold (P < .01, Fold change >= 3); up: upregulated, down: downregulated; e-value: the probability that the match between the gene and its annotation has no biological basis. Fold change: absolute value of the ratio of gene expression under Al to gene expression of untreated control. SD: standard deviation.