Table 1.
Fold Changes in Gene Expression
| Fold Change by Al Treatment |
|||||||||
|---|---|---|---|---|---|---|---|---|---|
| RAP-DB | Arabidopsis Homolog | Description | Wild Type | sd | Mutant | sd | FDR | P Value | Harboring QTL |
| (1) Cell wall maintenance and root elongation | |||||||||
| Os01g0178300 | None | OsCDT3 | 4.42 | 0.45 | 1.10 | 0.06 | 0.02 | 0.000 | |
| Os01g0652100 | At1g29050 | PMR5-like DUF231 domain containing protein | 3.08 | 0.10 | 1.37 | 0.05 | 0.01 | 0.000 | |
| Os01g0860500 | At5g24090 | Chitinase | 8.69 | 0.54 | 1.15 | 0.08 | 0.02 | 0.000 | |
| Os03g0760800 | At2g39540 | Gibberellin-regulated Cys-rich protein family | 5.11 | 0.62 | 1.27 | 0.10 | 0.02 | 0.000 | |
| Os04g0583500 | EXP14/At3g03220 | Expansin-A10 | 3.38 | 0.95 | 1.11 | 0.13 | 0.06 | 0.004 | |
| Os09g0479900 | At5g59810 | Subtilisin-like Ser protease | 3.15 | 0.29 | 1.54 | 0.03 | 0.02 | 0.000 | |
| Os10g0524600 | SDD1/At1g04110 | Subtilisin-like Ser protease | 3.25 | 0.62 | 1.51 | 0.14 | 0.06 | 0.003 | |
| (2) Membrane protein | |||||||||
| Os01g0869200 | At3g19640 | Putative Mg2+ transporter | 4.19 | 0.22 | 1.26 | 0.05 | 0.01 | 0.000 | Ma et al. (2002) |
| Os02g0131800 | At1g80830 | Nramp | 5.43 | 0.25 | 1.96 | 0.10 | 0.02 | 0.000 | Ma et al. (2002) |
| Os02g0755900 | At1g22400 | UDP-glucuronosyl/UDP-glucosyltransferase | 3.43 | 0.98 | 1.15 | 0.10 | 0.07 | 0.004 | |
| Os03g0755100 | ALS1/At5g39040 | At ALS1 homolog | 3.06 | 0.09 | 1.21 | 0.05 | 0.01 | 0.000 | |
| Os05g0119000 | At2g37330 | STAR2 | 3.78 | 0.29 | 1.64 | 0.05 | 0.02 | 0.000 | |
| Os06g0695800 | At1g67940 | STAR1 | 3.60 | 0.24 | 1.07 | 0.06 | 0.02 | 0.000 | |
| Os09g0426800 | WAX2/At5g57800 | GLOSSY1-like | 4.48 | 0.92 | 1.60 | 0.11 | 0.04 | 0.001 | |
| Os10g0206800 | At1g51340 | MATE | 4.14 | 0.33 | 1.45 | 0.02 | 0.02 | 0.000 | |
| Os10g0578800 | At1g32080 | LrgB-like | 4.10 | 0.38 | 1.84 | 0.11 | 0.02 | 0.000 | |
| (3) Metabolism and detoxification | |||||||||
| Os01g0716500 | At5g10830 | SAM-dependent methyltransferase | 4.39 | 0.62 | 1.78 | 0.38 | 0.06 | 0.003 | |
| Os02g0186800 | At2g30750 | Cytochrome P450 family protein | 4.69 | 0.59 | 1.38 | 0.16 | 0.03 | 0.000 | |
| Os02g0770800 | NIA1/At1g77760 | Nitrate reductase | 9.39 | 2.63 | 1.96 | 0.44 | 0.02 | 0.000 | |
| Os12g0227400 | At3g03080 | Allyl alcohol dehydrogenase | 4.19 | 0.85 | 1.18 | 0.15 | 0.04 | 0.001 | |
| (4) Unknown | |||||||||
| Os01g0731600 | At1g78780 | Hypothetical protein | 11.62 | 1.19 | 1.19 | 0.21 | 0.02 | 0.000 | |
| Os01g0766300 | none | Hypothetical protein | 3.58 | 0.70 | 1.13 | 0.09 | 0.03 | 0.000 | |
| Os01g0919200 | none | Hypothetical protein | 3.10 | 0.88 | 1.29 | 0.19 | 0.08 | 0.008 | Wu et al. (2000) |
| Os03g0126900 | none | Hypothetical protein | 4.31 | 0.99 | 1.09 | 0.04 | 0.03 | 0.001 | |
| Os03g0304100 | At1g56320 | Hypothetical protein | 3.45 | 0.67 | 1.40 | 0.08 | 0.05 | 0.002 | |
| Os04g0419100 | none | Hypothetical protein | 3.36 | 0.35 | 1.34 | 0.10 | 0.02 | 0.000 | |
| Os04g0494900 | At5g11420 | Unknown function DUF642 family | 10.05 | 2.15 | 1.92 | 0.24 | 0.02 | 0.000 | |
| Os07g0493100 | none | Non-protein coding transcript | 10.12 | 1.70 | 1.16 | 0.18 | 0.02 | 0.000 | |
| Os07g0587300 | none | Hypothetical protein | 3.42 | 0.24 | 1.08 | 0.08 | 0.02 | 0.000 | Nguyen et al. (2003) |
| Os11g0488100 | none | Hypothetical protein | 3.14 | 0.63 | 1.06 | 0.04 | 0.04 | 0.001 | Nguyen et al. (2001) |
| Os11g0490100 |
At1g67330 |
Uncharacterized plant-specific DUF579 family |
5.42 |
0.87 |
1.35 |
0.25 |
0.03 |
0.001 |
Nguyen et al. (2001) |
Microarray analysis was performed with wild-type rice (wild type) and art1 mutant exposed to 10 μM Al for 4 h. Data are means ± sd from three independent biological replicates. Genes upregulated by Al more than threefold in the wild type but less than twofold change in the mutant (cutoff by FDR < 0.1 of Benjamini-Hochberg FDR method) were extracted.