Table 3.
Over-representative GO terms of biological process for DE unigenes between the control and the saline-alkaline-treated sample
| Gene ontology term | Cluster number in treated sample | Cluster frequency | Corrected P-value |
| Response to oxygen-containing compound | 377 | 0.127 | 3.87×10−15 |
| Response to chemical | 589 | 0.198 | 1.01×10−12 |
| Response to acid | 267 | 0.090 | 1.94×10−12 |
| Response to water | 108 | 0.036 | 7.44×10−11 |
| Response to water deprivation | 106 | 0.036 | 8.26×10−11 |
| Response to chitin | 54 | 0.018 | 5.17×10−9 |
| Response to organonitrogen compound | 63 | 0.021 | 6.99×10−9 |
| Response to endogenous stimulus | 294 | 0.099 | 7.14×10−9 |
| Response to inorganic substance | 277 | 0.093 | 1.89×10−8 |
| Response to stimulus | 1050 | 0.353 | 7.29×10−8 |
| Response to karrikin | 55 | 0.018 | 1.16×10−6 |
| Response to fungus | 92 | 0.031 | 2.14×10−6 |
| Multi-organism process | 295 | 0.099 | 4.07×10−6 |
| Nucleosome assembly | 43 | 0.014 | 4.46×10−6 |
| Nucleosome organization | 43 | 0.014 | 4.46×10−6 |
| Response to organic substance | 357 | 0.120 | 7.62×10−6 |
| Response to biotic stimulus | 223 | 0.075 | 1.17×10−5 |
| DNA packaging | 48 | 0.016 | 1.21×10−5 |
| Response to stress | 625 | 0.210 | 1.27×10−5 |
| Response to external biotic stimulus | 215 | 0.072 | 1.49×10−5 |
| Response to other organism | 215 | 0.072 | 1.49×10−5 |
| DNA conformation change | 62 | 0.021 | 2.37×10−5 |
| Benzene-containing compound metabolic process | 29 | 0.010 | 2.94×10−5 |
| Response to heat | 74 | 0.05 | 3.72×10−5 |
| Response to hormone | 256 | 0.086 | 5.26×10−5 |
| Chromatin assembly | 43 | 0.014 | 5.32×10−5 |
| Protein-DNA complex assembly | 43 | 0.014 | 6.69×10−5 |
| Protein-DNA complex subunit organization | 43 | 0.014 | 6.69×10−5 |
| Defense response to fungus | 65 | 0.022 | 7.49×10−5 |
| hromatin assembly or disassembly | 47 | 0.016 | 8.54×10−5 |
| Defense response | 208 | 0.070 | 9.45×10−5 |
| Anthocyanin-containing compound biosynthetic process | 12 | 0.004 | 1.30×10−4 |
| Response to abiotic stimulus | 28 | 0.144 | 4.70×10−4 |
| Sulfate transport | 24 | 0.008 | 9.90×10−4 |
| Response to external stimulus | 282 | 0.095 | 1.22×10−4 |
| Photoinhibition | 12 | 0.004 | 1.83×10−3 |
| Negative regulation of photosynthesis, light reaction | 12 | 0.004 | 1.83×10−3 |
| Defense response to other organism | 149 | 0.050 | 1.83×10−3 |
| Defense response, incompatible interction | 59 | 0.020 | 2.14×10−3 |
| Response to nitrogen compound | 82 | 0.028 | 2.24×10−3 |
| Respiratory burst involved in defense response | 15 | 0.005 | 3.22×10−3 |
| Response to temperature stimulus | 155 | 0.052 | 4.04×10−3 |
| Respiratory burst | 15 | 0.005 | 5.35×10−3 |
| Negative regulation of cellular protein metabolic process | 25 | 0.008 | 5.51×10−3 |
| Negative regulation of protein metabolic process | 25 | 0.008 | 5.51×10−3 |
| Phenol-containing compound metabolic process | 21 | 0.007 | 7.15×10−3 |
| Iorganic anion transport | 52 | 0.017 | 8.11×10−3 |
| Negative regulation of abscisic acid-activated signaling pathway | 19 | 0.006 | 1.22×10−2 |
| Phenol-containing compound biosynthetic process | 19 | 0.006 | 1.22×10−2 |
| Negative regulation of response to alcohol | 19 | 0.006 | 1.22×10−2 |
| Sulfur compound transport | 25 | 0.008 | 1.24×10−2 |
| Sulfate transmembrane transport | 20 | 0.007 | 2.10×10−2 |
| Cell proliferation | 31 | 0.010 | 2.23×10−2 |
| Systemic acquired resistance | 39 | 0.013 | 2.65×10−2 |
| Salicylic acid biosynthetic process | 17 | 0.006 | 2.91×10−2 |
| egative regulation of protein modification process | 18 | 0.06 | 3.71×10−2 |
| Response to osmotic stress | 161 | 0.054 | 3.97×10−2 |
| Salicylic acid metabolic process | 17 | 0.006 | 4.13×10−2 |
| Flavonoid biosynthetic process | 22 | 0.007 | 4.71×10−2 |