Table 4. Down-regulated functional clusters of GO terms for biological processes.
| Functional clusters | Di-2 | Ei-2 | Ler-0 | St-0 | Wt-0 |
|---|---|---|---|---|---|
| acetyl-CoA metabolic process | ✓ | ||||
| circadian rhythm | ✓ | ||||
| cell proliferation | ✓ | ✓ | ✓ | ||
| tissue development | ✓ | ||||
| response to ionizing radiation | ✓ | ||||
| ribosomal small subunit biogenesis | ✓ | ✓ | |||
| positive regulation of hydrolase activity | ✓ | ✓ | |||
| protein maturation | ✓ | ✓ | |||
| photorespiration | ✓ | ✓ | |||
| transcription factor import into nucleus | ✓ | ||||
| cell-cell signaling | ✓ | ||||
| mitotic recombination | ✓ | ✓ | |||
| microtubule-based movement | ✓ | ||||
| mitotic cell cycle | ✓ | ||||
| dicarboxylic acid biosynthetic process | ✓ | ||||
| response to molecule of bacterial origin | ✓ | ||||
| regulation of cell proliferation | ✓ | ||||
| response to endoplasmic reticulum stress | ✓ | ||||
| cell redox homeostasis | ✓ | ||||
| mRNA metabolic process | ✓ | ||||
| protein folding | ✓ | ✓ | |||
| nucleus organization | ✓ | ||||
| cullin deneddylation | ✓ | ||||
| pseudouridine synthesis | ✓ | ||||
| DNA-templated transcription, elongation | ✓ | ||||
| regulation of nucleoside metabolic process | ✓ | ||||
| translational elongation | ✓ | ✓ | |||
| proteasomal protein catabolic process | ✓ | ||||
| RNA endonucleolytic cleavage and ligation | ✓ | ✓ | ✓ | ||
| posttranscriptional regulation of gene expression | ✓ | ✓ | |||
| glycerophospholipid biosynthetic process | ✓ | ||||
| peptidyl-amino acid modification | ✓ | ||||
| N-terminal protein myristoylation | ✓ | ✓ | |||
| translation | ✓ | ✓ | ✓ | ✓ | |
| vernalization response | ✓ | ||||
| killing of cells of other organism | ✓ | ✓ | |||
| protein import into peroxisome matrix | ✓ | ||||
| abscission | ✓ | ||||
| myo-inositol hexakisphosphate biosynthetic process | ✓ | ✓ | |||
| chlorophyll catabolic process | ✓ | ||||
| gibberellic acid mediated signaling pathway | ✓ | ||||
| seed dormancy process | ✓ | ||||
| ethylene biosynthetic process | ✓ | ✓ | |||
| cytoplasmic transport | ✓ | ||||
| response to decreased oxygen levels | ✓ | ||||
| chromatin assembly or disassembly | ✓ | ✓ | |||
| anther development | ✓ | ||||
| microtubule-based process | ✓ | ✓ | |||
| actin filament-based movement | ✓ | ||||
| cytokinesis by cell plate formation | ✓ | ||||
| toxin catabolic process | ✓ | ||||
| salicylic acid biosynthetic process | ✓ | ||||
| response to cyclopentenone | ✓ | ||||
| negative regulation of programmed cell death | ✓ | ✓ | |||
| RNA methylation | ✓ | ||||
| ER-nucleus signaling pathway | ✓ | ||||
| cell fate specification | ✓ | ||||
| response to hydrogen peroxide | ✓ | ||||
| pyrimidine ribonucleotide biosynthetic process | ✓ | ||||
| heat acclimation | ✓ | ||||
| detection of biotic stimulus | ✓ | ||||
| proteasome core complex assembly | ✓ | ||||
| regulation of G2/M transition of mitotic cell cycle | ✓ | ||||
| ER to Golgi vesicle-mediated transport | ✓ | ||||
| response to mechanical stimulus | ✓ | ||||
| auxin biosynthetic process | ✓ | ||||
| response to glucose | ✓ | ||||
| respiratory burst involved in defense response | ✓ | ||||
| regulation of hydrogen peroxide metabolic process | ✓ | ||||
| DNA replication initiation | ✓ | ||||
| MAPK cascade | ✓ | ||||
| positive regulation of flavonoid biosynthesis | ✓ | ||||
| plant-type cell wall cellulose metabolic process | ✓ | ||||
| ubiquitin-dependent protein catabolic process | ✓ | ||||
| cellular response to hypoxia | ✓ | ||||
| response to gibberellin | ✓ | ||||
| vegetative phase change | ✓ | ||||
| protein targeting to chloroplast | ✓ | ||||
| DNA recombination | ✓ | ||||
| maltose metabolic process | ✓ | ||||
| photosynthetic electron transport in photosystem I | ✓ | ||||
| cell cycle process | ✓ | ||||
| response to gamma radiation | ✓ | ||||
| protein deubiquitination | ✓ | ||||
| nuclear-transcribed mRNA catabolic process | ✓ | ||||
| auxin polar transport | ✓ | ||||
| polarity specification of adaxial/abaxial axis | ✓ | ||||
| regulation of protein modification process | ✓ | ||||
| leaf morphogenesis | ✓ | ||||
| regulation of gene expression, epigenetic | ✓ |
Left column represent super categories of GO terms. The rest of columns indicate whether the super category was down-regulated in the corresponding ecotype.