Table 2.
Gene Ontology (GO) terms enriched in Salsola soda developmental transcriptomes. Top ten GO terms enriched in one stage (first column) compared to a certain other stage (second column) ranked by P-value (see Supplementary Table S4 for all GO terms with P-value ≤0.01 and FDR q-value ≤0.01)
| Stage | Upregulated compared to | Enriched GO term | P-value | FDR q-value | Description |
|---|---|---|---|---|---|
| yS | Cot | GO:0006913 | 2.11E-13 | 6.47E-10 | nucleocytoplasmic transport |
| GO:0051169 | 2.11E-13 | 3.24E-10 | nuclear transport | ||
| GO:0034504 | 7.30E-12 | 7.48E-09 | protein localization to nucleus | ||
| GO:0006606 | 7.30E-12 | 5.61E-09 | protein import into nucleus | ||
| GO:1902593 | 7.30E-12 | 4.49E-09 | single-organism nuclear import | ||
| GO:0051170 | 7.30E-12 | 3.74E-09 | nuclear import | ||
| GO:0051028 | 1.29E-08 | 5.68E-06 | mRNA transport | ||
| GO:0050658 | 5.96E-08 | 2.29E-05 | RNA transport | ||
| GO:0050657 | 5.96E-08 | 2.03E-05 | nucleic acid transport | ||
| GO:0051236 | 5.96E-08 | 1.83E-05 | establishment of RNA localization | ||
| Cot | yS | GO:0019682 | 4.20E-23 | 1.29E-19 | glyceraldehyde-3-phosphate metabolic process |
| GO:0006081 | 4.89E-18 | 7.51E-15 | cellular aldehyde metabolic process | ||
| GO:0044710 | 2.18E-17 | 2.23E-14 | single-organism metabolic process | ||
| GO:0006629 | 3.24E-17 | 2.49E-14 | lipid metabolic process | ||
| GO:0019288 | 9.31E-16 | 5.72E-13 | isopentenyl diphosphate biosynthetic process, methylerythritol 4-phosphate pathway | ||
| GO:0009240 | 9.31E-16 | 4.77E-13 | isopentenyl diphosphate biosynthetic process | ||
| GO:0046490 | 9.31E-16 | 4.08E-13 | isopentenyl diphosphate metabolic process | ||
| GO:0008610 | 1.94E-15 | 7.43E-13 | lipid biosynthetic process | ||
| GO:0044711 | 2.67E-15 | 9.11E-13 | single-organism biosynthetic process | ||
| GO:0044699 | 9.08E-14 | 2.79E-11 | single-organism process | ||
| 1L | Cot | GO:0016556 | 2.81E-08 | 8.63E-05 | mRNA modification |
| GO:0009653 | 6.62E-08 | 1.02E-04 | anatomical structure morphogenesis | ||
| GO:0005984 | 2.99E-07 | 3.07E-04 | disaccharide metabolic process | ||
| GO:0019682 | 1.01E-06 | 7.74E-04 | glyceraldehyde-3-phosphate metabolic process | ||
| GO:0044550 | 1.23E-06 | 7.53E-04 | secondary metabolite biosynthetic process | ||
| GO:0010103 | 1.92E-06 | 9.83E-04 | stomatal complex morphogenesis | ||
| GO:0090626 | 1.92E-06 | 8.42E-04 | plant epidermis morphogenesis | ||
| GO:0009311 | 3.77E-06 | 1.45E-03 | oligosaccharide metabolic process | ||
| GO:0007169 | 4.16E-06 | 1.42E-03 | transmembrane receptor protein tyrosine kinase signaling pathway | ||
| GO:0007167 | 4.16E-06 | 1.28E-03 | enzyme linked receptor protein signalling pathway | ||
| 2L | none | --- | --- | --- | |
| 2L | 1L | none | --- | --- | --- |
| oL | 1L+2L | GO:0031347 | 6.78E-09 | 2.08E-05 | regulation of defence response |
| GO:0080134 | 1.50E-08 | 2.31E-05 | regulation of response to stress | ||
| GO:0006811 | 1.06E-07 | 1.08E-04 | ion transport | ||
| GO:1901698 | 2.86E-07 | 2.20E-04 | response to nitrogen compound | ||
| GO:0042537 | 3.33E-07 | 2.05E-04 | benzene-containing compound metabolic process | ||
| GO:0048583 | 4.38E-07 | 2.24E-04 | regulation of response to stimulus | ||
| GO:0043207 | 5.94E-07 | 2.61E-04 | response to external biotic stimulus | ||
| GO:0009607 | 7.64E-07 | 2.93E-04 | response to biotic stimulus | ||
| GO:0045088 | 1.21E-06 | 4.14E-04 | regulation of innate immune response | ||
| GO:0050896 | 1.37E-06 | 4.19E-04 | response to stimulus |