Table 3.
Functions upregulated in sepals by LGOoe despite the absence of ATML1.
| GO term | p-value | Gene count |
|---|---|---|
| Response to wounding [GO:0009611] | 1.29926e-18 | 43 |
| Response to chitin [GO:0010200] | 5.23826e-11 | 25 |
| Defense response by callose deposition in cell wall [GO:0052544] | 4.10392e-09 | 8 |
| Induced systemic resistance [GO:0009682] | 4.83273e-09 | 10 |
| Defense response [GO:0006952] | 1.01999e-08 | 68 |
| Glucosinolate biosynthetic process [GO:0019761] | 7.67952e-08 | 10 |
| Response to insect [GO:0009625] | 8.8687e-07 | 10 |
| Defense response to fungus, incompatible interaction [GO:0009817] | 1.90923e-06 | 9 |
| Regulation of systemic acquired resistance [GO:0010112] | 2.08231e-05 | 4 |
| Indoleacetic acid biosynthetic process [GO:0009684] | 7.56308e-05 | 5 |
| Oxygen binding [GO:0019825] | 8.54446e-05 | 28 |
| Heme binding [GO:0020037] | 9.22733e-05 | 35 |
| Cellular heat acclimation [GO:0070370] | 0.000112295 | 4 |
| Response to herbivore [GO:0080027] | 0.000112295 | 3 |
| Defense response to fungus [GO:0050832] | 0.000183117 | 38 |
| Tryptophan catabolic process [GO:0006569] | 0.00021621 | 2 |
| Oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, NAD(P)H as one donor, and incorporation of one atom of oxygen [GO:0016709] | 0.000228724 | 19 |
| Response to ethylene [GO:0009723] | 0.000278924 | 19 |
| Allene-oxide cyclase activity [GO:0046423] | 0.000481594 | 2 |
| Sucrose transmembrane transporter activity [GO:0008515] | 0.000535353 | 3 |
| Respiratory burst [GO:0045730] | 0.000540456 | 1 |
| Jasmonic acid mediated signaling pathway [GO:0009867] | 0.000553934 | 7 |
| Sucrose transport [GO:0015770] | 0.000604359 | 4 |
| Palmitoyl-(protein) hydrolase activity [GO:0008474] | 0.000777282 | 2 |
| Thiosulfate sulfurtransferase activity [GO:0004792] | 0.000797888 | 1 |
| Response to desiccation [GO:0009269] | 0.000848643 | 4 |
| Plant-type vacuole [GO:0000325] | 0.00107121 | 5 |
| Hydrogen sulfide biosynthetic process [GO:0070814] | 0.00113603 | 3 |
| Regulation of response to water deprivation [GO:2000070] | 0.00143782 | 2 |
| Adenylylsulfate kinase activity [GO:0004020] | 0.00165573 | 2 |
| Phosphatidylethanolamine binding [GO:0008429] | 0.00165573 | 2 |
| Regulation of glucosinolate biosynthetic process [GO:0010439] | 0.00166834 | 3 |
| Indole glucosinolate metabolic process [GO:0042343] | 0.00192757 | 3 |
| ER body [GO:0010168] | 0.00217588 | 2 |
| L-aspartate:2-oxoglutarate aminotransferase activity [GO:0004069] | 0.00280486 | 2 |
| Response to cadmium ion [GO:0046686] | 0.00285117 | 12 |
| Iron ion binding [GO:0005506] | 0.00513345 | 31 |
GO term describes functions significantly overrepresented among genes that were more strongly expressed in LGOoe atml1-3 sepals than in atml1-3 sepals. p-value is given for the most significant genotypic change associated with each GO term, which sometimes involved genotypic changes other than LGOoe atml1-3 versus atml1-3. Gene count is given for the number of genes that are associated with the GO term, and that also significantly change expression in a GO term-associated genotypic or batch change; in other words, for genes that are responsible for a GO term being associated with a given change of gene activity. Full details of this GO term subset are given in Supplementary File S06.