Table 5.
Hormone-related differentially expressed genes (DEGs) in roots in response to Paraburkholderia kururiensis and Burkholderia vietnamiensis. Presented genes are part of the top 200 up-regulated and down-regulated significantly DEGs [false discovery rate (FDR) < 0.01]; all results for root transcriptome can be found in Supplementary Table 7.
| Gene ID | Log2 fold change | Gene Symbol/Function | RAP Annotation | |
|---|---|---|---|---|
| P. kururiensis | B. vietnamiensis | |||
| Jasmonate | ||||
| Auxin | ||||
| Cytokinine | ||||
| Ethylene | ||||
| Brassinosteroids | ||||
| Gibberellic acid | ||||
| Abscisic acid | ||||
| Salicylic acid | ||||
| Os01g0370000 | 0.87 | 0.96 | OPR9 | NADH:flavin oxidoreductase/NADH oxidase |
| Os05g0362100 | 0.57 | JA synthesis | Similar to protein MFP-b | |
| Os08g0509100 | −2.07 | LOX8 | Similar to lipoxygenase, chloroplast precursor (EC 1.13.11.12) | |
| Os03g0181100 | −1.62 | JAZ10 | Tify domain-containing protein | |
| Os03g0741100 | −1.93 | bHLH148/JA responsive | Basic helix-loop-helix transcription factor | |
| Os03g0180800 | −2.01 | JAZ9 | TIFY domain-containing transcriptional regulator | |
| Os02g0228900 | 0.58 | IAA7 | Similar to auxin-responsive protein IAA18 | |
| Os11g0523800 | 0.49 | ARF1 | Similar to isoform 3 of auxin response factor 23 | |
| Os02g0305950 | −2.92 | SAUR PROTEIN 7 | Similar to calmodulin binding protein | |
| Os08g0529000 | −7.15 | PIN5b | Auxin efflux carrier, auxin homeostasis | |
| Os04g0673300 | 0.66 | 0.94 | RR6 | A-type response regulator, cytokinin signaling |
| Os04g0556500 | −1.35 | −1.64 | cZOGT1 | cis-zeatin-O-glucosyltransferase |
| Os07g0449700 | 1.55 | RR7 | A-type response regulator, cytokinin signaling | |
| Os10g0483500 | 0.66 | CKX3 | FAD linked oxidase, N-terminal domain-containing protein | |
| Os08g0460600 | 1.29 | CKX11 | Similar to cytokinin dehydrogenase 11 | |
| Os11g0143300 | 1.02 | RR9 | A-type response regulator, cytokinin signaling | |
| Os12g0139400 | 1.00 | RR10 | A-type response regulator, cytokinin signaling | |
| Os02g0830200 | 0.81 | RR3 | A-type response regulator, cytokinin signaling | |
| Os05g0591600 | −1.76 | LOGL8/CK synthesis | Similar to carboxy-lyase | |
| Os06g0573900 | 1.31 | 2.12 | ACO | Similar to 1-aminocyclopropane-1-carboxylic acid oxidase |
| Os02g0771600 | 1.03 | 1.06 | ACO3 | Similar to 1-aminocyclopropane-1-carboxylate oxidase |
| Os04g0610900 | 0.77 | 0.93 | CTR3 | Similar to EDR1 |
| Os03g0341000 | −1.79 | −1.99 | ERF66 | Similar to AP2 domain-containing protein RAP2.2 |
| Os07g0674800 | −2.11 | −3.02 | ERF67 | Similar to AP2 domain transcription factor EREBP |
| Os01g0313300 | −1.36 | −2.79 | ERF68 | Similar to EREBP-3 protein (fragment) |
| Os07g0575000 | 1.69 | ERF6 | ERF, DNA-binding domain-containing protein | |
| Os05g0155200 | 0.49 | ERS2 | Similar to ethylene receptor | |
| Os05g0361700 | −1.07 | ERF61 | Similar to EREBP-2 protein (fragment) | |
| Os06g0586000 | −1.31 | ETH responsive | Conserved hypothetical protein | |
| Os03g0183200 | 1.25 | ERF69 | Similar to AP2 domain-containing protein, expressed | |
| Os05g0316800 | 1.03 | ERF56 | Similar to ethylene-responsive transcription factor 9 | |
| Os10g0390800 | 0.75 | EBL1 | Similar to ethylene-responsive transcription factor 3 (EREBP-3) | |
| Os09g0522000 | −2.71 | DREB1B | Similar to dehydration-responsive element-binding protein 1B | |
| Os02g0677300 | −3.39 | DREB1G | Similar to CRT/DRE binding factor 1 | |
| Os11g0289700 | 1.28 | BR synthesis | Cytochrome P450 family protein | |
| Os04g0641700 | −1.32 | ILI1 | Similar to H0423H10.4 protein | |
| Os09g0441400 | −1.02 | BR synthesis | Similar to elicitor-inducible cytochrome P450 | |
| Os05g0560900 | −1.15 | −1.73 | GA2ox8 | Similar to gibberellin 2-beta-dioxygenase |
| Os06g0729400 | 0.55 | GASR8 | Similar to Gibberellin-regulated protein 2 precursor | |
| Os05g0158600 | −1.44 | GA2ox1 | Similar to OsGA2ox1 | |
| Os03g0437200 | −1.99 | −1.67 | Bsr-d1 | Abscisic acid-induced antioxidant defense |
| Os02g0255500 | 0.42 | 0.72 | PYL3 | Similar to extensin (fragment) |
| Os04g0581100 | −2.06 | S3H/SA conjugation | 2OG-Fe(II) oxygenase domain-containing protein | |
| Os11g0259700 | 2.02 | SA Conjugation | Similar to SAM-dependent carboxyl methyltransferase | |
| Strigolactones | ||||
| Os03g0203200 | 0.69 | dwf14 | Strigolactone receptor, strigolactone perception, regulation of shoot branching | |