Table 2 Combined effects of ABA (PBI425) treatment and MYBR1 overexpression on ABA-related gene expression
Class | Classification of gene regulation type | Net effect measured | Differentially expressed genes No | Examples of pathways (bold) / genes (italic) | ||||
|---|---|---|---|---|---|---|---|---|
ABA in WT bk | ABA in mybr1 bk | ABA in Ox bk | MYBR1 Ox in ABA/WT bk | MYBR1 Ox in WT bk | ||||
A | Repression of ABA response | ↑ | ↓ | ↑ but lowered | ↓ | ↓ | 278 | 1ometabolism (SUS3; BMY7; GOLS2; SIP2; ALDH7B4; AOX1A; LP1; LTP3/4; PLDδ; POP2; LKR; CORI3) 2ometabolism (4CL1; CCoAOMT1; OMT1; ELI3-1(CAD); CPISCA; CUT1; PAP1); ABA (NCED4; ABF3; ABI1; HVA22D; PP2C); ethylene (ACO putative; MBF1C; EBF1); jasmonates (VSP1; VSP2); redox (CAT2; FSD1); abiotic stress (P5CS1; COR15a/15b; FL3-5A3; COR413-PM1; USPs; RCI2B; ERD4/10; COR47; XERO2; KIN2(COR6.6); DREB1A(CBF3); RD29B; RD29A(COR78/LTI78); RCI2A/2B; DI21; RD2/22; RAB18); GPX6; BGAL6; senescence (SAG12/13/21/29/102; ERD1; APG8a/8e); cell wall (XTH7; AGP12; EXLA1); GSTZ1; GSTU7/16; CYP89A5/A6; ACP5; VIF1; TFs (DREB1A; STO; STH3/LZF1; HAP5C; HB1/7/12; AGL20(SOC1); MYB73; GT2; NFYC3); HAB1/2; LEA14; ACD1; RD26; COR413-PM2; COR414-TM1; COR314-TM2; signaling (ROP2; GDI1); |
B | ABA-like repression | ↓ | ↓ | ↓ | ↓ | ↓ | 386 | Photosynthesis (PSI; PSII; RBCS-1A/1B); GAPA-2; cell wall (CSLD5; FLA8; AGP11/13/16/20/21; EXPA1/8/10/15; XTH6); lipid (ACP1/3/4; NMT3; CLS; SLD1); NIA2; auxin (ILL2; responsive genes); DWF1; 40S and 60S ribosomal protein genes; biotic stress (DAD1/2; PDF1.1/1.2/1.2b/1.2c/1.3/2.2/2.3; TIR); senescence (SEN1); TFs (RAP2.4; COL5/15; GATA5; KNAT6; WUS; BET9); SNG1; cytokinin (ARR4); signaling (CAM3; CDPK6; CPK7; MKK5; GRF6); |
C | MYBR1 independent ABA repression | ↓ | ↓ | ↓ | — | — | 399 | Photosynthesis (PSII; RBCS-3B); cell wall (CSLC4; FLA9; EXPA3/5/6/11; PME1/3); lipid (FAD3/5/7; NMT2; ATS1); auxin (PIN4; IAA4; responsive genes); cytokinin (ARR5/7; IPT2); GA (GASA4); 30S, 40S, 50S and 60S ribosomal protein genes; abiotic/biotic stress (ERD3; PR5); tetrapyrrole biosynthesis; TFs (BEE2; PRE1; HB5); TCH3; ERD6; TIP2 |
D | ABA independent repression | — | — | — | ↓ | ↓ | 171 | myo-Inositol (MIPS1); cell wall (CESA1; AGP1/4/7/15/17; FLA1/2; PRP1; EXPA7; EXPB3; XTH9); lipid (FAD6; CER10); auxin (NIT1; ILL1; SHY2 (IAA3); ARF8); jasmonates (LOX2); abiotic stress (ERD4); TFs (NGA1; TRY; MYBL2); protein degradation (SCPL2; PREP1; MMZ1(UEV1A); UBC1; RHA2B; PAB2; PAC1; PAA1); signaling (GLR3.3; RAN3; ROP4; GRF12); transport (PIP3B; PIP2A; AAP2; CAX1; TGD1; PATL1); PSII (PSBO-2; LHCB2.2/4.2); |
E | Constitutive activation of ABA-repressed responses | ↓ | ↓ | ↓ | ↑ | ↑ | 20 | 30S and 50S ribosomal protein genes; ethylene (EIL1; EFE/ACO); UBQ1; CAM7; |
F | ABA-like activation | ↑ | ↑ | ↑ | ↑ | ↑ | 112 | FAD2; SEX1; HMG1; NIT2; γ-VPE; senescence (SEN2 (CAT3)); abiotic/biotic stress (ERD14/15; HSP15.7-CI; ERDJ2A; wound-responsive gene; PCC1); signaling (RD20; TCH2; CAM1; RAB2; ELF4); PP2A-4; |
G | MYBR1 independent ABA activation | ↑ | ↑ | ↑ | — | — | 254 | myo-Inositol (MIOX1); major carbohydrate metabolism (APL3; SUS1; RCP1); fermentation (ADH; ALDH2B4); cell wall (FLA11; MERI5B; XTR3; EXT3); lipid (DGK1; LTP2; ACX1; MFP2; CUT1; CER1); abiotic stress (SEP2; KIN1; J8/20; ACD32.1; DI19; AOC1; RD22/26; ERD7); ABA (ABA1; CYP707A2); ethylene (ERF4); TFs (HAT2; HAP3; GBF3; KNAT4); protein degradation (RD21A; SCPL11; CLPX/C; L1D; UBQ10; UBC28/30/32); signaling (RAB7B; RAN-1; MKK9; RAFL32; PAT1); DRM1; β-VPE; transport (AHA3; TMT2; SUC2; AAP1; NTP3; KUP11; GCN5; AATP1); |
H | ABA independent activation | — | — | — | ↑ | ↑ | 27 | SON1; SFP1; TGG1; TGG2; WAK2; β-amylase; CSLG3; ACD6; CAM6; |