TABLE 1.
Responding proteins
For all proteins present in both samples of a reciprocal pair, quantitation was pursued. Proteins significantly enriched in DRMs after flg22 treatment are indicated in bold (p < 0.05). Functional category (FC); Arabidopsis Genome Initiative code (AGI code); average fold-change (av fold); number of TM domains based on the consensus predicted by ARAMEMNON (TM, (17)); experimental evidence for PM association (PM, (17–20)); transcriptionally co-expressed with FLS2 (46), number indicates rank of co-expressed gene according to ATTED (ATTED); elevated transcript levels in response to flg22 treatment (flg22 up, (14, 21)); phosphorylated after flg22 treatment (P flg22, (15, 22)); (putative) mutants of according genes were analyzed for flg22 responsiveness in this study (MA); flg22-induced ROS (ROS). enriched (enr.), dephosphorylated (de-p), phosphorylation below the significance threshold (✓), not germinated (ng), no ROS = 1, weak ROS = 2, wild-type ROS = 3, ROS higher than wild-type = 4.
| FC AGI code and annotation | flg22 vs flg22Δ2 |
flg22 vs untreated | flg22Δ2 vs untreated | TM | Expression analysis |
MA | ROS | |||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 0 min av fold | 5 min av fold | 15 min av fold | 5 min av fold | 5 min av fold | PM | ATTED | flg22 up | P flg22 | ||||
| Signaling receptor-like kinase | ||||||||||||
| AT5G46330 FLS2 (flagellin-sensitive 2) | 1,9 | 1,4 | 1,5 | 1 | 1 | ✓ | fls2 | 1 | ||||
| AT3G17840 RLK902 (receptor-like kinase 902) | 0,8 | 1,9 | 1,7 | 1 | ||||||||
| AT3G51550 FER (feronia) | 1,0 | 1,8 | 1,3 | 1 | enr. | 158 | fer | 4 | ||||
| AT3G02880 LRR transmembrane protein kinase, putative | 0,9 | 1,5 | 1,0 | 1,3 | 1,0 | 1 | enr. | ✓ | ||||
| AT5G16590 LRR transmembrane protein kinase, putative | 1,0 | 1,6 | 1,1 | 1,2 | 1 | enr. | ||||||
| AT2G01820 LRR protein kinase, putative | 1,4 | 1,7 | 2,9 | 1,2 | 1 | N526322 | 3 | |||||
| AT4G36180 LRR family protein | 1,2 | 2,2 | 1 | N800016 | 3 | |||||||
| N800009 | 3 | |||||||||||
| AT1G75640 LRR family protein/protein kinase family protein | 0,6 | 1,4 | 1 | N800023 | 3 | |||||||
| AT3G23750 LRR family protein/protein kinase family protein | 0,9 | 1,6 | 1,3 | 1 | ✓ | |||||||
| AT3G46290 HERK1 (herkules receptor kinase 1) | 0,9 | 1,6 | 1,0 | 1,3 | 1,3 | 1 | 224 | ✓ | N657488 | 2 | ||
| N530215 | 3 | |||||||||||
| AT1G11330 S-locus lectin protein kinase family protein | 2,1 | 1 | N520904 | 3 | ||||||||
| N677232 | 3 | |||||||||||
| Other kinases | ||||||||||||
| AT4G04720 CPK21 (calcium-dependent protein kinase 21) | 1,0 | 1,9 | 1,2 | 0–1/myr enr. | N529412 | 2 | ||||||
| AT5G24010 protein kinase family protein | 0,9 | 1,7 | 1,5 | 1,4 | 1,0 | 1 | ||||||
| Other signalling proteins | ||||||||||||
| AT1G05150 calcium-binding EF hand family protein | 0,9 | 1,4 | 1,1 | 1,4 | 0 | ✓ | ||||||
| Transport Plasma membrane ATPases | ||||||||||||
| AT2G18960 AHA1 (H(+)-ATPase 1) | 0,9 | 1,7 | 1,3 | 1,5 | 1,0 | 10 | ✓ | de-p | ost2-1D | 2 | ||
| N657956 | 3 | |||||||||||
| N658025 | 3 | |||||||||||
| AT4G30190 AHA2 (H(+)-ATPase 2) | 1,0 | 1,8 | 1,2 | 1,4 | 1,0 | 10 | enr. | de-p | ||||
| AT5G57350 AHA3 (H(+)-ATPase 3) | 4,7 | 2,7 | 10 | enr. | N662816 | 2 | ||||||
| AT3G47950 AHA4 (H(+)-ATPase 4) | 2,0 | 1,1 | 1,0 | 10 | ✓ | N657917 | 3 | |||||
| Calcium-transporting ATPases | ||||||||||||
| AT5G57110 ACA8 (autoinhibited Ca2+- ATPase 8) | 1,0 | 1,5 | 1,1 | 1,4 | 1,0 | 8–9 | enr. | |||||
| AT4G29900 ACA10 (autoinhibited Ca2+-ATPase 10) | 1,0 | 1,6 | 1,2 | 1,2 | 9 | ✓ | ✓ | ✓ | ||||
| Vacuolar H(+)-ATPases | ||||||||||||
| AT3G28715 VHA-d2 | 1,2 | 1,5 | 1,5 | 0 | ||||||||
| AT3G28710 VHA-d1 | 1,1 | 1,4 | 1,3 | 1,0 | 0 | ✓ | ||||||
| AT4G39080 VHA-a3 | 1,1 | 1,6 | 1,6 | 1,0 | 6 | |||||||
| AT1G78900 VHA-A | 1,0 | 1,6 | 1,3 | 0–1 | enr. | |||||||
| AT2G21410 VHA-a2 | 1,3 | 1,4 | 1,7 | 1,3 | 6 | |||||||
| AT4G11150 VHA-E1 | 1,0 | 1,8 | 1,3 | 1,3 | 1,0 | 0 | ✓ | |||||
| AT1G76030 VHA.B1 | 0,6 | 1,4 | 1,7 | 0,9 | 0 | ✓ | ||||||
| AT3G58730 VHA-D | 1,0 | 2,0 | 1,4 | 0 | ✓ | |||||||
| AT3G42050 VHA-H | 1,6 | 1,4 | 0 | ✓ | ||||||||
| AT1G12840 VHA-C/DET3 (de-etiolated 3) | 1,6 | 0 | det3 | 2 | ||||||||
| N675700 | 3 | |||||||||||
| N667157 | 3 | |||||||||||
| ABC transporter | ||||||||||||
| AT2G36910 PGP1 (P-glycoprotein 1) | 1,8 | 1,3 | 1,2 | 2,1 | 10 | ✓ | N676004 | 3 | ||||
| AT2G47000 PGP4 (P-glycoprotein 4) | 1,0 | 1,8 | 1,2 | 1,3 | 12 | ✓ | N16269 | 3 | ||||
| N657718 | 3 | |||||||||||
| Other transporter | ||||||||||||
| AT5G50200 WR3 (wound-responsive 3); nitrate transporter | 1,1 | 2,0 | 1,3 | 1,3 | 1,0 | 1 | ||||||
| AT4G13510 AMT1;1 (ammonium transport 1) | 0,9 | 1,8 | 1,5 | 1,3 | 0,9 | 12 | ✓ | ✓ | ✓ | N606389 | 3 | |
| N526874 | 3 | |||||||||||
| AT1G11260 STP1 (sugar transporter 1) | 1,0 | 1,6 | 1,2 | 1,4 | 1,0 | 12 | ✓ | 32 | N654185 | 3 | ||
| N661172 | ng | |||||||||||
| AT3G19930 STP4 (sugar transporter 4) | 1,1 | 1,6 | 1,2 | 1,3 | 1,2 | 12 | ✓ | |||||
| AT4G21120 AAT1 (cationic amino acid transporter 1) | 1,1 | 1,4 | 14 | N655701 | 3 | |||||||
| N668361 | 3 | |||||||||||
| AT5G40780 LHT1 (lysine histidine transporter 1) | 2,4 | 1,1 | 1,5 | 11–12 | ✓ | ✓ | N673254 | 3 | ||||
| AT3G54140 PTR1 (peptide transporter 1) | 0,9 | 1,9 | 1,2 | 1,5 | 0,8 | 11 | ✓ | N859493 | 3 | |||
| N648600 | 3 | |||||||||||
| Cell wall-related | ||||||||||||
| AT1G03870 FLA9 (fasciclin-like arabinogalactan 9) | 1,1 | 1,1 | 1,6 | 0–1 | ✓ | |||||||
| AT4G12420 SKU5 (skewed 5); copper ion binding | 0,7 | 1,6 | 4,6 | 1,7 | 1,1 | 0/GPI | ✓ | |||||
| AT1G05570 CALS1/GSL6 (callose synthase 1) | 1,5 | 16 | 401F09 | 3 | ||||||||
| 867B07 | 3 | |||||||||||
| AT4G03550 GSL05/PMR4 (glucan synthase-like 5)a | 1,0 | 1,8 | 1,5 | 1,4 | 14 | ✓ | (✓) | pmr4-1 | 3 | |||
| Intracellular trafficking | ||||||||||||
| AT3G09740 SYP71 (syntaxin of plants 71) | 1,1 | 2,2 | 1,4 | 1,6 | 1 | ✓ | ||||||
| AT1G32050 SCAMP4 (secretory carrier-associated membrane protein 4) | 1,0 | 1,8 | 1,2 | 1,3 | 1,0 | 4 | ✓ | N25052 | 3 | |||
| N859638 | 3 | |||||||||||
| Metabolism | ||||||||||||
| AT3G16860 COLBL8 (cobra-like protein 8 precursor) | 0,9 | 1,6 | 1,4 | 0/GPI | ✓ | |||||||
| AT3G25290 auxin-responsive family protein | 1,2 | 1,9 | 1,1 | 5 | ✓ | |||||||
| AT4G12980 auxin-responsive protein, putative | 1,0 | 1,7 | 1,5 | 1,2 | 5 | ✓ | N657528 | 3 | ||||
| N668432 | 3 | |||||||||||
| AT3G07570 membrane protein, putative | 1,2 | 1,6 | 1,5 | 5–6 | N660482 | 2 | ||||||
| N659517 | 3 | |||||||||||
| AT1G73650 expressed protein | 1,4 | 2,4 | 1,3 | 1,6 | 4 | ✓ | N664946 | 3 | ||||
| Stress/Redox | ||||||||||||
| AT5G06320 NHL3 (NDR1/HIN1-like 3)b | 0,9 | 1,6 | 1,4 | 1,4 | 1,0 | 1 | ✓ | ✓ | N650318 | 3 | ||
| N535427 | 3 | |||||||||||
| AT1G30360 ERD4 (early-responsive to dehydration 4) | 1,0 | 1,8 | 1,3 | 1,4 | 1,0 | 8–9 | enr. | N658161 | 3 | |||
| N658486 | 2 | |||||||||||
| AT3G54200 expressed protein; similar to harpin-induced 1 | 1,0 | 1,8 | 1,1 | 1 | ✓ | ✓ | N594113 | 3 | ||||
| N676251 | 3 | |||||||||||
| AT1G19110 inter-α-trypsin inhibitor heavy chain-related | 1,1 | 2,1 | 1,6 | 1,5 | 1,0 | 0–1 | N655025 | 3 | ||||
| N655011 | 2 | |||||||||||
| Protein modification | ||||||||||||
| AT3G05560 60S ribosomal protein L22–2 (RPL22B) | 1,1 | 0,6 | 4,5 | 0 | ||||||||
| Other | ||||||||||||
| AT2G45820 REM1.3 (remorin)c | 1,2 | 1,7 | 1,7 | 1,6 | 1,0 | 0 | enr. | ✓ | N670775 | 3 | ||
| AT3G61260 REM1.2 (remorin family protein)c | 0,8 | 1,7 | 1,2 | 1,4 | 1,1 | 0 | enr. | ✓ | N661875 | ng | ||
| AT1G72230 plastocyanin-like domain-containing protein | 1,4 | 1,3 | 1,1 | 1,1 | 0/GPI | |||||||
| Unknown | ||||||||||||
| AT1G32190 expressed protein | 0,9 | 1,9 | 1,5 | 1,4 | 1,0 | 0–1/myr | N655558 | 3 | ||||
| AT3G44150 expressed protein | 1,8 | 1,3 | 1,4 | 1 | N663376 | 3 | ||||||
| AT1G17620 expressed protein | 1,1 | 1,6 | 1,2 | 1,3 | 1,0 | 1 | ✓ | N661308 | 2 | |||
| AT3G01290 band 7 family protein | 1,0 | 1,7 | 1,3 | 1,3 | 0–1/myr | enr. | ✓ | N657289 | 3 | |||
| N668706 | 3 | |||||||||||
| AT1G69840 band 7 family protein | 1,0 | 2,0 | 1,4 | 1,4 | 0,9 | 0 | ✓ | 154 | ✓ | |||
| AT5G62740 band 7 family protein | 1,5 | 2,0 | 1,6 | 1,4 | 0 | ✓ | ||||||
b NHL3 transcript accumulation was specifically observed during the interaction with avirulent Pseudomonas syringae strains (25). NHL3-overexpressing plants are more resistant to Pseudomonas syringae (26). Interestingly, NDR1, one of the founders of the NDR1 /HIN1 -like gene family, was shown to interact with RPM1-interacting protein 4 (RIN4), a negative regulator of plant immunity (27).