Table 1.
Iron deficiency regulated conserved genes in Arabidopsis.
| AGIa | Name and annotation | Dinneny et al., 2008 | Yang et al., 2010 | Lan et al., 2013b | Mai et al., 2016 | |||
|---|---|---|---|---|---|---|---|---|
| −Fe | −Fe 3d | −Fe 3d | −Fe 6 d | |||||
| 12h | 24 h | 48 h | 72 h | |||||
| Roots | Roots | Roots | Seedlings | |||||
| Fold-changes (−Fe/+Fe) | ||||||||
| UP-REGULATED CORE GENES UNDER Fe DEFICIENCY | ||||||||
| Glycolysis | ||||||||
| AT1G53310 | PPC1, phosphoenolpyruvate carboxylase | 1.0 | 2.2 | 2.6 | 2.1 | 2.2 | 2.4 | 1.6 |
| Cell wall | ||||||||
| AT1G09790 | Phytochelatin synthetase-related | 1.2 | 3.3 | 5.9 | 5.3 | 8.4 | 53.4 | 1.9 |
| AT4G02330 | Pectinesterase family protein | 1.9 | 11.0 | 21.3 | 21.3 | 10.3 | 4.8 | 1.9 |
| Amino acid metabolism | ||||||||
| AT1G49820 | MTK, 5-methylthioribose kinase, involved in methionine cycle | 1.1 | 2.8 | 3.6 | 3.3 | 2.5 | 2.7 | 1.7 |
| Metal handling | ||||||||
| AT1G23020 | FRO3, ferric chelate reductase 3 | 1.5 | 5.6 | 6.4 | 5.1 | 8.4 | 8.0 | 3.9 |
| AT1G56430 | NAS4, nicotianamine synthase 4 | 1.8 | 6.8 | 14.6 | 16.3 | 5.0 | 5.0 | 2.9 |
| AT5G04950 | NAS1, nicotianamine synthase 1 | 1.2 | 3.7 | 4.9 | 5.0 | 3.1 | 4.4 | 2.0 |
| Secondary metabolism | ||||||||
| AT3G21240 | 4CL2, 4-coumarate:CoA ligase 2 | 1.2 | 3.5 | 5.6 | 5.7 | 3.9 | 3.6 | 1.6 |
| AT3G50740 | UGT72E1, UDPG:coniferyl alcohol glucosyltransferase | 1.1 | 3.8 | 6.0 | 5.9 | 4.2 | 8.5 | 2.2 |
| Hormone metabolism | ||||||||
| AT3G12900 | Oxidoreductase, 2OG-Fe(II) oxygenase family protein | 1.7 | 11.4 | 33.0 | 36.6 | 97.2 | 546.9 | 14.7 |
| Stress | ||||||||
| AT1G09560 | GLP5, GERMIN-LIKE PROTEIN 5 | 1.1 | 2.4 | 2.3 | 2.1 | 3.0 | 7.7 | 3.7 |
| AT2G42750 | DNAJ heat shock N-terminal domain-containing protein | 1.3 | 3.0 | 4.8 | 4.1 | 2.0 | 1.9 | 2.2 |
| AT3G48450 | Nitrate-responsive NOI protein, putative | 1.4 | 3.9 | 9.5 | 8.6 | 8.1 | 5.1 | 2.0 |
| AT5G45070 | PP2-A8, PHLOEM PROTEIN 2-A8 | 0.8 | 2.6 | 6.3 | 5.8 | 6.0 | 8.4 | 3.7 |
| Misc | ||||||||
| AT4G31940 | CYP82C4, cytochrome P450 enzyme | 2.1 | 6.6 | 9.3 | 10.8 | 71.8 | 188.0 | 48.6 |
| AT5G02780 | In2-1 protein, the lambda family of glutathione transferases | 2.6 | 9.7 | 12.9 | 11.4 | 30.7 | 54.7 | 19.6 |
| RNA | ||||||||
| AT1G56160 | MYB72, R2R3 transcription factor | 1.3 | 4.2 | 6.5 | 6.8 | 86.1 | ∞ | 7.5 |
| AT3G12820 | MYB10, R2R3 transcription factor | 1.3 | 3.5 | 6.2 | 6.6 | 24.3 | 24.6 | 4.1 |
| AT3G18290 | EMB2454, BRUTUS (BTS), a putative E3 ligase protein | 1.5 | 4.8 | 7.7 | 8.4 | 2.7 | 2.5 | 2.5 |
| AT3G47640 | POPEYE (PYE), a bHLH transcription factor | 1.2 | 2.5 | 3.6 | 3.7 | 2.6 | 2.2 | 3.2 |
| AT3G56980 | ORG3, bHLH39 | 1.6 | 4.6 | 6.0 | 5.6 | 26.4 | 31.8 | 10.6 |
| AT5G04150 | BHLH101 | 1.6 | 5.8 | 7.0 | 6.7 | 13.9 | 18.0 | 9.0 |
| DNA | ||||||||
| AT3G13610 | F6′H1, Fe(II)-, and 2-oxoglutarate-dependent dioxygenase | 1.5 | 4.6 | 6.4 | 6.2 | 5.4 | 10.3 | 2.8 |
| Protein | ||||||||
| AT1G18910 | Zinc finger (C3HC4-type RING finger) family protein | 1.1 | 3.0 | 5.2 | 5.0 | 3.3 | 3.3 | 1.6 |
| AT1G60610 | Protein binding / zinc ion binding | 1.3 | 2.2 | 3.4 | 2.8 | 2.3 | 2.0 | 1.8 |
| AT1G77280 | Protein kinase family protein | 1.1 | 2.6 | 4.2 | 4.1 | 3.8 | 4.1 | 1.6 |
| AT4G09110 | Zinc finger (C3HC4-type RING finger) family protein | 1.0 | 1.5 | 2.5 | 2.3 | 3.6 | 19.6 | 6.0 |
| AT4G10510 | Subtilase family protein | 1.1 | 1.5 | 4.3 | 3.7 | 5.8 | 7.1 | 3.6 |
| AT4G26470 | Calcium ion binding | 1.1 | 2.0 | 3.3 | 2.8 | 1.8 | 1.6 | 2.1 |
| AT5G53450 | ORG1, OBP3-RESPONSIVE GENE 1 | 1.4 | 5.8 | 7.4 | 6.8 | 5.4 | 5.2 | 5.9 |
| Signaling | ||||||||
| AT1G16150 | WAKL4, WAK-like receptor-like kinase | 1.2 | 2.1 | 3.6 | 3.0 | 2.4 | 2.7 | 1.6 |
| AT1G34760 | GRF11, GENERAL REGULATORY FACTOR 11 | 1.2 | 3.7 | 5.1 | 4.1 | 9.4 | 14.7 | 2.7 |
| AT4G29900 | ACA10, AUTOINHIBITED CA(2+)-ATPASE 10 | 1.5 | 3.2 | 4.4 | 3.8 | 2.3 | 1.9 | 1.6 |
| Transport | ||||||||
| AT3G46900 | COPT2, COPPER TRANSPORTER 2 | 1.6 | 5.5 | 6.5 | 6.8 | 15.7 | 42.9 | 8.7 |
| AT3G53480 | ABCG37/PDR9, ATP-BINDING CASSETTE G37/ PLEIOTROPIC DRUG RESISTANCE 9 | 0.9 | 2.5 | 3.2 | 2.8 | 3.5 | 5.3 | 2.1 |
| AT3G58060 | MTP8, Mn transporter | 1.2 | 3.3 | 6.5 | 6.2 | 22.4 | 54.9 | 1.7 |
| AT3G58810 | MTPA2, METAL TOLERANCE PROTEIN 3 | 1.3 | 3.8 | 4.8 | 4.3 | 9.7 | 17.1 | 3.4 |
| AT4G16370 | OPT3, OLIGOPEPTIDE TRANSPORTER | 1.9 | 6.5 | 9.4 | 10.3 | 7.6 | 7.0 | 2.6 |
| AT4G19690 | IRT1, IRON-REGULATED TRANSPORTER 1 | 1.4 | 2.4 | 2.3 | 2.3 | 21.8 | 57.1 | 38.6 |
| AT5G01490 | CAX4, CATION EXCHANGER 4 | 1.1 | 2.2 | 3.6 | 3.4 | 2.0 | 2.6 | 1.7 |
| AT5G03570 | IREG2, IRON REGULATED 2 | 1.2 | 4.5 | 7.4 | 6.8 | 6.7 | 7.7 | 3.5 |
| AT5G13740 | ZIF1, ZINC INDUCED FACILITATOR 1 | 1.5 | 5.6 | 8.7 | 8.2 | 2.6 | 2.8 | 2.8 |
| AT5G38820 | Amino acid transporter family protein | 1.4 | 3.8 | 5.6 | 6.0 | 17.0 | 49.6 | 3.5 |
| AT5G67330 | NRAMP4, ARABIDOPSIS THALIANA NATURAL RESISTANCE ASSOCIATED MACROPHAGE PROTEIN 4 | 1.5 | 4.3 | 6.3 | 6.6 | 2.2 | 2.4 | 1.7 |
| Not assigned | ||||||||
| AT1G12030 | Unknown protein | 1.0 | 1.4 | 5.3 | 6.4 | 2.4 | 21.5 | 8.9 |
| AT1G22930 | T-complex protein 11 | 1.0 | 2.6 | 3.6 | 3.3 | 1.9 | 2.2 | 1.6 |
| AT1G47400 | Unknown protein | 1.8 | 5.8 | 11.6 | 11.5 | 15.7 | 18.5 | 16.3 |
| AT1G49000 | Unknown protein | 1.2 | 2.7 | 5.4 | 4.8 | 6.1 | 6.7 | 2.1 |
| AT1G73120 | Unknown protein | 1.4 | 3.3 | 3.1 | 2.4 | 8.4 | 7.3 | 8.8 |
| AT1G74770 | Unknown protein | 1.1 | 2.8 | 4.7 | 3.9 | 5.3 | 6.3 | 3.6 |
| AT2G46750 | FAD-binding domain-containing protein | 1.6 | 3.4 | 4.6 | 3.4 | 2.8 | 2.7 | 3.4 |
| AT3G06890 | Unknown protein | 1.3 | 2.8 | 4.2 | 3.8 | 3.6 | 3.3 | 2.0 |
| AT3G07720 | Kelch repeat-containing protein | 1.9 | 5.5 | 6.2 | 5.2 | 11.9 | 23.0 | 7.9 |
| AT3G18560 | Unknown protein | 1.0 | 2.7 | 3.9 | 4.4 | 4.0 | 3.6 | 1.9 |
| AT3G56360 | Unknown protein | 1.2 | 2.4 | 2.6 | 2.7 | 2.3 | 2.3 | 2.7 |
| AT3G61410 | Unknown protein | 1.1 | 2.2 | 3.0 | 2.6 | 4.3 | 6.0 | 2.4 |
| AT3G61930 | Unknown protein | 2.4 | 7.3 | 14.0 | 13.2 | 24.7 | 24.3 | 4.9 |
| AT5G02580 | Unknown protein | 1.1 | 3.1 | 5.2 | 5.8 | 2.6 | 1.8 | 2.1 |
| AT5G05250 | Unknown protein | 1.4 | 3.2 | 4.5 | 4.7 | 6.1 | 6.5 | 4.7 |
| AT5G61250 | Glycosyl hydrolase family 79 N-terminal domain-containing protein | 1.5 | 3.3 | 4.0 | 3.3 | 2.6 | 2.6 | 1.7 |
| AT5G67370 | Unknown protein | 1.5 | 5.7 | 11.2 | 12.1 | 7.4 | 9.8 | 2.8 |
| DOWN-REGULATED CORE GENES UNDER Fe DEFICIENCY | ||||||||
| Metal handling | ||||||||
| AT3G56090 | FER3, FERRITIN 3 | 1.0 | 0.9 | 0.6 | 0.5 | 0.5 | 0.5 | 0.5 |
| AT5G01600 | FER1, FERRITIN 1 | 0.7 | 0.5 | 0.4 | 0.4 | 0.2 | 0.2 | 0.4 |
| Secondary metabolism | ||||||||
| AT2G37130 | Peroxidase 21 | 1.1 | 0.9 | 0.2 | 0.1 | 0.4 | 0.5 | 0.6 |
| Redox | ||||||||
| AT4G08390 | SAPX, STROMAL ASCORBATE PEROXIDASE | 0.9 | 0.7 | 0.4 | 0.3 | 0.5 | 0.5 | 0.6 |
| Misc | ||||||||
| AT3G09220 | LAC7, LACCASE 7 | 1.2 | 1.3 | 0.3 | 0.2 | 0.3 | 0.3 | 0.3 |
| Protein | ||||||||
| AT4G04770 | ABC1, ARABIDOPSIS THALIANA NUCLEOSOME ASSEMBLY PROTEIN 1 | 0.9 | 0.7 | 0.4 | 0.4 | 0.4 | 0.4 | 0.6 |
| Transport | ||||||||
| AT1G60960 | IRT3, IRON REGULATED TRANSPORTER 3 | 0.8 | 0.6 | 0.3 | 0.3 | 0.4 | 0.5 | 0.3 |
| AT2G32270 | ZIP3, ZINC TRANSPORTER 3 PRECURSOR | 0.5 | 0.4 | 0.2 | 0.2 | 0.4 | 0.5 | 0.3 |
| Not assigned | ||||||||
| AT1G68650 | Unknown protein | 0.9 | 0.7 | 0.5 | 0.5 | 0.4 | 0.4 | 0.4 |
| AT2G36885 | Unknown protein | 0.9 | 0.6 | 0.4 | 0.4 | 0.4 | 0.3 | 0.4 |
a
Underlined genes were also regulated by ethylene.