Table 1.
List of differentially expressed genes identified by RNAseq in response to Fe-deficiency in roots of Oryza sativa and Oryza rufipogon.
| O. sativa | O. rufipogon | Gene name | Regulation | Description |
|---|---|---|---|---|
| Phytosiderophore biosynthesis | ||||
| OS01G0323600/LOC_Os01g22010 | ORUFI01G14960 | SAM2 | up | S-adenosylmethionine synthase [Source:UniProtKB/TrEMBL;Acc:A0A0R7VIP9] |
| OS02G0306401/LOC_Os02g20360 | ORUFI02G13810 | NAAT1 | up | Os02g0306401 protein [Source:UniProtKB/TrEMBL;Acc:A0A0P0VI36] |
| OS03G0237100/LOC_Os03g13390 | ORUFI03G09980 | DMAS | up | NADH-dependent oxidoreductase 1, putative, expressed [Source:UniProtKB/TrEMBL;Acc:Q10PE7] |
| OS03G0307300/LOC_Os03g19427 | ORUFI03G15260 | NAS1 | up | Nicotianamine synthase 1 [Source:UniProtKB/TrEMBL;Acc:H9BE58] |
| OS04G0669800/LOC_Os04g57400 | ORUFI04G30700 | MTK1 | up | Methylthioribose kinase 1 [Source:UniProtKB/Swiss-Prot;Acc:Q7XR61] |
| OS06G0112200/LOC_Os06g02220 | ORUFI06G00790 | up | Methylthioadenosine/S-adenosyl homocysteine nucleosidase [Source:UniProtKB/TrEMBL;Acc:Q9LHZ0] | |
| Iron homeostasis | ||||
| OS01G0689451/LOC_Os01g49470 | ORUFI01G30140 | HRZ1 | up | Hemerythrin motif-containing really interesting new gene (RING)-and zinc-finger protein 1 [Source:UniProtKB/TrEMBL;Acc:V9G2Z0] |
| OS05G0551000/LOC_Os05g47780 | ORUFI05G26690 | HRZ2 | up | Os05g0551000 protein [Source:UniProtKB/TrEMBL;Acc:A0A0P0WPZ3] |
| OS03G0751100/LOC_Os03g54000 | ORUFI03G35800 | OPT7 | up | Oligopeptide transporter 3, putative, expressed [Source:UniProtKB/TrEMBL;Acc:Q75LM0] |
| OS11G0151500/LOC_Os11g05390 | ORUFI11G03210 | ENA1 | up | Os11g0151500 protein [Source:UniProtKB/TrEMBL;Acc:Q0IUK3] |
| OS12G0568500/LOC_Os12g38051 | ORUFI12G18020 | up | Metallothionein-like protein 1, putative, expressed [Source:UniProtKB/TrEMBL;Acc:Q2QNE5] | |
| OS12G0570700/LOC_Os12g38270 | ORUFI12G18180 | MT4A | up | Metallothionein-like protein [Source:UniProtKB/TrEMBL;Acc:A1L4T7] |
| Iron transport | ||||
| OS02G0650300/LOC_Os02g43410 | ORUFI02G27480 | YSL15 | up | Iron-phytosiderophore transporter YSL15 [Source:UniProtKB/Swiss-Prot;Acc:Q6H3Z3] |
| OS03G0667300/LOC_Os03g46454 | ORUFI03G29890 | IRT2 | up | Fe(2+) transport protein 2 [Source:UniProtKB/Swiss-Prot;Acc:Q6L8G1] |
| OS03G0667500/LOC_Os03g46470 | ORUFI03G29910 | IRT1 | up | Fe(2+) transport protein 1 [Source:UniProtKB/Swiss-Prot;Acc:Q75HB1] |
| OS04G0542200/LOC_Os04g45860 | ORUFI04G21940 | YSL9 | up | Os04g0542200 protein [Source:UniProtKB/TrEMBL;Acc:A0A0P0WDA4] |
| OS07G0258400/LOC_Os07g15460 | ORUFI07G09420 | NRAMP1 | up | Metal transporter Nramp1 [Source:UniProtKB/Swiss-Prot;Acc:Q0D7E4] |
| OS09G0396900/LOC_Os09g23300 | ORUFI09G10010 | VIT2 | down | Os09g0396900 protein [Source:UniProtKB/TrEMBL;Acc:A0A0P0XMS4] |
| Transcription factors | ||||
| OS01G0952800/LOC_Os01g72370 | ORUFI01G47560 | IRO2 | up | Os01g0952800 protein [Source:UniProtKB/TrEMBL;Acc:Q0JFZ0] |
| OS03G0379300/LOC_Os03g26210 | ORUFI03G20000 | IRO3 | up | Helix-loop-helix DNA-binding domain containing protein, expressed [Source:UniProtKB/TrEMBL;Acc:Q10KL8] |
| OS07G0573300/LOC_Os07g38580 | ORUFI07G20280 | zinc finger family protein | down | Os07g0573300 protein [Source:UniProtKB/TrEMBL;Acc:Q6ZL20] |
| Other transporters | ||||
| OS08G0207500/LOC_Os08g10630 | ORUFI08G06860 | ZIP4 | up | Zinc transporter 4 [Source:UniProtKB/Swiss-Prot;Acc:Q6ZJ91] |
| OS08G0369000/LOC_Os08g28170 | ORUFI08G14240 | nucleobase-ascorbate transporter | up | Os08g0369000 protein [Source:UniProtKB/TrEMBL;Acc:Q0J648] |
| OS09G0440700/LOC_Os09g26900 | ORUFI09G12590 | COPT5.1 | up | Copper transporter 5.1 [Source:UniProtKB/Swiss-Prot;Acc:Q69P80] |
| OS11G0235200/LOC_Os11g12740 | ORUFI11G07890 | up | Nitrate transporter NTL1, putative, expressed [Source:UniProtKB/TrEMBL;Acc:Q53JI5] | |
| OS06G0554800/LOC_Os06g36090 | ORUFI06G19420 | ABC-2 type transporter | down | |
| OS08G0156600/LOC_Os08g06010 | ORUFI08G03760 | transporter, major facilitator family | down | Os08g0156600 protein [Source:UniProtKB/TrEMBL;Acc:Q0J7X7] |
| OS12G0581600/LOC_Os12g39180 | ORUFI12G18860 | NRAMP7 | down | Metal transporter Nramp6 [Source:UniProtKB/Swiss-Prot;Acc:Q2QN30] |
| Other genes | ||||
| OS01G0495701 | ORUFI01G40710 | up | Os01g0495701 protein [Source:UniProtKB/TrEMBL;Acc:A0A0P0V2W9] | |
| OS01G0605100/LOC_Os01g42030 | ORUFI01G24790 | BCS1 | up | BCS1 protein-like [Source:UniProtKB/TrEMBL;Acc:Q5ZDA1] |
| OS01G0608101 | ORUFI01G25040 | up | Os01g0608101 protein [Source:UniProtKB/TrEMBL;Acc:C7IWA4] | |
| OS01G0655500/LOC_Os01g46720 | ORUFI01G27970 | up | Probable plastid-lipid-associated protein 14, chloroplastic [Source:Projected from Arabidopsis thaliana (AT5G53450) UniProtKB/Swiss-Prot;Acc:Q9LV04] | |
| OS01G0775400/LOC_Os01g56810 | ORUFI01G36000 | CKX5 | up | Cytokinin dehydrogenase 5 [Source:UniProtKB/Swiss-Prot;Acc:Q5ZAY9] |
| OS01G0878700/LOC_Os01g65670 | ORUFI01G42590 | up | Os01g0878700 Amino acid transporter, transmembrane domain containing protein [Source:UniProtKB/TrEMBL;Acc:Q5N9H2] | |
| OS01G0952900/LOC_Os01g72360 | ORUFI01G47550 | up | Os01g0952900 protein [Source:UniProtKB/TrEMBL;Acc:Q0JFZ1] | |
| OS02G0509500/LOC_Os02g30600 | ORUFI02G18770 | up | Os02g0509500 protein [Source:UniProtKB/TrEMBL;Acc:Q0E0Z7] | |
| OS02G0579800/LOC_Os02g36940 | ORUFI02G22960 | up | Os02g0579800 protein [Source:UniProtKB/TrEMBL;Acc:Q6EP48] | |
| OS02G0714600/LOC_Os02g48390 | ORUFI02G31750 | up | Ribose-phosphate pyrophosphokinase 4 [Source:UniProtKB/Swiss-Prot;Acc:Q6ZFT5] | |
| OS02G0731900/LOC_Os02g49920 | ORUFI02G33040 | up | 3-ketoacyl-CoA synthase [Source:UniProtKB/TrEMBL;Acc:A0A0N7KG16] | |
| OS02G0744700/LOC_Os02g51070 | ORUFI02G33990 | SSII-2 | up | Starch synthase, chloroplastic/amyloplastic [Source:UniProtKB/TrEMBL;Acc:Q0DXM0] |
| OS02G0791300/LOC_Os02g54870 | ORUFI02G36990 | up | Os02g0791300 protein [Source:UniProtKB/TrEMBL;Acc:Q6KAE4] | |
| OS03G0161800/LOC_Os03g06620 | ORUFI03G04320 | ARD2 | up | 1,2-dihydroxy-3-keto-5-methylthiopentene dioxygenase 2 [Source:UniProtKB/Swiss-Prot;Acc:Q10RE5] |
| OS03G0327600/LOC_Os03g21040 | ORUFI03G16490 | R40C1 | up | Ricin B-like lectin R40C1 [Source:UniProtKB/Swiss-Prot;Acc:Q10M12] |
| OS03G0401100/LOC_Os03g28300 | ORUFI03G21290 | up | Os03g0401100 protein [Source:UniProtKB/TrEMBL;Acc:Q10K10] | |
| OS03G0431800/LOC_Os03g31730 | ORUFI03G23070 | up | Os03g0431800 protein [Source:UniProtKB/TrEMBL;Acc:A0A0P0VZP7] | |
| OS03G0736900/LOC_Os03g52680 | ORUFI03G34750 | up | Os03g0736900 protein [Source:UniProtKB/TrEMBL;Acc:Q0DNS7] | |
| OS01G0776600/LOC_Os01g56880 | ORUFI01G36050 | down | Purple acid phosphatase 10 [Source:Projected from Arabidopsis thaliana (AT2G16430) UniProtKB/Swiss-Prot;Acc:Q9SIV9] | |
| OS01G0801600/LOC_Os01g58740 | ORUFI01G37440 | down | Probable glycerol-3-phosphate dehydrogenase [NAD(+)] 2, cytosolic [Source:UniProtKB/Swiss-Prot;Acc:Q8S2G5] | |
| OS01G0814400/LOC_Os01g59900 | ORUFI01G38230 | down | lisH domain-containing protein C1711.05 [Source:UniProtKB/TrEMBL;Acc:A0A0P0V9N0] | |
| OS01G0906000/LOC_Os01g67870 | ORUFI01G44340 | down | Os01g0906000 protein [Source:UniProtKB/TrEMBL;Acc:Q0JGT3] | |
| OS01G0908200/LOC_Os01g68020 | ORUFI01G44480 | BTBZ2 - Bric-a-Brac, Tramtrack, and Broad Complex BTB domain with TAZ zinc finger and Calmodulin-binding domains | down | Os01g0908200 protein [Source:UniProtKB/TrEMBL;Acc:Q8L3R7] |
| OS01G0941800/LOC_Os01g71420 | ORUFI01G47010 | down | Probable inactive purple acid phosphatase 16 [Source:Projected from Arabidopsis thaliana (AT3G10150) UniProtKB/Swiss-Prot;Acc:Q9SR79] | |
| OS02G0202200/LOC_Os02g10780 | ORUFI03G26300 | SPX2 | down | SPX domain-containing protein 2 [Source:UniProtKB/Swiss-Prot;Acc:Q6Z784] |
| OS02G0327000/LOC_Os02g22130 | ORUFI02G15000 | GAP1 | down | GTPase activating protein 1 [Source:UniProtKB/Swiss-Prot;Acc:Q6YWF1] |
| OS02G0514500/LOC_Os02g31030 | ORUFI02G19040 | glycerophosphoryl diester phosphodiesterase family protein | down | Os02g0514500 protein [Source:UniProtKB/TrEMBL;Acc:A0A0P0VJM6] |
| OS02G0542400/LOC_Os02g33770 | ORUFI02G20760 | homeodomain | down | Os02g0542400 protein [Source:UniProtKB/TrEMBL;Acc:Q6ESZ1] |
| OS04G0675000/LOC_Os04g57870 | ORUFI04G31160 | up | Os04g0675000 protein [Source:UniProtKB/TrEMBL;Acc:B9FDA0] | |
| OS05G0482400/LOC_Os05g40384 | ORUFI05G21860 | CYP714D1 | up | Cytochrome P450 714D1 [Source:UniProtKB/Swiss-Prot;Acc:Q5KQH7] |
| OS06G0114000/LOC_Os06g02380 | ORUFI06G00900 | up | Os06g0114000 protein [Source:UniProtKB/TrEMBL;Acc:Q9LWT6] | |
| OS06G0486800/LOC_Os06g29180 | ORUFI06G16260 | up | Formate dehydrogenase, mitochondrial [Source:UniProtKB/TrEMBL;Acc:Q0DC43] | |
| OS06G0549600/LOC_Os06g35650 | ORUFI06G19050 | up | Os06g0549600 protein [Source:UniProtKB/TrEMBL;Acc:Q5Z957] | |
| OS06G0628032/LOC_Os06g42280 | ORUFI06G23230 | up | Os06g0628032 protein [Source:UniProtKB/TrEMBL;Acc:A0A0P0WZ43] | |
| OS06G0702700/LOC_Os06g48960 | ORUFI06G28520 | up | Os06g0702700 protein [Source:UniProtKB/TrEMBL;Acc:Q5Z825] | |
| OS08G0108700/LOC_Os08g01710 | ORUFI08G00660 | up | Os08g0108700 protein [Source:UniProtKB/TrEMBL;Acc:Q6ZC75] | |
| OS08G0557200/LOC_Os08g44300 | ORUFI08G25860 | RETROTRANSPOSON | up | Calcineurin-like phosphoesterase family-like [Source:UniProtKB/TrEMBL;Acc:Q6ZJ14] |
| OS09G0129600/LOC_Os09g04339 | ORUFI09G01420 | up | Os09g0129600 protein [Source:UniProtKB/TrEMBL;Acc:A0A0P0XKA3] | |
| OS09G0453800/LOC_Os09g28050 | ORUFI09G13500 | up | Aminotransferase [Source:UniProtKB/TrEMBL;Acc:Q67UZ0] | |
| OS10G0195250/LOC_Os10g11889 | ORUFI12G07700 | up | Os10g0195250 protein [Source:UniProtKB/TrEMBL;Acc:B9G7W2] | |
| OS11G0484000/LOC_Os11g29370 | ORUFI11G14510 | up | Probable bifunctional methylthioribulose-1-phosphate dehydratase/enolase-phosphatase E1 [Source:UniProtKB/Swiss-Prot;Acc:Q2R483] | |
| OS12G0260500/LOC_Os12g16010 | ORUFI12G08470 | sex determination protein tasselseed-2 | up | Os12g0260500 protein [Source:UniProtKB/TrEMBL;Acc:A0A0P0Y8Z9] |
| OS12G0589100/LOC_Os12g39860 | ORUFI12G19290 | up | Adenine phosphoribosyltransferase 1, putative, expressed [Source:UniProtKB/TrEMBL;Acc:Q2QMV8] | |
| OS01G0142300/LOC_Os01g04920 | ORUFI01G02770 | glycosyl transferase | down | Os01g0142300 protein [Source:UniProtKB/TrEMBL;Acc:Q5ZBM2] |
| OS01G0227100/LOC_Os01g12710 | ORUFI01G08790 | NYC1 | down | Probable chlorophyll(ide) b reductase NYC1, chloroplastic [Source:UniProtKB/Swiss-Prot;Acc:Q5N800] |
| OS01G0741900/LOC_Os01g53880 | ORUFI01G33490 | IAA6 | down | Auxin-responsive protein IAA6 [Source:UniProtKB/Swiss-Prot;Acc:Q8LQ74] |
| OS02G0695600/LOC_Os02g46830 | ORUFI02G30390 | down | Os02g0695600 protein [Source:UniProtKB/TrEMBL;Acc:Q6YUQ1] | |
| OS02G0704900/LOC_Os02g47600 | ORUFI02G31040 | IPP | down | Soluble inorganic pyrophosphatase [Source:UniProtKB/TrEMBL;Acc:B7E5N1] |
| OS02G0802700/LOC_Os02g55910 | ORUFI02G37800 | MGD3 | down | Os02g0802700 protein [Source:UniProtKB/TrEMBL;Acc:A0A0P0VQS5] |
| OS03G0130400/LOC_Os03g03820 | ORUFI03G02170 | down | Probable adenylate kinase 1, chloroplastic [Source:UniProtKB/Swiss-Prot;Acc:Q10S93] | |
| OS03G0214400/LOC_Os03g11560 | ORUFI03G08360 | down | Digalactosyldiacylglycerol synthase 2, putative, expressed [Source:UniProtKB/TrEMBL;Acc:Q10Q06] | |
| OS03G0238600/LOC_Os03g13540 | ORUFI03G10060 | down | Purple acid phosphatase [Source:UniProtKB/TrEMBL;Acc:Q10PD0] | |
| OS04G0110600/LOC_Os04g02000 | ORUFI04G00600 | down | Os04g0110600 protein [Source:UniProtKB/TrEMBL;Acc:Q0JFE3] | |
| OS04G0438600/LOC_Os04g35790 | ORUFI04G14680 | GLTP domain containing protein | down | Os04g0438600 protein [Source:UniProtKB/TrEMBL;Acc:Q0JD08] |
| OS04G0480900/LOC_Os04g40490 | ORUFI04G17670 | down | OSJNBb0011N17.5 protein [Source:UniProtKB/TrEMBL;Acc:Q7XUQ7] | |
| OS04G0508200/LOC_Os04g42920 | ORUFI04G19660 | down | Isocitrate dehydrogenase [NADP] [Source:UniProtKB/TrEMBL;Acc:Q0JBV4] | |
| OS04G0627300/LOC_Os04g53560 | ORUFI04G27820 | down | Os04g0627300 protein [Source:UniProtKB/TrEMBL;Acc:B9FCM8] | |
| OS04G0640600/LOC_Os04g54800 | ORUFI04G28560 | shikimate kinase, | down | Os04g0640600 protein [Source:UniProtKB/TrEMBL;Acc:A0A0P0WFI9] |
| OS04G0652700/LOC_Os04g55850 | ORUFI04G29370 | nuclease PA3, | down | Os04g0652700 protein [Source:UniProtKB/TrEMBL;Acc:B9FCW0] |
| OS05G0178300/LOC_Os05g08554 | ORUFI05G05490 | OsCDT5 | down | Similar to Cadmium tolerant 1. (Os05t0178300-01) [Source: https://rapdb.dna.affrc.go.jp/tools/search/run?id=on&attr=desc&keyword=Os05g0178300] |
| OS05G0566400/LOC_Os05g49140 | ORUFI05G27900 | down | Mitogen-activated protein kinase [Source:UniProtKB/TrEMBL;Acc:Q0DFW7] | |
| OS06G0115800/LOC_Os06g02540 | ORUFI06G01060 | down | Os06g0115800 protein [Source:UniProtKB/TrEMBL;Acc:Q0DF43] | |
| OS06G0603600/LOC_Os06g40120 | ORUFI06G21760 | SPX1 | down | SPX domain-containing protein 1 [Source:UniProtKB/Swiss-Prot;Acc:Q69XJ0] |
| OS07G0187700/LOC_Os07g09000 | ORUFI07G05590 | WD domain, G-beta repeat domain containing protein | down | Os07g0187700 protein [Source:UniProtKB/TrEMBL;Acc:Q6Z4F3] |
| OS07G0598200/LOC_Os07g40710 | ORUFI07G22020 | circadian clock coupling factor-related | down | Os07g0598200 protein [Source:UniProtKB/TrEMBL;Acc:Q6ZJE5] |
| OS07G0668700/LOC_Os07g47250 | ORUFI07G26640 | lipase precursor, | down | Os07g0668700 protein [Source:UniProtKB/TrEMBL;Acc:A0A0P0X9 × 0] |
| OS08G0118900/LOC_Os08g02540 | ORUFI08G01360 | down | Probable adenylate kinase 7, mitochondrial [Source:UniProtKB/Swiss-Prot;Acc:Q6ZJ48] | |
| OS08G0245200/LOC_Os08g14760 | ORUFI08G08590 | 4CL1 | down | Probable 4-coumarate–CoA ligase 1 [Source:UniProtKB/Swiss-Prot;Acc:P17814] |
| OS08G0536000/LOC_Os08g42410 | ORUFI08G24240 | down | Pyruvate dehydrogenase E1 component subunit beta-1, mitochondrial [Source:UniProtKB/Swiss-Prot;Acc:Q6Z1G7] | |
| OS09G0356000/LOC_Os09g19140 | ORUFI09G07640 | senescence-induced receptor-like serine/threonine-protein kinase precursor | down | Os09g0356000 protein [Source:UniProtKB/TrEMBL;Acc:A0A0P0XML9] |
| OS09G0569800/LOC_Os09g39620 | ORUFI09G21810 | protein kinase family protein | down | Os09g0569800 protein [Source:UniProtKB/TrEMBL;Acc:Q0IZH1] |
| OS10G0116800/LOC_Os10g02750 | ORUFI10G00780 | OsPAP3b | down | Purple acid phosphatase [Source:UniProtKB/TrEMBL;Acc:Q7XH73] |
| OS11G0126800/LOC_Os11g03290 | ORUFI11G01490 | nucleoside-triphosphatase | down | Os11g0126800 protein [Source:UniProtKB/TrEMBL;Acc:Q0IUZ4] |
| OS04G0523600/LOC_Os04g44240 | ORUFI04G20630 | Glycosyltransferase | up | Glycosyltransferase [Source:UniProtKB/TrEMBL;Acc:A0A0P0WCX8] |
Genes were up- and down-regulated in common in both species.