Plant Reactome Pathway Database - Plant Reactome Pathway Database

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Primary root development

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authored	[InstanceEdit:8933720] Gupta, Parul, 2016-08-08
compartment	[Compartment:7660] nucleoplasm [Compartment:70101] cytosol [Compartment:12045] endoplasmic reticulum membrane [Compartment:5462] mitochondrion [Compartment:876] plasma membrane [Compartment:841] plastid
created	[InstanceEdit:9030610] Gupta, Parul, 2017-11-28
dbId	9030654
displayName	Primary root development
eventOf	[Pathway:R-OSA-9640032] Root structure development - Oryza sativa
goBiologicalProcess	[GO_BiologicalProcess:384342] primary root development
hasDiagram	true
hasEvent	[BlackBoxEvent:R-OSA-9030604] Expression of ARR - Oryza sativa [BlackBoxEvent:R-OSA-9030612] Expression of CRL1/ARL1 - Oryza sativa [BlackBoxEvent:R-OSA-9030587] Expression of CRL5 - Oryza sativa [BlackBoxEvent:R-OSA-9030660] Expression of WOX11 - Oryza sativa [BlackBoxEvent:R-OSA-9030616] Expression of QHB - Oryza sativa [BlackBoxEvent:R-OSA-9030705] Expression of cytokinin response genes - Oryza sativa [BlackBoxEvent:R-OSA-9675501] Expression of ASL1 - Oryza sativa [BlackBoxEvent:R-OSA-9675363] Expression of CINV1 - Oryza sativa [BlackBoxEvent:R-OSA-9675346] Expression of DGL1 - Oryza sativa [BlackBoxEvent:R-OSA-9675257] Expression of EL5 - Oryza sativa [BlackBoxEvent:R-OSA-9675458] Expression of ERF2 - Oryza sativa [BlackBoxEvent:R-OSA-9675527] Expression of GATB - Oryza sativa [BlackBoxEvent:R-OSA-9675506] Expression of GLU3 - Oryza sativa [BlackBoxEvent:R-OSA-9675406] Expression of GNA1 - Oryza sativa [BlackBoxEvent:R-OSA-9675393] Expression of MOGS - Oryza sativa [BlackBoxEvent:R-OSA-9675292] Expression of SHB - Oryza sativa [BlackBoxEvent:R-OSA-9675382] Expression of SPR1 - Oryza sativa [BlackBoxEvent:R-OSA-9675435] Expression of TOP1 - Oryza sativa [Reaction:R-OSA-9675461] Interaction of SCR1 with SHR1 - Oryza sativa [BlackBoxEvent:R-OSA-9675522] Expression of ORC3 - Oryza sativa [BlackBoxEvent:R-OSA-9675445] Expression of IAA23 - Oryza sativa [BlackBoxEvent:R-OSA-9675255] Expression of DOCS1 - Oryza sativa [Reaction:R-OSA-9675261] Proteosomal degradation of IAA13 - Oryza sativa [BlackBoxEvent:R-OSA-9675534] Expression of LBD1-8 - Oryza sativa [Reaction:R-OSA-9675300] Binding of IAA13 to ARF19 - Oryza sativa
isInDisease	false
isInferred	false
literatureReference	[LiteratureReference:9030544] A gain-of-function mutation in OsIAA11 affects lateral root development in rice [LiteratureReference:9030713] A CLE-WOX signalling module regulates root meristem maintenance and vascular tissue development in rice [LiteratureReference:9030692] A leucine-rich repeat receptor-like kinase gene is involved in the specification of outer cell layers in rice roots [LiteratureReference:9675514] A novel short-root gene encodes a glucosamine-6-phosphate acetyltransferase required for maintaining normal root cell shape in rice [LiteratureReference:9675430] A plausible mechanism, based upon Short-Root movement, for regulating the number of cortex cell layers in roots [LiteratureReference:9675441] A zinc finger protein, interacted with cyclophilin, affects root development via IAA pathway in rice [LiteratureReference:9030694] ARL1, a LOB-domain protein required for adventitious root formation in rice [LiteratureReference:9030651] Adventitious root formation in rice requires OsGNOM1 and is mediated by the OsPINs family [LiteratureReference:5679315] Auxin binding protein 1 (ABP1) is not required for either auxin signaling or Arabidopsis development [LiteratureReference:9675282] CHR729 Is a CHD3 Protein That Controls Seedling Development in Rice [LiteratureReference:9030556] CRL4 regulates crown root formation through auxin transport in rice [LiteratureReference:9675334] CRL6, a member of the CHD protein family, is required for crown root development in rice [LiteratureReference:5679338] Cell surface ABP1-TMK auxin-sensing complex activates ROP GTPase signaling [LiteratureReference:9030682] Characterization of the origin recognition complex (ORC) from a higher plant, rice (Oryza sativa L.) [LiteratureReference:9675418] DNA Topoisomerase 1 Prevents R-loop Accumulation to Modulate Auxin-Regulated Root Development in Rice [LiteratureReference:9675271] Exogenous auxin enhances the degradation of a light down-regulated and nuclear-localized OsiIAA1, an Aux/IAA protein from rice, via proteasome [LiteratureReference:5608181] Expression of PIN genes in rice (Oryza sativa L.): tissue specificity and regulation by hormones [LiteratureReference:9675260] Fine control of aerenchyma and lateral root development through AUX/IAA- and ARF-dependent auxin signaling [LiteratureReference:5608144] From perception to attenuation: auxin signalling and responses [LiteratureReference:9030644] Functional diversification of CLAVATA3-related CLE proteins in meristem maintenance in rice [LiteratureReference:9030662] Genes controlling root development in rice [LiteratureReference:5608211] Genome-wide analysis of the auxin response factors (ARF) gene family in rice (Oryza sativa) [LiteratureReference:9030655] Identification and characterization of cytokinin-signalling gene families in rice [LiteratureReference:9030632] Identification of CROWN ROOTLESS1-regulated genes in rice reveals specific and conserved elements of postembryonic root formation [LiteratureReference:9675473] Identification of a novel mitochondrial protein, short postembryonic roots 1 (SPR1), involved in root development and iron homeostasis in Oryza sativa [LiteratureReference:9675258] Inference of the gene regulatory network acting downstream of CROWN ROOTLESS 1 in rice reveals a regulatory cascade linking genes involved in auxin signaling, crown root initiation, and root meristem specification and maintenance [LiteratureReference:9030554] Isolation and characterization of a rice WUSCHEL-type homeobox gene that is specifically expressed in the central cells of a quiescent center in the root apical meristem [LiteratureReference:9675524] LATERAL ROOTLESS2, a cyclophilin protein, regulates lateral root initiation and auxin signaling pathway in rice [LiteratureReference:9675298] MiR393 and miR390 synergistically regulate lateral root growth in rice under different conditions [LiteratureReference:9675385] Molecular Mechanisms of Root Development in Rice [LiteratureReference:5608115] Molecular basis for AUXIN RESPONSE FACTOR protein interaction and the control of auxin response repression [LiteratureReference:9627307] Mutation of the rice Narrow leaf1 gene, which encodes a novel protein, affects vein patterning and polar auxin transport [LiteratureReference:5604387] Normal root elongation requires arginine produced by argininosuccinate lyase in rice [LiteratureReference:5679335] Novel ABP1-TMK auxin sensing system controls ROP GTPase-mediated interdigitated cell expansion in Arabidopsis [LiteratureReference:9030648] OsCAND1 is required for crown root emergence in rice [LiteratureReference:9675318] OsCYT-INV1 for alkaline/neutral invertase is involved in root cell development and reproductivity in rice (Oryza sativa L.) [LiteratureReference:9675277] OsDGL1, a homolog of an oligosaccharyltransferase complex subunit, is involved in N-glycosylation and root development in rice [LiteratureReference:9675535] OsERF2 controls rice root growth and hormone responses through tuning expression of key genes involved in hormone signaling and sucrose metabolism [LiteratureReference:9675367] OsGLU3, a putative membrane-bound endo-1,4-beta-glucanase, is required for root cell elongation and division in rice (Oryza sativa L.) [LiteratureReference:9675471] OsGatB, the Subunit of tRNA-Dependent Amidotransferase, Is Required for Primary Root Development in Rice [LiteratureReference:9030543] OsIAA13-mediated auxin signaling is involved in lateral root initiation in rice [LiteratureReference:9030569] OsIAA23-mediated auxin signaling defines postembryonic maintenance of QC in rice [LiteratureReference:9675528] OsMOGS is required for N-glycan formation and auxin-mediated root development in rice (Oryza sativa L.) [LiteratureReference:9030678] OsORC3 is required for lateral root development in rice [LiteratureReference:5608202] OsTIR1 and OsAFB2 downregulation via OsmiR393 overexpression leads to more tillers, early flowering and less tolerance to salt and drought in rice [LiteratureReference:9675421] Peptidyl-prolyl isomerization targets rice Aux/IAAs for proteasomal degradation during auxin signalling [LiteratureReference:9030711] Post-embryonic root organogenesis in cereals: branching out from model plants [LiteratureReference:9675530] RING-H2 type ubiquitin ligase EL5 is involved in root development through the maintenance of cell viability in rice [LiteratureReference:5679345] Rho-GTPase-regulated vesicle trafficking in plant cell polarity [LiteratureReference:9675505] SHOEBOX Modulates Root Meristem Size in Rice through Dose-Dependent Effects of Gibberellins on Cell Elongation and Proliferation [LiteratureReference:5608112] Structure and expression analysis of early auxin-responsive Aux/IAA gene family in rice (Oryza sativa) [LiteratureReference:9675486] The Emergence, Evolution, and Diversification of the miR390-TAS3-ARF Pathway in Land Plants [LiteratureReference:9675333] The Interaction between Rice ERF3 and WOX11 Promotes Crown Root Development by Regulating Gene Expression Involved in Cytokinin Signaling [LiteratureReference:5679346] The PIN-FORMED (PIN) protein family of auxin transporters [LiteratureReference:9030667] The SCARECROW gene's role in asymmetric cell divisions in rice plants [LiteratureReference:9030606] The WUSCHEL-related homeobox gene WOX11 is required to activate shoot-borne crown root development in rice [LiteratureReference:9030609] The auxin responsive AP2/ERF transcription factor CROWN ROOTLESS5 is involved in crown root initiation in rice through the induction of OsRR1, a type-A response regulator of cytokinin signaling [LiteratureReference:9675452] The rice flattened shoot meristem, encoding CAF-1 p150 subunit, is required for meristem maintenance by regulating the cell-cycle period [LiteratureReference:9630441] The rice narrow leaf2 and narrow leaf3 loci encode WUSCHEL-related homeobox 3A (OsWOX3A) and function in leaf, spikelet, tiller and lateral root development [LiteratureReference:9675347] Transcriptome-wide identification of microRNA targets in rice [LiteratureReference:9630481] Two WUSCHEL-related homeobox genes, narrow leaf2 and narrow leaf3, control leaf width in rice
modified	[InstanceEdit:11540225] Elser, Justin, 2025-03-27
name	Primary root development
orthologousEvent	[Pathway:R-LST-9030654] Primary root development - Lathyrus sativus [Pathway:R-PPE-9030654] Primary root development - Prunus persica [Pathway:R-OLU-9030654] Primary root development - Ostreococcus lucimarinus [Pathway:R-QLO-9030654] Primary root development - Quercus lobata [Pathway:R-FVE-9030654] Primary root development - Fragaria vesca [Pathway:R-DCA-9030654] Primary root development - Daucus carota [Pathway:R-PAV-9030654] Primary root development - Prunus avium [Pathway:R-TTU-9030654] Primary root development - Triticum turgidum [Pathway:R-CST-9030654] Primary root development - Camelina sativa [Pathway:R-PVU-9030654] Primary root development - Phaseolus vulgaris [Pathway:R-SIT-9030654] Primary root development - Setaria italica [Pathway:R-GSO-9030654] Primary root development - Glycine soja [Pathway:R-PVE-9030654] Primary root development - Pistacia vera [Pathway:R-MAC-9030654] Primary root development - Musa acuminata [Pathway:R-TCA-9030654] Primary root development - Theobroma cacao [Pathway:R-BRA-9030654] Primary root development - Brassica rapa [Pathway:R-SBI-9030654] Primary root development - Sorghum bicolor [Pathway:R-OLO-9030654] Primary root development - Oryza longistaminata [Pathway:R-HAN-9030654] Primary root development - Helianthus annuus [Pathway:R-GRA-9030654] Primary root development - Gossypium raimondii [Pathway:R-OSI-9030654] Primary root development - Oryza sativa Indica Group [Pathway:R-CCL-9030654] Primary root development - Citrus clementina [Pathway:R-BNA-9030654] Primary root development - Brassica napus [Pathway:R-ATR-9030654] Primary root development - Amborella trichopoda [Pathway:R-CSK-9030654] Primary root development - Cannabis sativa subsp. indica [Pathway:R-NNU-9030654] Primary root development - Nelumbo nucifera [Pathway:R-TDI-9030654] Primary root development - Triticum dicoccoides [Pathway:R-OAU-9030654] Primary root development - Oryza australiensis [Pathway:R-VAN-9030654] Primary root development - Vigna angularis [Pathway:R-CME-9030654] Primary root development - Cyanidioschyzon merolae [Pathway:R-ASA-9030654] Primary root development - Avena sativa [Pathway:R-AIP-9030654] Primary root development - Arachis ipaensis [Pathway:R-SIN-9030654] Primary root development - Sesamum indicum [Pathway:R-NCO-9030654] Primary root development - Nymphaea colorata [Pathway:R-CCN-9030654] Primary root development - Coffea canephora [Pathway:R-CRU-9030654] Primary root development - Capsella rubella [Pathway:R-AUM-9030654] Primary root development - Aegilops umbellulata [Pathway:R-PTA-9030654] Primary root development - Pinus taeda [Pathway:R-PHH-9030654] Primary root development - Panicum hallii var. hallii ("HAL2") [Pathway:R-OGR-9030654] Primary root development - Oryza meyeriana var. granulata [Pathway:R-HVU-9030654] Primary root development - Hordeum vulgare [Pathway:R-ALY-9030654] Primary root development - Arabidopsis lyrata [Pathway:R-JRE-9030654] Primary root development - Juglans regia [Pathway:R-OBR-9030654] Primary root development - Oryza brachyantha [Pathway:R-PHA-9030654] Primary root development - Panicum hallii ("FIL2") [Pathway:R-ACH-9030654] Primary root development - Actinidia chinensis [Pathway:R-VFA-9030654] Primary root development - Vicia faba var. faba [Pathway:R-BOL-9030654] Primary root development - Brassica oleracea [Pathway:R-OMI-9030654] Primary root development - Oryza minuta [Pathway:R-ECG-9030654] Primary root development - Echinochloa crus-galli [Pathway:R-LAN-9030654] Primary root development - Lupinus angustifolius [Pathway:R-CSA-9030654] Primary root development - Cucumis sativus [Pathway:R-SMO-9030654] Primary root development - Selaginella moellendorffii [Pathway:R-CSI-9030654] Primary root development - Citrus sinensis [Pathway:R-ACO-9030654] Primary root development - Ananas comosus [Pathway:R-MGU-9030654] Primary root development - Erythranthe guttata [Pathway:R-EGR-9030654] Primary root development - Eucalyptus grandis [Pathway:R-ORU-9030654] Primary root development - Oryza rufipogon [Pathway:R-CML-9030654] Primary root development - Cucumis melo [Pathway:R-SPC-9030654] Primary root development - Synechocystis sp. PCC 6803 [Pathway:R-ETE-9030654] Primary root development - Eragrostis tef [Pathway:R-ATH-9030654] Primary root development - Arabidopsis thaliana [Pathway:R-CRE-9030654] Primary root development - Chlamydomonas reinhardtii [Pathway:R-TSP-9030654] Primary root development - Triticum spelta subsp. spelta [Pathway:R-COL-9030654] Primary root development - Corchorus olitorius [Pathway:R-SHI-9030654] Primary root development - Salvia hispanica [Pathway:R-SVI-9030654] Primary root development - Setaria viridis [Pathway:R-OOF-9030654] Primary root development - Oryza officinalis [Pathway:R-CSC-9030654] Primary root development - Cannabis sativa [Pathway:R-TAE-9030654] Primary root development - Triticum aestivum [Pathway:R-DRO-9030654] Primary root development - Dioscorea rotundata [Pathway:R-CLA-9030654] Primary root development - Citrullus lanatus [Pathway:R-SCR-9030654] Primary root development - Secale cereale [Pathway:R-OGL-9030654] Primary root development - Oryza glaberrima [Pathway:R-GSU-9030654] Primary root development - Galdieria sulphuraria [Pathway:R-OGU-9030654] Primary root development - Oryza glumaepatula [Pathway:R-OEU-9030654] Primary root development - Olea europaea [Pathway:R-PSO-9030654] Primary root development - Papaver somniferum [Pathway:R-PPA-9030654] Primary root development - Physcomitrella patens [Pathway:R-TUR-9030654] Primary root development - Triticum urartu [Pathway:R-ZMA-9030654] Primary root development - Zea mays [Pathway:R-SLY-9030654] Primary root development - Solanum lycopersicum [Pathway:R-VRA-9030654] Primary root development - Vigna radiata [Pathway:R-MTR-9030654] Primary root development - Medicago truncatula [Pathway:R-ADU-9030654] Primary root development - Arachis duranensis [Pathway:R-SSP-9030654] Primary root development - Saccharum spontaneum [Pathway:R-LSA-9030654] Primary root development - Lactuca sativa [Pathway:R-JCU-9030654] Primary root development - Jatropha curcas [Pathway:R-BJU-9030654] Primary root development - Brassica juncea [Pathway:R-HLH-9030654] Primary root development - Humulus lupulus [Pathway:R-GMA-9030654] Primary root development - Glycine max [Pathway:R-STU-9030654] Primary root development - Solanum tuberosum [Pathway:R-PAB-9030654] Primary root development - Picea abies [Pathway:R-OES-9030654] Primary root development - Olea europaea var. sylvestris [Pathway:R-TPR-9030654] Primary root development - Trifolium pratense [Pathway:R-PDA-9030654] Primary root development - Phoenix dactylifera [Pathway:R-ONI-9030654] Primary root development - Oryza nivara [Pathway:R-MDO-9030654] Primary root development - Malus domestica [Pathway:R-ZMY-9030654] Primary root development - Zea mays ver5 [Pathway:R-OBA-9030654] Primary root development - Oryza barthii [Pathway:R-DEX-9030654] Primary root development - Digitaria exilis [Pathway:R-OME-9030654] Primary root development - Oryza meridionalis [Pathway:R-MPO-9030654] Primary root development - Marchantia polymorpha [Pathway:R-CCR-9030654] Primary root development - Chondrus crispus [Pathway:R-CCA-9030654] Primary root development - Cajanus cajan [Pathway:R-CQI-9030654] Primary root development - Chenopodium quinoa [Pathway:R-LPE-9030654] Primary root development - Leersia perrieri [Pathway:R-CAR-9030654] Primary root development - Cicer arietinum [Pathway:R-TTI-9030654] Primary root development - Triticum timopheevii subsp. timopheevii [Pathway:R-PSA-9030654] Primary root development - Pisum sativum [Pathway:R-VUN-9030654] Primary root development - Vigna unguiculata [Pathway:R-ITR-9030654] Primary root development - Ipomoea triloba [Pathway:R-AHA-9030654] Primary root development - Arabidopsis halleri [Pathway:R-MES-9030654] Primary root development - Manihot esculenta [Pathway:R-ECU-9030654] Primary root development - Eragrostis curvula [Pathway:R-CCP-9030654] Primary root development - Corchorus capsularis [Pathway:R-RCH-9030654] Primary root development - Rosa chinensis [Pathway:R-OPU-9030654] Primary root development - Oryza punctata [Pathway:R-LPR-9030654] Primary root development - Lolium perenne [Pathway:R-VVN-9030654] Primary root development - Vitis vinifera [Pathway:R-AOF-9030654] Primary root development - Asparagus officinalis [Pathway:R-NAT-9030654] Primary root development - Nicotiana attenuata [Pathway:R-HLP-9030654] Primary root development - Humulus lupulus var. lupulus [Pathway:R-ZJA-9030654] Primary root development - Zoysia japonica [Pathway:R-QSU-9030654] Primary root development - Quercus suber [Pathway:R-CAN-9030654] Primary root development - Capsicum annuum [Pathway:R-CCI-9030654] Primary root development - Corymbia citriodora [Pathway:R-PED-9030654] Primary root development - Phyllostachys edulis [Pathway:R-CCD-9030654] Primary root development - Cynara cardunculus var. scolymus [Pathway:R-PTI-9030654] Primary root development - Populus trichocarpa [Pathway:R-BVU-9030654] Primary root development - Beta vulgaris [Pathway:R-FCR-9030654] Primary root development - Ficus carica [Pathway:R-ATA-9030654] Primary root development - Aegilops tauschii [Pathway:R-BDI-9030654] Primary root development - Brachypodium distachyon [Pathway:R-AHY-9030654] Primary root development - Arachis hypogaea [Pathway:R-CBA-9030654] Primary root development - Chara braunii [Pathway:R-FEX-9030654] Primary root development - Fraxinus excelsior (European ash)
revised	[InstanceEdit:9659485] Gupta, Parul, 2019-08-27
schemaClass	Pathway
species	[Species:186860] Oryza sativa
stId	R-OSA-9030654
summation	[Summation:9030703] The rice root system consists of seminal, crown and lateral ...

Referrals

(hasEvent)

[Pathway:R-OSA-9640032] Root structure development - Oryza sativa