KEGG   PATHWAY: bna04712
Entry
bna04712                    Pathway                                
Name
Circadian rhythm - plant - Brassica napus (rape)
Description
The circadian system is an endogenous rhythm with the period of about 24 hours to provide temporal organization of biological activity. In Arabidopsis the circadian oscillator at the core of this system is composed of the interlocked feedback loop formed by the major transcriptional factors CCA1 (circadian clock associated), LHY (late elongated hypocotyl) and TOC1 (timing of cab), a pseudo response regulator (PRR). The morning-expressed CCA1/LHY Myb transcription factors suppress TOC1 expression by binding to its promoter. Moreover, CCA1/LHY activates the expression of PRR7/9 in the morning and then PRR7/9 repress the transcription of CCA1/LHY during the rest of the day. By contrast, the evening-expressed TOC1 activates the expression of CCA1/LHY.
Class
Organismal Systems; Environmental adaptation
Pathway map
bna04712  Circadian rhythm - plant
bna04712

Other DBs
GO: 0007623
Organism
Brassica napus (rape) [GN:bna]
Gene
106370906  phytochrome B-like [KO:K12121]
125606336  phytochrome B [KO:K12121]
106358161  phytochrome B [KO:K12121]
106400775  phytochrome B-like [KO:K12121]
106346267  phytochrome A [KO:K12120]
106400740  phytochrome A [KO:K12120]
106420085  phytochrome A [KO:K12120]
106417700  phytochrome A [KO:K12120]
106346269  transcription factor PIF3 [KO:K12126]
106397555  transcription factor PIF3 [KO:K12126]
106419805  transcription factor PIF3 [KO:K12126]
125578610  transcription factor PIF3-like [KO:K12126]
106368547  protein EARLY FLOWERING 3 isoform X1 [KO:K12125]
106401205  protein EARLY FLOWERING 3-like isoform X1 [KO:K12125]
106401206  protein EARLY FLOWERING 3 isoform X1 [KO:K12125]
106413679  protein EARLY FLOWERING 3 [KO:K12125]
106391972  two-component response regulator-like APRR9 isoform X2 [KO:K12128]
106450475  two-component response regulator-like APRR9 isoform X2 [KO:K12128]
106450520  two-component response regulator-like APRR7 [KO:K12129]
106372604  two-component response regulator-like APRR7 isoform X1 [KO:K12129]
106399293  two-component response regulator-like APRR7 [KO:K12129]
125579112  two-component response regulator-like APRR7 [KO:K12129]
106348478  two-component response regulator-like APRR5 [KO:K12130]
106366007  two-component response regulator-like APRR5 [KO:K12130]
106348254  two-component response regulator-like APRR5 [KO:K12130]
106428471  two-component response regulator-like APRR5 [KO:K12130]
106382607  two-component response regulator-like APRR5 [KO:K12130]
106404304  two-component response regulator-like APRR5 [KO:K12130]
106401784  protein LHY-like [KO:K12133]
106370900  protein LHY [KO:K12133]
106407083  protein LHY isoform X1 [KO:K12133]
125574804  protein LHY-like isoform X3 [KO:K12133]
125575639  protein LHY-like isoform X1 [KO:K12133]
125595220  protein LHY-like isoform X1 [KO:K12133]
106450471  protein CCA1 isoform X1 [KO:K12134]
106446460  casein kinase II subunit alpha-4, chloroplastic [KO:K03097] [EC:2.7.11.1]
106431200  casein kinase II subunit alpha-1-like [KO:K03097] [EC:2.7.11.1]
106371342  casein kinase II subunit alpha-4, chloroplastic [KO:K03097] [EC:2.7.11.1]
106448060  casein kinase II subunit alpha-2 [KO:K03097] [EC:2.7.11.1]
106404327  casein kinase II subunit alpha-2 [KO:K03097] [EC:2.7.11.1]
106392142  casein kinase II subunit alpha-4, chloroplastic [KO:K03097] [EC:2.7.11.1]
106390880  casein kinase II subunit alpha-2-like isoform X1 [KO:K03097] [EC:2.7.11.1]
106416123  casein kinase II subunit alpha-4, chloroplastic [KO:K03097] [EC:2.7.11.1]
111200310  LOW QUALITY PROTEIN: casein kinase II subunit alpha-1 [KO:K03097] [EC:2.7.11.1]
106420400  casein kinase II subunit alpha-2 [KO:K03097] [EC:2.7.11.1]
125591609  casein kinase II subunit alpha-2-like [KO:K03097] [EC:2.7.11.1]
106353616  LOW QUALITY PROTEIN: casein kinase II subunit beta-1 [KO:K03115]
106353123  casein kinase II subunit beta-3 isoform X1 [KO:K03115]
106429492  casein kinase II subunit beta-2-like [KO:K03115]
106440228  casein kinase II subunit beta-2 isoform X1 [KO:K03115]
106450778  putative casein kinase II subunit beta-4 isoform X1 [KO:K03115]
106446206  casein kinase II subunit beta-2 isoform X1 [KO:K03115]
106438226  putative casein kinase II subunit beta-4 isoform X1 [KO:K03115]
106381881  casein kinase II subunit beta-1 isoform X1 [KO:K03115]
106395832  putative casein kinase II subunit beta-4 [KO:K03115]
106402474  casein kinase II subunit beta-3 isoform X1 [KO:K03115]
106415652  casein kinase II subunit beta-3 [KO:K03115]
106413504  casein kinase II subunit beta-1 isoform X1 [KO:K03115]
106414855  casein kinase II subunit beta-2 isoform X1 [KO:K03115]
111197909  casein kinase II subunit beta-2 isoform X1 [KO:K03115]
111208558  casein kinase II subunit beta-3 [KO:K03115]
106398597  casein kinase II subunit beta-1-like [KO:K03115]
125584339  putative casein kinase II subunit beta-4 [KO:K03115]
106380102  LOW QUALITY PROTEIN: transcription factor TCP7 [KO:K16221]
106366054  transcription factor TCP7 [KO:K16221]
106348344  transcription factor TCP7-like [KO:K16221]
106396525  transcription factor TCP21-like [KO:K16221]
106419010  transcription factor TCP21 [KO:K16221]
106380529  transcription factor TCP21 [KO:K16221]
106406772  transcription factor TCP21 [KO:K16221]
106384975  transcription factor TCP21-like [KO:K16221]
106425698  transcription factor TCP7-like [KO:K16221]
111210456  transcription factor TCP21 [KO:K16221]
106439888  transcription factor TCP7 [KO:K16221]
125577739  transcription factor TCP7-like [KO:K16221]
106439924  two-component response regulator-like APRR1 [KO:K12127]
106428080  two-component response regulator-like APRR1 isoform X1 [KO:K12127]
106382203  two-component response regulator-like APRR1 isoform X1 [KO:K12127]
125577741  two-component response regulator-like APRR1 isoform X1 [KO:K12127]
106433001  adagio protein 2-like [KO:K12115]
106357634  adagio protein 2-like isoform X2 [KO:K12115]
106400371  protein GIGANTEA [KO:K12124]
106429770  protein GIGANTEA [KO:K12124]
106415367  two-component response regulator-like APRR3 [KO:K12131]
106367233  chalcone synthase 3 [KO:K00660] [EC:2.3.1.74]
106372253  chalcone synthase 3-like [KO:K00660] [EC:2.3.1.74]
106378767  chalcone synthase-like [KO:K00660] [EC:2.3.1.74]
106382267  chalcone synthase-like [KO:K00660] [EC:2.3.1.74]
106431192  chalcone synthase 3 [KO:K00660] [EC:2.3.1.74]
106425116  chalcone synthase-like [KO:K00660] [EC:2.3.1.74]
111204286  chalcone synthase 3-like [KO:K00660] [EC:2.3.1.74]
106426632  chalcone synthase 3-like [KO:K00660] [EC:2.3.1.74]
125579034  chalcone synthase 1 [KO:K00660] [EC:2.3.1.74]
106429586  cryptochrome-1-like [KO:K12118]
106422131  cryptochrome-1 [KO:K12118]
106424300  cryptochrome-2 [KO:K12119]
106371016  cryptochrome-2-like isoform X1 [KO:K12119]
106369426  cryptochrome-2-like isoform X1 [KO:K12119]
111197715  cryptochrome-2 isoform X1 [KO:K12119]
106451277  E3 ubiquitin-protein ligase COP1-like [KO:K10143] [EC:2.3.2.27]
106366040  WD repeat-containing protein RUP2 [KO:K10143] [EC:2.3.2.27]
106428408  WD repeat-containing protein RUP2-like [KO:K10143] [EC:2.3.2.27]
106396324  E3 ubiquitin-protein ligase COP1 isoform X1 [KO:K10143] [EC:2.3.2.27]
111207855  cyclic dof factor 1-like [KO:K16222]
106351799  cyclic dof factor 1-like [KO:K16222]
106369019  cyclic dof factor 1 [KO:K16222]
106374243  cyclic dof factor 1 [KO:K16222]
106370571  zinc finger protein CONSTANS [KO:K12135]
125593107  zinc finger protein CONSTANS-like [KO:K12135]
106424669  zinc finger protein CONSTANS [KO:K12135]
106357361  protein FLOWERING LOCUS T-like [KO:K16223]
106395002  protein FLOWERING LOCUS T-like [KO:K16223]
106364827  protein TWIN SISTER of FT-like [KO:K16223]
106450516  protein SUPPRESSOR OF PHYA-105 1 [KO:K16240]
106429646  protein SUPPRESSOR OF PHYA-105 1 [KO:K16240]
106438276  protein SUPPRESSOR OF PHYA-105 1-like isoform X1 [KO:K16240]
106415001  protein SUPPRESSOR OF PHYA-105 1 [KO:K16240]
106422373  protein SPA1-RELATED 2 [KO:K16240]
106439695  protein SPA1-RELATED 2 [KO:K16240]
106410825  protein SPA1-RELATED 4-like isoform X1 [KO:K26557]
106400599  protein SPA1-RELATED 3-like isoform X1 [KO:K26557]
106405808  protein SPA1-RELATED 3 isoform X1 [KO:K26557]
106345289  transcription factor HY5-like [KO:K16241]
106372421  transcription factor HY5 [KO:K16241]
106383518  transcription factor HY5 [KO:K16241]
106391328  transcription factor HY5 [KO:K16241]
106385812  transcription factor HY5-like [KO:K16241]
106411089  transcription factor HY5-like [KO:K16241]
106431878  transcription factor HY5-like [KO:K16241]
125581422  transcription factor HY5-like [KO:K16241]
125587632  transcription factor HY5-like [KO:K16241]
125609007  transcription factor HY5-like [KO:K16241]
Reference
PMID:11710980
  Authors
McWatters HG, Roden LC, Staiger D.
  Title
Picking out parallels: plant circadian clocks in context.
  Journal
Philos Trans R Soc Lond B Biol Sci 356:1735-43 (2001)
DOI:10.1098/rstb.2001.0936
Reference
PMID:11597501
  Authors
Yanovsky MJ, Kay SA.
  Title
Signaling networks in the plant circadian system.
  Journal
Curr Opin Plant Biol 4:429-35 (2001)
DOI:10.1016/S1369-5266(00)00196-5
Reference
PMID:10792828
  Authors
Kim L, Kircher S, Toth R, Adam E, Schafer E, Nagy F.
  Title
Light-induced nuclear import of phytochrome-A:GFP fusion proteins is differentially regulated in transgenic tobacco and Arabidopsis.
  Journal
Plant J 22:125-33 (2000)
DOI:10.1046/j.1365-313x.2000.00729.x
Reference
PMID:8953247
  Authors
Sakamoto K, Nagatani A.
  Title
Nuclear localization activity of phytochrome B.
  Journal
Plant J 10:859-68 (1996)
DOI:10.1046/j.1365-313X.1996.10050859.x
Reference
PMID:11402161
  Authors
Liu XL, Covington MF, Fankhauser C, Chory J, Wagner DR.
  Title
ELF3 encodes a circadian clock-regulated nuclear protein that functions in an Arabidopsis PHYB signal transduction pathway.
  Journal
Plant Cell 13:1293-304 (2001)
DOI:10.1105/TPC.000475
Reference
PMID:11069292
  Authors
Zhu Y, Tepperman JM, Fairchild CD, Quail PH.
  Title
Phytochrome B binds with greater apparent affinity than phytochrome A to the basic helix-loop-helix factor PIF3 in a reaction requiring the PAS domain of PIF3.
  Journal
Proc Natl Acad Sci U S A 97:13419-24 (2000)
DOI:10.1073/pnas.230433797
Reference
PMID:9845368
  Authors
Ni M, Tepperman JM, Quail PH.
  Title
PIF3, a phytochrome-interacting factor necessary for normal photoinduced signal transduction, is a novel basic helix-loop-helix protein.
  Journal
Cell 95:657-67 (1998)
DOI:10.1016/S0092-8674(00)81636-0
Reference
PMID:11743105
  Authors
Toth R, Kevei E, Hall A, Millar AJ, Nagy F, Kozma-Bognar L.
  Title
Circadian clock-regulated expression of phytochrome and cryptochrome genes in Arabidopsis.
  Journal
Plant Physiol 127:1607-16 (2001)
DOI:10.1104/pp.900010
Reference
PMID:11752379
  Authors
Schultz TF, Kiyosue T, Yanovsky M, Wada M, Kay SA.
  Title
A role for LKP2 in the circadian clock of Arabidopsis.
  Journal
Plant Cell 13:2659-70 (2001)
DOI:10.1105/tpc.010332
Reference
PMID:11260718
  Authors
Jarillo JA, Capel J, Tang RH, Yang HQ, Alonso JM, Ecker JR, Cashmore AR.
  Title
An Arabidopsis circadian clock component interacts with both CRY1 and phyB.
  Journal
Nature 410:487-90 (2001)
DOI:10.1038/35068589
Reference
PMID:11828029
  Authors
Matsushika A, Makino S, Kojima M, Yamashino T, Mizuno T.
  Title
The APRR1/TOC1 quintet implicated in circadian rhythms of Arabidopsis thaliana: II. Characterization with CCA1-overexpressing plants.
  Journal
Plant Cell Physiol 43:118-22 (2002)
DOI:10.1093/pcp/pcf006
Reference
PMID:10535927
  Authors
Sugano S, Andronis C, Ong MS, Green RM, Tobin EM.
  Title
The protein kinase CK2 is involved in regulation of circadian rhythms in Arabidopsis.
  Journal
Proc Natl Acad Sci U S A 96:12362-6 (1999)
DOI:10.1073/pnas.96.22.12362
Reference
PMID:11089975
  Authors
Mas P, Devlin PF, Panda S, Kay SA.
  Title
Functional interaction of phytochrome B and cryptochrome 2.
  Journal
Nature 408:207-11 (2000)
DOI:10.1038/35041583
Reference
PMID:9651577
  Authors
Ahmad M, Jarillo JA, Smirnova O, Cashmore AR.
  Title
The CRY1 blue light photoreceptor of Arabidopsis interacts with phytochrome A in vitro.
  Journal
Mol Cell 1:939-48 (1998)
DOI:10.1016/S1097-2765(00)80094-5
Reference
PMID:11486091
  Authors
Alabadi D, Oyama T, Yanovsky MJ, Harmon FG, Mas P, Kay SA.
  Title
Reciprocal regulation between TOC1 and LHY/CCA1 within the Arabidopsis circadian clock.
  Journal
Science 293:880-3 (2001)
DOI:10.1126/science.1061320
Reference
PMID:11148285
  Authors
Borevitz JO, Xia Y, Blount J, Dixon RA, Lamb C.
  Title
Activation tagging identifies a conserved MYB regulator of phenylpropanoid biosynthesis.
  Journal
Plant Cell 12:2383-2394 (2000)
DOI:10.1105/tpc.12.12.2383
Reference
PMID:12091722
  Authors
Murakami-Kojima M, Nakamichi N, Yamashino T, Mizuno T.
  Title
The APRR3 component of the clock-associated APRR1/TOC1 quintet is phosphorylated by a novel protein kinase belonging to the WNK family, the gene for which is also transcribed rhythmically in Arabidopsis thaliana.
  Journal
Plant Cell Physiol 43:675-83 (2002)
DOI:10.1093/pcp/pcf084
Reference
PMID:19386812
  Authors
Pan Y, Michael TP, Hudson ME, Kay SA, Chory J, Schuler MA
  Title
Cytochrome P450 monooxygenases as reporters for circadian-regulated pathways.
  Journal
Plant Physiol 150:858-78 (2009)
DOI:10.1104/pp.108.130757
Reference
PMID:11118138
  Authors
Harmer SL, Hogenesch JB, Straume M, Chang HS, Han B, Zhu T, Wang X, Kreps JA, Kay SA
  Title
Orchestrated transcription of key pathways in Arabidopsis by the circadian clock.
  Journal
Science 290:2110-3 (2000)
DOI:10.1126/science.290.5499.2110
Reference
PMID:12045273
  Authors
Mouradov A, Cremer F, Coupland G
  Title
Control of flowering time: interacting pathways as a basis for diversity.
  Journal
Plant Cell 14 Suppl:S111-30 (2002)
DOI:10.1105/tpc.001362
Reference
PMID:15568973
  Authors
Chen M, Chory J, Fankhauser C
  Title
Light signal transduction in higher plants.
  Journal
Annu Rev Genet 38:87-117 (2004)
DOI:10.1146/annurev.genet.38.072902.092259
Reference
PMID:16096959
  Authors
Mas P
  Title
Circadian clock signaling in Arabidopsis thaliana: from gene expression to physiology and development.
  Journal
Int J Dev Biol 49:491-500 (2005)
DOI:10.1387/ijdb.041968pm
Reference
PMID:17304247
  Authors
Jiao Y, Lau OS, Deng XW
  Title
Light-regulated transcriptional networks in higher plants.
  Journal
Nat Rev Genet 8:217-30 (2007)
DOI:10.1038/nrg2049
Reference
PMID:18444908
  Authors
Turck F, Fornara F, Coupland G
  Title
Regulation and identity of florigen: FLOWERING LOCUS T moves center stage.
  Journal
Annu Rev Plant Biol 59:573-94 (2008)
DOI:10.1146/annurev.arplant.59.032607.092755
Reference
PMID:19836294
  Authors
Imaizumi T
  Title
Arabidopsis circadian clock and photoperiodism: time to think about location.
  Journal
Curr Opin Plant Biol 13:83-9 (2010)
DOI:10.1016/j.pbi.2009.09.007
Reference
PMID:20459860
  Authors
McClung CR
  Title
A modern circadian clock in the common angiosperm ancestor of monocots and eudicots.
  Journal
BMC Biol 8:55 (2010)
DOI:10.1186/1741-7007-8-55
Reference
PMID:20809800
  Authors
Doherty CJ, Kay SA
  Title
Circadian control of global gene expression patterns.
  Journal
Annu Rev Genet 44:419-44 (2010)
DOI:10.1146/annurev-genet-102209-163432
Reference
PMID:20889330
  Authors
McClung CR, Gutierrez RA
  Title
Network news: prime time for systems biology of the plant circadian clock.
  Journal
Curr Opin Genet Dev 20:588-98 (2010)
DOI:10.1016/j.gde.2010.08.010
Reference
PMID:22190341
  Authors
Lu SX, Webb CJ, Knowles SM, Kim SH, Wang Z, Tobin EM
  Title
CCA1 and ELF3 Interact in the control of hypocotyl length and flowering time in Arabidopsis.
  Journal
Plant Physiol 158:1079-88 (2012)
DOI:10.1104/pp.111.189670
Reference
PMID:22705257
  Authors
Lau OS, Deng XW
  Title
The photomorphogenic repressors COP1 and DET1: 20 years later.
  Journal
Trends Plant Sci 17:584-93 (2012)
DOI:10.1016/j.tplants.2012.05.004
Related
pathway
bna00196  Photosynthesis - antenna proteins
KO pathway
ko04712   

  All links  
Genome (1)   
   KEGG GENOME (1)   
Gene (132)   
   KEGG GENES (132)   
All databases (133)   

Download RDF
DBGET integrated database retrieval system