Tuning the output of the higher plants Circadian Clock
DOI:
https://doi.org/10.14719/pst.2521Keywords:
Arabidopsis, circadian clock, molecular mechanism, plant rhythmAbstract
The circadian clock is an ascribed regulator found in the cells of creatures, that keeps biological and behavioral processes in sync with daily environmental changes throughout two 24-hour cycles. When the circadian clock in humans malfunctions or is misaligned with environmental signals, the timing of the sleep-wake cycle is altered and several circadian rhythm sleep disorders result. Due to the Earth's rotation on its axis, predictable environmental changes are anticipated by complex processes. The combined term for these systems is the circadian clock. The circadian rhythm regulates photosynthesis, photoperiodism, and photoperiodism, making it the "primary controller of plant life." The circadian clock is made up of post-translational alterations to core oscillators, epigenetic tweaks to DNA and histones, and autoregulatory feedback loops in transcription. In addition, the circadian clock is cell-autonomous and regulates the circadian rhythms of distinct organs. Biochemical elements such as photosynthetic products, mineral nutrients, calcium ions, and hormones are used by the core oscillators to communicate with one another. Arabidopsis is utilized to identify clock-related genes that govern plant growth, germination, pollination, flowering, abiotic and biotic stress responses, and more. The biological cycles of all species, notably humans, are undoubtedly impacted by other elements, including high altitude and changing ecosystems, in addition to the ones already stated. Although it hasn't yet published any experimental or scientific evidence to support them, the implication that living things have lives does appear inescapable. Hence, the present study elaborates on the higher plants related to the circadian clock.
Downloads
References
Ghanei M, Ahmady K, Babaei M, Tavana AM, Bahadori M, Ebadi A, Poursaid SM. Knowledge of healthy lifestyle in Iran: a systematic review. Electron Physician. 2016;8(3):2199-207. https://doi.org/10.19082/2199
Krahmer J, Hindle M, Perby LK, Mogensen HK, Nielsen TH, Halliday KJ, van Ooijen G, Le Bihan T, Millar AJ. The Circadian Clock Gene Circuit Controls Protein and Phosphoprotein Rhythms in Arabidopsis thaliana. Mol Cell Proteomics. 2022;21(1):100172. https://doi.org/10.1016/j.mcpro.2021.100172
Xu, Xiaodong & Yuan, Li & Yang, Xin & Zhang, Xiao & Wang, Lei & Xie, Qiguang. (2022). Circadian clock in plants: Linking timing to fitness. Journal of Integrative Plant Biology. 64:792–811. https://doi.org/10.1111/jipb.13230
Takahashi JS. The 50th anniversary of the Konopka and Benzer 1971 paper in PNAS: Clock Mutants of Drosophila melanogaster. Proc Natl Acad Sci U S A. 2021 Sep 28;118(39):e2110171118. https://doi.org/10.1073/pnas.2110171118
Kim JH, Bell LJ, Wang X, Wimalasekera R, Bastos HP, Kelly KA, Hannah MA, Webb AAR. Arabidopsis sirtuins and poly (ADP-ribose) polymerases regulate gene expression in the day but do not affect circadian rhythms. Plant Cell Environ. 2021 ;44(5):1451-1467. https://doi.org/10.1111/pce.13996
Sanchez SE, Rugnone ML, Kay SA. Light Perception: A Matter of Time. Mol Plant. 2020;13(3):363-385. https://doi.org/10.1016/j.molp.2020.02.006
Papazyan R, Zhang Y, Lazar MA. Genetic and epigenomic mechanisms of mammalian circadian transcription. Nature structural & molecular biology. 2016;23(12):1045-52. https://doi.org/10.1038/nsmb.3324
O'Neill JS, van Ooijen G, Dixon LE, Troein C, Corellou F, Bouget FY, Reddy AB, Millar AJ. Circadian rhythms persist without transcription in a eukaryote. Nature. 2011;469:554-8. https://doi.org/10.1038/nature09654
Montaruli A, Castelli L, Mulè A, Scurati R, Esposito F, Galasso L, Roveda E. Biological Rhythm and Chronotype: New Perspectives in Health. Biomolecules. 2021;11(4):487. https://doi.org/10.3390/biom11040487
Yan J, Kim YJ, Somers DE. Post-Translational Mechanisms of Plant Circadian Regulation. Genes (Basel). 2021;12(3):325. https://doi.org/10.3390/genes12030325.
Román Á, Li X, Deng D, Davey JW, James S, Graham IA, Haydon MJ. Superoxide is promoted by sucrose and affects amplitude of circadian rhythms in the evening. Proc Natl Acad Sci U S A. 2021;118(10):e2020646118. https://doi.org/10.1073/pnas.2020646118
Fitzpatrick TB, Noordally Z. Of clocks and coenzymes in plants: intimately connected cycles guiding central metabolism? New Phytol. 2021;230(2):416-432. https://doi.org/10.1111/nph.17127
Paul E Verslues and others, Burning questions for a warming and changing world: 15 unknowns in plant abiotic stress, The Plant Cell. 2023;35(1): 67–108 https://doi.org/10.1093/plcell/koac263
Davis W, Endo M, Locke JCW. Spatially specific mechanisms and functions of the plant circadian clock. Plant Physiol. 2022;190(2):938-951. https://doi.org/10.1093/plphys/kiac236
Su C, Wang Y, Yu Y, He Y, Wang L. Coordinative regulation of plants growth and development by light and circadian clock. aBIOTECH. 2021;2(2):176-189. Published 2021. https://doi.org/10.1007/s42994-021-00041-6
Yamashino T. From a repressilator-based circadian clock mechanism to an external coincidence model responsible for photoperiod and temperature control of plant architecture in Arabidopsis thaliana. Biosci Biotechnol Biochem. 2013;77(1):10-16. https://doi.org/10.1271/bbb.120765
Xu X, Yuan L, Yang X, Zhang X, Wang L, Xie Q. Circadian clock in plants: Linking timing to fitness. J Integr Plant Biol. 2022;64(4):792-811. https://doi.org/10.1111/jipb.13230
Nakamichi N. The Transcriptional Network in the Arabidopsis Circadian Clock System. Genes (Basel). 2020;11(11):1284. https://doi.org/10.3390/genes11111284
Más P. Circadian clock signaling in Arabidopsis thaliana: from gene expression to physiology and development. Int J Dev Biol. 2005;49(5-6):491-500. https://doi.org/10.1387/ijdb.041968pm
Sanchez SE, Kay SA. The Plant Circadian Clock: From a Simple Timekeeper to a Complex Developmental Manager. Cold Spring Harb Perspect Biol. 2016;8(12):a027748. https://doi.org/10.1101/cshperspect.a027748
Hemmes H, Henriques R, Jang IC, Kim S, Chua NH. Circadian clock regulates dynamic chromatin modifications associated with Arabidopsis CCA1/LHY and TOC1 transcriptional rhythms. Plant Cell Physiol. 2012;53(12):2016-29. https://doi.org/10.1093/pcp/pcs148
Venkat A and Muneer S (2022) Role of Circadian Rhythms in Major Plant Metabolic and Signaling Pathways. Front. Plant Sci. 13:836244. https://doi.org/10.3389/fpls.2022.836244
Yan J, Kim YJ, Somers DE. Post-Translational Mechanisms of Plant Circadian Regulation. Genes (Basel). 2021;12(3):325. https://doi.org/10.3390/genes12030325
de Los Reyes P, Romero-Campero FJ, Ruiz MT, Romero JM, Valverde F. Evolution of Daily Gene Co-expression Patterns from Algae to Plants. Front Plant Sci. 2017;8:1217. https://doi.org/10.3389/fpls.2017.01217
Chen ZJ, Mas P. Interactive roles of chromatin regulation and circadian clock function in plants. Genome Biol. 2019;20(1):62. https://doi.org/10.1186/s13059-019-1672-9
Hotta CT. The evolution and function of the Pseudo Response Regulator gene family in the plant circadian clock. Genet Mol Biol. 2022;45(3):e20220137. https://doi.org/10.1590/1678-4685-GMB-2022-0137
Lopez L, Fasano C, Perrella G, Facella P. Cryptochromes and the Circadian Clock: The Story of a Very Complex Relationship in a Spinning World. Genes. 2021;12(5):672. https://doi.org/10.3390/genes12050672
Staiger D, Shin J, Johansson M, Davis SJ. The circadian clock goes genomic. Genome Biol. 2013;14(6):208. https://doi.org/10.1186/gb-2013-14-6-208
de Leone MJ, Hernando CE, Mora-García S, Yanovsky MJ. It's a matter of time: the role of transcriptional regulation in the circadian clock-pathogen crosstalk in plants. Transcription. 2020;11(3-4):100-16. https://doi.org/10.1080/21541264.2020.1820300
Sorkin ML, Tzeng SC, King S, Romanowski A, Kahle N, Bindbeutel R, Hiltbrunner A, Yanovsky MJ, Evans BS, Nusinow DA. Cold Regulated Gene 27 and 28 antagonize the transcriptional activity of the RVE8/LNK1/LNK2 circadian complex. Plant Physiol. 2023;192(3):2436-2456. https://doi.org/10.1093/plphys/kiad210
Li Yuan and others, BBX19 fine-tunes the circadian rhythm by interacting with Pseudo-Response Regulator proteins to facilitate their repressive effect on morning-phased clock genes, The Plant Cell, 2021; 33(8):2602–17, https://doi.org/10.1093/plcell/koab133
Zhang Y, Ma Y, Zhang H, Xu J, Gao X, Zhang T, Liu X, Guo L, Zhao D. Environmental F actors coordinate circadian clock function and rhythm to regulate plant development. Plant Signal Behav. 2023;18(1):2231202. https://doi.org/10.1080/15592324.2023.2231202
Ponnu J, Hoecker U. Signaling Mechanisms by Arabidopsis Cryptochromes. Front Plant Sci. 2022;13:844714. https://doi.org/10.3389/fpls.2022.844714.
Soy J, Leivar P, González-Schain N, Martín G, Diaz C, Sentandreu M, Al-Sady B, Quail PH, Monte E. Molecular convergence of clock and photosensory pathways through PIF3-TOC1 interaction and co-occupancy of target promoters. Proc Natl Acad Sci U S A. 2016;113(17):4870-5. https://doi.org/10.1073/pnas.1603745113
Maric A, Mas P. Chromatin Dynamics and Transcriptional Control of Circadian Rhythms in Arabidopsis. Genes. 2020;11(10):1170. https://doi.org/10.3390/genes11101170
Nakamichi N, Takao S, Kudo T, Kiba T, Wang Y, Kinoshita T, Sakakibara H. Improvement of Arabidopsis Biomass and Cold, Drought and Salinity Stress Tolerance by Modified Circadian Clock-Associated Pseudo-Response Regulators. Plant Cell Physiol. 2016;57(5):1085-97. https://doi.org/10.1093/pcp/pcw057
Fitzpatrick TB, Noordally Z. Of clocks and coenzymes in plants: intimately connected cycles guiding central metabolism? New Phytol. 2021;230(2):416-432. https://doi.org/10.1111/nph.17127
Swift J, Greenham K, Ecker JR, Coruzzi GM, Robertson McClung C. The biology of time: dynamic responses of cell types to developmental, circadian and environmental cues. Plant J. 2022;109(4):764-778. https://doi.org/10.1111/tpj.15589
Bassi R, Dall'Osto L. Dissipation of Light Energy Absorbed in Excess: The Molecular Mechanisms. Annu Rev Plant Biol. 2021;72:47-76. https://doi.org/10.1146/annurev-arplant-071720-015522
Lei J, Jayaprakasha GK, Singh J, Uckoo R, Borrego EJ, Finlayson S, Kolomiets M, Patil BS, Braam J, Zhu-Salzman K. Circadian Clock-Associated1 Controls Resistance to Aphids by Altering Indole Glucosinolate Production. Plant Physiol. 2019;181(3):1344-59. https://doi.org/10.1104/pp.19.00676
Yang Y, Li Y, Sancar A, Oztas O. The circadian clock shapes the Arabidopsis transcriptome by regulating alternative splicing and alternative polyadenylation. J Biol Chem. 2020;295(22):7608-19. https://doi.org/10.1074/jbc.RA120.013513
Ji X, Van den Ende W, Van Laere A, Cheng S, Bennett J. Structure, evolution, and expression of the two invertase gene families of rice. J Mol Evol. 2005;60(5):615-34. https://doi.org/10.1007/s00239-004-0242-1
Xie Q, Wang Y, Yuan L, Xu X. Measurement of Luciferase Rhythms in Soybean Hairy Roots. Methods Mol Biol. 2022;2398:65-73. https://doi.org/10.1007/978-1-0716-1912-4_6
Alves LC, Llerena JPP, Mazzafera P, Vicentini R. Diel oscillations in cell wall components and soluble sugars as a response to short-day in sugarcane (Saccharum sp.). BMC Plant Biol. 2019;19(1):215. https://doi.org/10.1186/s12870-019-1837-4.
Facella P, Lopez L, Carbone F, Galbraith DW, Giuliano G, Perrotta G. Diurnal and circadian rhythms in the tomato transcriptome and their modulation by cryptochrome photoreceptors. PLoS One. 2008;3(7):e2798. https://doi.org/10.1371/journal.pone.0002798
Chen Z, Gao K, Su X, Rao P, An X. Genome-Wide Identification of the Invertase Gene Family in Populus. PLoS One. 2015;10(9):e0138540. https://doi.org/10.1371/journal.pone.0138540
Hassidim M, Dakhiya Y, Turjeman A, Hussien D, Shor E, Anidjar A, Goldberg K, Green RM. Circadian Clock Associated1 (CCA1) and the Circadian Control of Stomatal Aperture. Plant Physiol. 2017;175(4):1864-1877. https://doi.org/10.1104/pp.17.01214
Mark Greenwood and Mirela Domijan and Peter D. Gould and Anthony J.W. Hall and James C.W. Locke.Coordinated circadian timing through the integration of local inputs in Arabidopsis thaliana. Cold Spring Harbor Laboratory. 2019. https://doi.org/10.1101/617803
Lymperopoulos P, Msanne J and Rabara R (2018) Phytochrome and Phytohormones: Working in Tandem for Plant Growth and Development. Front. Plant Sci. 9:1037. https://doi.org/10.3389/fpls.2018.01037
Creux N, Harmer S. Circadian Rhythms in Plants. Cold Spring Harb Perspect Biol. 2019 Sep 3;11(9):a034611. https://doi.org/10.1101/cshperspect.a034611
Xiong L, Zhou W, Mas P. Illuminating the Arabidopsis circadian epigenome: Dynamics of histone acetylation and deacetylation. Curr Opin Plant Biol. 2022 Oct;69:102268. https://doi.org/10.1016/j.pbi.2022.102268
Patnaik A, Alavilli H, Rath J, Panigrahi KCS, Panigrahy M. Variations in Circadian Clock Organization & Function: A Journey from Ancient to Recent. Planta. 2022;256(5):91. https://doi.org/10.1007/s00425-022-04002-1
Ito S, Kawamura H, Niwa Y, Nakamichi N, Yamashino T, Mizuno T. A genetic study of the Arabidopsis circadian clock with reference to the Timing of Cab Expression 1 (TOC1) gene. Plant Cell Physiol. 2009;50(2):290-03. https://doi.org/10.1093/pcp/pcn198
Yamamoto Y, Tabata K. Enhancement of Arabidopsis growth by non-24 hour day-night cycles. Plant Direct. 2022;6(3):e391. https://doi.org/10.1002/pld3.391
Huang H, Nusinow DA. Into the Evening: Complex Interactions in the Arabidopsis Circadian Clock. Trends Genet. 2016;32(10):674-86. https://doi.org/10.1016/j.tig.2016.08.002
Cuitun-Coronado D, Rees H, Colmer J, Hall A, de Barros Dantas LL, Dodd AN. Circadian and diel regulation of photosynthesis in the bryophyte Marchantia polymorpha. Plant Cell Environ. 2022;45(8):2381-94. https://doi.org/10.1111/pce.14364
Newman A, Picot E, Davies S, Hilton S, Carré IA, Bending GD. Circadian rhythms in the plant host influence rhythmicity of rhizosphere microbiota. BMC Biol. 2022;20(1):235. https://doi.org/10.1186/s12915-022-01430-z
Gao W, Zhang L, Wang J, Liu Z, Zhang Y, Xue C, Liu M, Zhao J. ZjSEP3 modulates flowering time by regulating the LHY promoter. BMC Plant Biol. 2021;11;21(1):527. https://doi.org/10.1186/s12870-021-03305-x
Aros-Mualin D, Guadagno CR, Silvestro D, Kessler M. Light, rather than circadian rhythm, regulates gas exchange in ferns and lycophytes. Plant Physiol. 2023; 17;191(3):1634-47. https://doi.org/10.1093/plphys/kiad036
Hargreaves JK, Oakenfull RJ, Davis AM, Pullen F, Knight MI, Pitchford JW, Davis SJ. Multiple metals influence distinct properties of the Arabidopsis circadian clock. PLoS One. 2022;17(4):e0258374. https://doi.org/10.1371/journal.pone.0258374
Schwarz B, Dormann CF, Vázquez DP, Fründ J. Within-day dynamics of plant-pollinator networks are dominated by early flower closure: an experimental test of network plasticity. Oecologia. 2021;196(3):781-94. https://doi.org/10.1007/s00442-021-04952-5
Chen K, Su X, Yang H, Peng Y, Wu L, Zhao Z, Lin T, Bai L, Wang L. Multi-omics analyses reveal the crosstalk between the circadian clock and the response to herbicide application in Oryza sativa. Front Plant Sci. 2023;14:1155258. https://doi.org/10.3389/fpls.2023.1155258
de Melo JRF, Gutsch A, Caluwé T, Leloup JC, Gonze D, Hermans C, Webb AAR, Verbruggen N. Magnesium maintains the length of the circadian period in Arabidopsis. Plant Physiol. 2021 Mar 15;185(2):519-532. https://doi.org/10.1093/plphys/kiaa042
Cha JY, Kim J, Jeong SY, Shin GI, Ji MG, Hwang JW, Khaleda L, Liao X, Ahn G, Park HJ, Kim DY, Pardo JM, Lee SY, Yun DJ, Somers DE, Kim WY. The Na+/H+ antiporter Salt Overly Sensitive 1 regulates salt compensation of circadian rhythms by stabilizing GIGANTEA in Arabidopsis. Proc Natl Acad Sci U S A. 2022; 16;119(33):e2207275119. https://doi.org/10.1073/pnas.2207275119
Uemoto K, Mori F, Yamauchi S, Kubota A, Takahashi N, Egashira H, Kunimoto Y, Araki T, Takemiya A, Ito H, Endo M. Root PRR7 Improves the Accuracy of the Shoot Circadian Clock through Nutrient Transport. Plant Cell Physiol. 2023 Mar 15;64(3):352-62. https://doi.org/10.1093/pcp/pcad003
Downloads
Published
Versions
- 23-09-2023 (2)
- 11-09-2023 (1)
How to Cite
Issue
Section
License
Copyright (c) 2022 Aditi Chaudhary, Manikantan Pappuswamy, Amie Chakma, Ramyashree C S, Kruthika P, Kruttika Subash Jan, Medini K Deshpande, Carol C Morris, Joseph Kadanthottu Sebastian
This work is licensed under a Creative Commons Attribution 4.0 International License.
Copyright and Licence details of published articles
Authors who publish with this journal agree to the following terms:
- Authors retain copyright and grant the journal right of first publication with the work simultaneously licensed under a Creative Commons Attribution License that allows others to share the work with an acknowledgement of the work's authorship and initial publication in this journal.
- Authors are able to enter into separate, additional contractual arrangements for the non-exclusive distribution of the journal's published version of the work (e.g., post it to an institutional repository or publish it in a book), with an acknowledgement of its initial publication in this journal.
Open Access Policy
Plant Science Today is an open access journal. There is no registration required to read any article. All published articles are distributed under the terms of the Creative Commons Attribution License (CC Attribution 4.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited (https://creativecommons.org/licenses/by/4.0/). Authors are permitted and encouraged to post their work online (e.g., in institutional repositories or on their website) prior to and during the submission process, as it can lead to productive exchanges, as well as earlier and greater citation of published work (See The Effect of Open Access).