Dynamical differential expression (DyDE) reveals the period control mechanisms of the Arabidopsis circadian oscillator.
The circadian oscillator, an internal time-keeping device found in most organisms, enables timely regulation of daily biological activities by maintaining synchrony with the external environment. The mechanistic basis underlying the adjustment of circadian rhythms to changing external conditions, ho...
| Main Authors: | , , , , , , , , , , , , , |
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| Format: | Article |
| Language: | English |
| Published: |
Public Library of Science (PLoS)
2019-01-01
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| Series: | PLoS Computational Biology |
| Online Access: | http://europepmc.org/articles/PMC6377142?pdf=render |
| _version_ | 1811268457601171456 |
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| author | Laurent Mombaerts Alberto Carignano Fiona C Robertson Timothy J Hearn Jin Junyang David Hayden Zoe Rutterford Carlos T Hotta Katherine E Hubbard Marti Ruiz C Maria Ye Yuan Matthew A Hannah Jorge Goncalves Alex A R Webb |
| author_facet | Laurent Mombaerts Alberto Carignano Fiona C Robertson Timothy J Hearn Jin Junyang David Hayden Zoe Rutterford Carlos T Hotta Katherine E Hubbard Marti Ruiz C Maria Ye Yuan Matthew A Hannah Jorge Goncalves Alex A R Webb |
| author_sort | Laurent Mombaerts |
| collection | DOAJ |
| description | The circadian oscillator, an internal time-keeping device found in most organisms, enables timely regulation of daily biological activities by maintaining synchrony with the external environment. The mechanistic basis underlying the adjustment of circadian rhythms to changing external conditions, however, has yet to be clearly elucidated. We explored the mechanism of action of nicotinamide in Arabidopsis thaliana, a metabolite that lengthens the period of circadian rhythms, to understand the regulation of circadian period. To identify the key mechanisms involved in the circadian response to nicotinamide, we developed a systematic and practical modeling framework based on the identification and comparison of gene regulatory dynamics. Our mathematical predictions, confirmed by experimentation, identified key transcriptional regulatory mechanisms of circadian period and uncovered the role of blue light in the response of the circadian oscillator to nicotinamide. We suggest that our methodology could be adapted to predict mechanisms of drug action in complex biological systems. |
| first_indexed | 2024-04-12T21:23:14Z |
| format | Article |
| id | doaj.art-19c9bf8d43ae49adab43eb86c2a2c240 |
| institution | Directory Open Access Journal |
| issn | 1553-734X 1553-7358 |
| language | English |
| last_indexed | 2024-04-12T21:23:14Z |
| publishDate | 2019-01-01 |
| publisher | Public Library of Science (PLoS) |
| record_format | Article |
| series | PLoS Computational Biology |
| spelling | doaj.art-19c9bf8d43ae49adab43eb86c2a2c2402022-12-22T03:16:14ZengPublic Library of Science (PLoS)PLoS Computational Biology1553-734X1553-73582019-01-01151e100667410.1371/journal.pcbi.1006674Dynamical differential expression (DyDE) reveals the period control mechanisms of the Arabidopsis circadian oscillator.Laurent MombaertsAlberto CarignanoFiona C RobertsonTimothy J HearnJin JunyangDavid HaydenZoe RutterfordCarlos T HottaKatherine E HubbardMarti Ruiz C MariaYe YuanMatthew A HannahJorge GoncalvesAlex A R WebbThe circadian oscillator, an internal time-keeping device found in most organisms, enables timely regulation of daily biological activities by maintaining synchrony with the external environment. The mechanistic basis underlying the adjustment of circadian rhythms to changing external conditions, however, has yet to be clearly elucidated. We explored the mechanism of action of nicotinamide in Arabidopsis thaliana, a metabolite that lengthens the period of circadian rhythms, to understand the regulation of circadian period. To identify the key mechanisms involved in the circadian response to nicotinamide, we developed a systematic and practical modeling framework based on the identification and comparison of gene regulatory dynamics. Our mathematical predictions, confirmed by experimentation, identified key transcriptional regulatory mechanisms of circadian period and uncovered the role of blue light in the response of the circadian oscillator to nicotinamide. We suggest that our methodology could be adapted to predict mechanisms of drug action in complex biological systems.http://europepmc.org/articles/PMC6377142?pdf=render |
| spellingShingle | Laurent Mombaerts Alberto Carignano Fiona C Robertson Timothy J Hearn Jin Junyang David Hayden Zoe Rutterford Carlos T Hotta Katherine E Hubbard Marti Ruiz C Maria Ye Yuan Matthew A Hannah Jorge Goncalves Alex A R Webb Dynamical differential expression (DyDE) reveals the period control mechanisms of the Arabidopsis circadian oscillator. PLoS Computational Biology |
| title | Dynamical differential expression (DyDE) reveals the period control mechanisms of the Arabidopsis circadian oscillator. |
| title_full | Dynamical differential expression (DyDE) reveals the period control mechanisms of the Arabidopsis circadian oscillator. |
| title_fullStr | Dynamical differential expression (DyDE) reveals the period control mechanisms of the Arabidopsis circadian oscillator. |
| title_full_unstemmed | Dynamical differential expression (DyDE) reveals the period control mechanisms of the Arabidopsis circadian oscillator. |
| title_short | Dynamical differential expression (DyDE) reveals the period control mechanisms of the Arabidopsis circadian oscillator. |
| title_sort | dynamical differential expression dyde reveals the period control mechanisms of the arabidopsis circadian oscillator |
| url | http://europepmc.org/articles/PMC6377142?pdf=render |
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