Article
Biology
Suil Kim, Douglas G. McMahon
Summary: This study reveals that light input to the SCN can change the waveform of molecular clockworks, marking clock advances and delays at simulated dawn and dusk. The changes in waveform seem to be greatest in the ventrolateral SCN, while the effects on period are greatest in the dorsomedial SCN, suggesting spatiotemporally distinct responses within the SCN neural network.
Article
Biology
Ting Huang, Yao Shui, Yue Wu, Xilin Hou, Xiong You
Summary: This study developed a computational approach to investigate the effects of light quality on plant circadian rhythms. The results demonstrated that red light can reset the expression patterns, periods, and phases of the circadian clock, leading to potential applications in high-quality and efficient breeding. Optimizing light quality conditions can also enhance plant growth.
Article
Environmental Sciences
Yu Zhang, Yong Li, Yilin Yuan, Jun Wang, Shiyu Zhang, Run Zhu, Yan Wang, Yinbao Wu, Xindi Liao, Jiandui Mi
Summary: Light plays a crucial role in regulating the central biological clock system. Intermittent photoperiods enhance the circadian rhythms of gut microbes and the expression of clock genes in the hypothalamus, liver, and cecal wall. This regulation is mediated through the melatonin pathway and the production of short-chain fatty acids.
SCIENCE OF THE TOTAL ENVIRONMENT
(2023)
Article
Plant Sciences
Yuki Kanesaka, Keisuke Inoue, Yuki Tomita, Shohei Yamaoka, Takashi Araki
Summary: This study investigates the contribution of the circadian clock to daylength measurement in a basal land plant, M. polymorpha. The results suggest that M. polymorpha has a daylength measurement system that is different from angiosperms, as it relies on the relative amount of light and darkness within a cycle rather than the intrinsic rhythms generated by the circadian clock.
FRONTIERS IN PLANT SCIENCE
(2023)
Article
Ecology
Miriam Ruocco, Isabel Barrote, Jan Dirk Hofman, Katia Pes, Monya M. Costa, Gabriele Procaccini, Joao Silva, Emanuela Dattolo
Summary: The circadian clock is an internal time-keeping mechanism that regulates plant metabolism and physiology, interacting with environmental signals through gene expression. Research on circadian rhythms in marine plants lags behind terrestrial species, limiting understanding of how they coordinate with environmental signals. Through studying two seagrass species, differences in daily timing of metabolic pathways highlight the importance of species-specific attributes in determining functions and growth timing, potentially influenced by evolutionary adaptations to their distribution ranges.
FRONTIERS IN ECOLOGY AND EVOLUTION
(2021)
Article
Biology
Asako Ishii, Jianyu Shan, Xin Sheng, Eunchul Kim, Akimasa Watanabe, Makio Yokono, Chiyo Noda, Chihong Song, Kazuyoshi Murata, Zhenfeng Liu, Jun Minagawa, David M. Kramer
Summary: Under low light conditions, Ostreococcus tauri assembles its photosystem I (PSI) supercomplex with light-harvesting complexes I (LHCI) and a prasinophyte-specific light-harvesting complex (Lhcp), expanding its photon-absorbing capacity. The structure of the supercomplex exhibits hybrid features of plant-type and green algal-type PSI supercomplexes. The formation of this supercomplex is likely induced by changes in light intensity through phosphorylation.
Article
Psychology, Biological
Hannah K. Dollish, Sevag Kaladchibachi, David C. Negelspach, Fabian-Xose Fernandez
Summary: Research on the light-induced circadian phase-resetting of Drosophila reveals that many aspects of the fly circadian PRC waveform are conserved with increasing daylength, but the start of the PRCs always remained anchored to the timing of subjective sunset regardless of LD schedule. The data suggest differences in how photoperiod modulates the waveform and amplitude of the circadian PRC in flies compared to mammals, while also supporting the idea that the lights-off transition determines the phase-positioning of photic PRCs across seasons and species. Further research is needed to explore this claim and its implications for seasonal light responses in humans.
PHYSIOLOGY & BEHAVIOR
(2022)
Article
Biology
Raquel Arguelles-Prieto, Juan Antonio Madrid, Maria Angeles Rol, Maria Angeles Bonmati-Carrion
Summary: This study investigated the potential effects of daylight saving time (DST) on circadian variables and found that DST transitions can lead to internal desynchronization, while the transition back to standard time is easier to adapt and maintain internal synchronization. However, further research with larger sample sizes is needed to validate these results.
Article
Plant Sciences
Zeenat B. Noordally, Matthew M. Hindle, Sarah F. Martin, Daniel D. Seaton, T. Ian Simpson, Thierry Le Bihan, Andrew J. Millar
Summary: This study compared transcriptome data with partial proteome and phosphoproteome data from the alga Ostreococcus tauri. They found that 10% of quantified proteins and two-thirds of phosphorylated proteins showed rhythmic changes. Mathematical modeling indicated that light-stimulated protein synthesis could explain the clustering of protein peaks during the daytime. The study also observed anticipatory phosphorylation before dawn, suggesting clock-regulated phosphodawn prepares the cells for daytime functions.
JOURNAL OF EXPERIMENTAL BOTANY
(2023)
Article
Multidisciplinary Sciences
Deborah A. M. Joye, Kayla E. Rohr, Kimberlee Suenkens, Alissa Wuorinen, Thomas Inda, Madeline Arzbecker, Emma Mueller, Alec Huber, Harshida Pancholi, Murray G. Blackmore, Vania Carmona-Alcocer, Jennifer A. Evans
Summary: Daily and annual changes in light are processed by central clock circuits. The role of somatostatin (SST) in the response of the suprachiasmatic nucleus (SCN) to light has not been examined. Our study shows that SST signaling regulates daily rhythms in behavior and SCN function, with sex-specific effects. Lack of SST signaling increases circadian plasticity and eliminates sex differences in photic responses.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2023)
Article
Plant Sciences
Liwen Liang, Zhanyi Zhang, Niannian Cheng, Haiyang Liu, Song Song, Yong Hu, Xiangchun Zhou, Jia Zhang, Yongzhong Xing
Summary: The rice floral inhibitor OsPRR73 plays a key role in regulating flowering time by binding to the promoters of floral and circadian clock genes. Its overexpression results in late heading while knockout mutants exhibit early heading in certain light conditions. OsPRR73 is involved in a feedback loop of the rice clock, connecting the photoperiod flowering pathway in rice.
PLANT CELL AND ENVIRONMENT
(2021)
Article
Biochemistry & Molecular Biology
Sergio Gil, Helen K. Feord, Gerben van Ooijen
Summary: Biological rhythms coordinate key cellular processes and Mg2+ oscillations are potentially fundamental for the circadian control of cellular activity. The transport proteins responsible for sustaining Mg2+ levels in eukaryotic cells are still debated, but two homologs of the Cyclin M (CNNM)/CorC protein family have been identified in the model cell Ostreococcus tauri. Overexpression of these proteins reduces overall magnesium content and prolongs circadian gene expression rhythms, but paradoxically increases magnesium content in the organelle fraction. Inhibition of Mg2+ transport synergistically lengthens the circadian period when one CNNM homolog is overexpressed, but not the other. Both homologs rescue the negative effect of low extracellular magnesium on cell proliferation rates.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Cell Biology
Lewin Small, Leonidas S. Lundell, Jo Iversen, Amy M. Ehrlich, Morten Dall, Astrid L. Basse, Emilie Dalbram, Ann N. Hansen, Jonas T. Treebak, Romain Barres, Juleen R. Zierath
Summary: Seasonal light affects energy metabolism by modulating the rhythmicity of food intake, rather than melatonin.
Article
Biochemistry & Molecular Biology
Chao Li, Xue-Jiao Liu, Yan Yan, Mohammad Shah Alam, Zhen Liu, Zhen-Kun Yang, Ruo-Fu Tao, Er-kui Yue, Ming-Hua Duan, Jian-Hong Xu
Summary: Flowering time is crucial for rice reproduction and adaptation, controlled by the circadian clock. Mutations in OsLHY gene cause late flowering only under natural light conditions, affecting circadian clock-related genes expression and flowering regulators. OsLHY promotes rice flowering mainly by regulating Hd1 and Ehd1.
Article
Plant Sciences
Frederic Bouche, Daniel P. Woods, Julie Linden, Weiya Li, Kevin S. Mayer, Richard M. Amasino, Claire Perilleux
Summary: The proper timing of flowering in plants depends on the coordination between environmental cues and endogenous developmental programs. This paper investigates the role of the ELF3 gene in flowering regulation and shows that the elf3 mutant flowers more rapidly and is sensitive to vernalization. The study also explores the mechanism of photoperiod perception in temperate grasses, demonstrating that red light can accelerate flowering.
FRONTIERS IN PLANT SCIENCE
(2022)
Article
Computer Science, Theory & Methods
Ricardo Honorato-Zimmer, Andrew J. Millar, Gordon D. Plotkin, Argyris Zardilis
THEORETICAL COMPUTER SCIENCE
(2019)
Article
Biochemistry & Molecular Biology
Johanna Krahmer, Greg S. Goralogia, Akane Kubota, Argyris Zardilis, Richard S. Johnson, Young Hun Song, Michael J. MacCoss, Thierry Le Bihan, Karen J. Halliday, Takato Imaizumi, Andrew J. Millar
Review
Plant Sciences
Andrew J. Millar, Uriel Urquiza, Peter L. Freeman, Alastair Hume, Gordon D. Plotkin, Oxana Sorokina, Argyris Zardilis, Tomasz Zielinski
JOURNAL OF EXPERIMENTAL BOTANY
(2019)
Article
Genetics & Heredity
Helen K. Feord, Frederick E. G. Dear, Darren J. Obbard, Gerben van Ooijen
Article
Biochemical Research Methods
Uriel Urquiza-Garcia, Andrew J. Millar
Article
Plant Sciences
Charlotte Degraeve-Guilbault, Rodrigo E. Gomez, Cecile Lemoigne, Nattiwong Pankansem, Soizic Morin, Karine Tuphile, Jerome Joubes, Juliette Jouhet, Julien Gronnier, Iwane Suzuki, Denis Coulon, Frederic Domergue, Florence Corellou
Article
Biology
Jean-Michel Fustin, Shiqi Ye, Christin Rakers, Kensuke Kaneko, Kazuki Fukumoto, Mayu Yamano, Marijke Versteven, Ellen Grunewald, Samantha J. Cargill, T. Katherine Tamai, Yao Xu, Maria Luisa Jabbur, Rika Kojima, Melisa L. Lamberti, Kumiko Yoshioka-Kobayashi, David Whitmore, Stephanie Tammam, P. Lynne Howell, Ryoichiro Kageyama, Takuya Matsuo, Ralf Stanewsky, Diego A. Golombek, Carl Hirschie Johnson, Hideaki Kakeya, Gerben van Ooijen, Hitoshi Okamura
COMMUNICATIONS BIOLOGY
(2020)
Correction
Biology
Jean-Michel Fustin, Shiqi Ye, Christin Rakers, Kensuke Kaneko, Kazuki Fukumoto, Mayu Yamano, Marijke Versteven, Ellen Grunewald, Samantha J. Cargill, T. Katherine Tamai, Yao Xu, Maria Luisa Jabbur, Rika Kojima, Melisa L. Lamberti, Kumiko Yoshioka-Kobayashi, David Whitmore, Stephanie Tammam, P. Lynne Howell, Ryoichiro Kageyama, Takuya Matsuo, Ralf Stanewsky, Diego A. Golombek, Carl Hirschie Johnson, Hideaki Kakeya, Gerben van Ooijen, Hitoshi Okamura
COMMUNICATIONS BIOLOGY
(2020)
Article
Plant Sciences
Charlotte Degraeve-Guilbault, Nattiwong Pankasem, Maurean Gueirrero, Cecile Lemoigne, Frederic Domergue, Tomonori Kotajima, Iwane Suzuki, Jerome Joubes, Florence Corellou
Summary: This study reveals the mechanism of fatty acid unsaturation in response to temperature changes, identifies the important role of desaturases in this process, and elucidates the regulatory relationship of specific fatty acids in different lineages.
FRONTIERS IN PLANT SCIENCE
(2021)
Article
Biochemical Research Methods
Johanna Krahmer, Matthew Hindle, Laura K. Perby, Helle K. Mogensen, Tom H. Nielsen, Karen J. Halliday, Gerben van Ooijen, Thierry Le Bihan, Andrew J. Millar
Summary: This study observed the proteomic and phosphoproteomic time series of Arabidopsis thaliana plants under constant light conditions. It found that only a small percentage of proteins and a larger proportion of phospho-sites exhibited rhythmic changes. Furthermore, half of the rhythmic phospho-sites showed the highest phosphorylation levels at subjective dawn. The clock gene circuit plays a crucial role in most protein phosphorylation rhythms, but not necessarily in all of them.
MOLECULAR & CELLULAR PROTEOMICS
(2022)
Article
Multidisciplinary Sciences
Alessandra Stangherlin, Joseph L. Watson, David C. S. Wong, Silvia Barbiero, Aiwei Zeng, Estere Seinkmane, Sew Peak Chew, Andrew D. Beale, Edward A. Hayter, Alina Guna, Alison J. Inglis, Marrit Putker, Eline Bartolami, Stefan Matile, Nicolas Lequeux, Thomas Pons, Jason Day, Gerben van Ooijen, Rebecca M. Voorhees, David A. Bechtold, Emmanuel Derivery, Rachel S. Edgar, Peter Newham, John S. O'Neill
Summary: This study reveals that circadian control of the proteome impacts ion homeostasis in cells, especially cardiomyocytes, through mechanisms involving osmotic compensation via electroneutral ion transport. Changes in ion content due to perturbation of soluble protein abundance drive daily rhythms in cardiomyocyte electrical activity, with substantial consequences for cell physiology.
NATURE COMMUNICATIONS
(2021)
Article
Cell Biology
Holly Kay, Harry Taylor, Gerben van Ooijen
Summary: This study reveals how environmental and endogenous circadian rhythms regulate the selenoproteome in a model eukaryotic cell. The expression of selenoproteins is influenced by rhythmicity under constant circadian conditions, while selenium uptake shows high-amplitude rhythms under environmentally rhythmic conditions. Additionally, selenium deprivation leads to clock gene expression defects under the light/dark cycle.
Article
Biology
Holly Kay, Ellen Grunewald, Helen K. Feord, Sergio Gil, Sew Y. Peak-Chew, Alessandra Stangherlin, John S. O'Neill, Gerben van Ooijen
Summary: The cellular landscape undergoes significant changes over a 24-hour period, with the proteome responding directly to daily environmental cycles and being regulated by the circadian clock. Research suggests that transcript oscillations are not strong predictors of protein oscillations, indicating that the cellular spatiotemporal proteome is shaped by rhythmic regulation at various stages of transcription and translation.
COMMUNICATIONS BIOLOGY
(2021)
Article
Multidisciplinary Sciences
Livia C. T. Scorza, Graeme J. Cameron, Roisin Murray-Williams, David Findlay, Julie Bolland, Brindusa Cerghizan, Kirsty Campbell, David Thomson, Alexander Corbishley, David Gally, Stephen Fitzgerald, Alison Low, Sean McAteer, Adrian M. I. Roberts, Zhou Fang, Claus-Dieter Mayer, Anastasia Frantsuzova, Sumy V. Baby, Tomasz Zielinski, Andrew J. Millar
Summary: Wastewater-based monitoring was established in Scotland to track SARS-CoV-2 viral RNA levels in the sewage network during the COVID-19 pandemic. A curated dataset from May 2020 to February 2022 was presented, with viral levels analyzed using RT-qPCR assays. The wastewater data contribute to estimates of disease prevalence and the viral reproduction number in Scotland and the UK.
Article
Biochemical Research Methods
Tomasz Zielinski, Johnny Hay, Andrew Romanowski, Anja Nenninger, Alistair McCormick, Andrew J. Millar
Summary: Practical delivery of Findable, Accessible, Reusable and Interoperable principles for research data management requires expertise, time resource, (meta)data standards and formats, software tools and public repositories. SynBio2Easy, a tool presented in this paper, streamlines and automates operations on Synthetic Biology Open Language (SBOL) designs using Microsoft Excel(R) tables as metadata inputs.