Complexities, similarities, and differences in circadian regulation in the green lineage DOI Open Access
Akari E Maeda, Tomoaki Muranaka, Norihito Nakamichi

et al.

New Phytologist, Journal Year: 2023, Volume and Issue: 241(1), P. 28 - 31

Published: Oct. 12, 2023

The circadian clock is an internal time-keeping system that generates c. 24 h rhythms. These rhythms are thought to align the phase of biological processes with time day in environment. Three key properties are: free running rhythm without external cues, entrainment cycles, and temperature compensation period. widely conserved across organisms. Circadian plants be generated by a transcriptional/translational feedback loop (TTFL) formed from core genes proteins (Nohales & Kay, 2016). oscillations, clock, can function even single plant cells. Temporal information derived at single-cell level shared among cells, tissues, organs, resulting coordinated organismal level. In other words, oscillators produce physiological have hierarchical organizational architectures. mechanisms been studied extensively using model Arabidopsis thaliana (Arabidopsis). However, there exciting developments investigation regulation divergent ranging green algae crops. knowledge obtained various species advancing understanding similarities diversities lineage (Fig. 1). Addressing some these questions part 33rd International Conference on Research (ICAR2023), held Japan. conference included session entitled, 'Understanding unpredictable environments', organized Antony Dodd (John Innes Centre, UK) Tokitaka Oyama (Kyoto University, Japan). Several speakers studying their findings provide new insights into above. three described above, running, entrainment, compensation, crucial for systems. Free property maintaining rhythm, period h, rhythmic environmental cues (for example, under constant light conditions) 2a). Entrainment allows organisms intrinsic day–night cycles. causes shift (i.e. advance or delay), depending phase, response cue 2b). oscillator also regulates magnitude responses stimuli according (circadian gating). Such include gene expression, metabolism, outputs. Temperature ability maintain over range temperatures 2c). extensively, life, past 70–80 yr (McClung, 2006). Although many clock-related identified Arabidopsis, molecular underlying remain unclear. ICAR2023, Shu-Hsing Wu (Academia Sinica, Taiwan) provided mechanism oscillation clock. With colleagues, she investigated upstream open reading frame (uORF)-mediated translational understand why stable maintained within essentially noisy process (Wu et al., 2022). autonomous expression driven TTFL genes, so precise transcription translation required. bursts de novo fluctuations mRNA protein levels (Eldar Elowitz, 2010). group has demonstrated uORFs TIMING OF CAB EXPRESSION 1 (TOC1) involved reducing such noise. addition, they suggested may effectively buffer TOC1 production, discussed possibility this uORF-mediated length presented genome-wide gating cold bread wheat (Graham 2023). Low known reduce crop yield photosynthetic capacity causing photoinhibition (Hurry Huner, 1992; Li 2015). Therefore, he considered low might affect performance. They found hexaploid wheat, as previously suggesting regulatory temporal angiosperms. aid our systems crops helpful producing more climate change resilient future. Akari Maeda (Nagoya Japan) focused Arabidopsis. Previous studies reported mutants impair (Salome still She her colleagues quantitative control abundance essential ubiquitin-dependent degradation associated temperature-dependent abundance, revealing novel compensation. Takuya Matsuo (Kitasato differences between Chlamydomonas reinhardtii (Chlamydomonas), eukaryotic unicellular alga. He his (Matsuo 2008). one proteins, RHYTHM CHLOROPLAST 15 (ROC15), degraded stimuli, light-inducible ROC15 resetting (Niwa 2013). session, explained how Chlamydomonas-ELF3-like (CETL) pathway ROC15. Interestingly, CETL very weak similarity EARLY FLOWERING 3 (ELF3) (Gururaj evolution lineage. Individual cells possess functional (Davis At same time, different parts plant. There accumulating evidence coupling tissues interact each remains poorly understood. noncell-autonomous its characteristics. Using imaging duckweed (Lemna minor), succeeded monitoring dual-color bioluminescence reporters (Arabidopsis CIRCADIAN CLOCK-ASSOCIATED1::luciferase + (AtCCA1::LUC+) 35S::modified click-beetle red-color luciferase (CaMV35S::PtRLUC)) (Muranaka Oyama, 2016; Watanabe Both AtCCA1::LUC+ CaMV35S::PtRLUC had periods h. amplitude was reduced overexpressing effector (e.g. LmZTL), whereas not altered. comparison, plasmolysis disrupted but did rhythm. Thus, likely symplast/apoplast mediated cellular interactions. This could oscillators. James Locke (University Cambridge, used mathematical approach explain complex spatial waves observed fluorescence (Greenwood It interaction possessing possibly waves. sensitivity types factor variations plants. local components necessary forming through network information. Finally, analyzed behavior light–dark cycle showed minimized timing errors, while clocks tissue valuable opportunity discuss researchers only species. possible most identified. provides excellent move next mysteries which were deeply during session. Furthermore, taught us advanced techniques approaches help cell-, tissue-, organ-specific properties, integration cell organ levels. regulation, posttranslational gating, resetting, all important keeping responding accurately fluctuating environments. addition speakers, well-established participants made active fruitful. will lineages. authors thank presenters participants, ICAR hosting several sessions, sponsors including New Phytologist Foundation it organize

Language: Английский

The interplay between the circadian clock and abiotic stress responses mediated by ABF3 and CCA1/LHY DOI Creative Commons
Tong Liang, Yu Shi, Yuanzhong Pan

et al.

Proceedings of the National Academy of Sciences, Journal Year: 2024, Volume and Issue: 121(7)

Published: Feb. 6, 2024

Climate change is a global concern for all life on our planet, including humans and plants. Plants’ growth development are significantly affected by abiotic stresses, adverse temperature, inadequate or excess water availability, nutrient deficiency, salinity. The circadian clock master regulator of numerous developmental metabolic processes in In an effort to identify new clock-related genes outputs through bioinformatic analysis, we have revealed that CIRCADIAN CLOCK ASSOCIATED 1 (CCA1) LATE ELONGATED HYPOCOTYL (LHY) play crucial role regulating wide range stress responses target ABSCISIC ACID RESPONSIVE ELEMENTS-BINDING FACTOR3 ( ABF3 ), key transcription factor the plant hormone Abscisic acid (ABA)-signaling pathway. Specifically, found CCA1 LHY regulate expression under diel conditions, as well seed germination Conversely, controls core orchestrates period stress-responsive manner. delivers signal central oscillator binding promoter . Overall, study uncovers reciprocal regulation between CCA1/LHY molecular mechanisms underlying interaction stress. This finding may aid developing genetic solutions plants survive thrive face climate change.

Language: Английский

Citations

12
Circadian gating: concepts, processes, and opportunities DOI
Pirita Paajanen, Jacqueline M. Kimmey, Antony N. Dodd

et al.

Philosophical Transactions of the Royal Society B Biological Sciences, Journal Year: 2025, Volume and Issue: 380(1918)

Published: Jan. 23, 2025

Circadian clocks provide a biological measure of time that coordinates metabolism, physiology and behaviour with 24 h cycles in the environment. systems have variety characteristic properties, such as entrainment to environmental cues, self-sustaining rhythm about temperature compensation circadian rhythm. In this perspective, we discuss process gating, which refers restriction event particular times day by clock. We introduce principles processes associated gating organisms, including some mechanisms. highlight socioeconomic opportunities presented investigation using selected examples from medicine agricultural crop production illustrate its importance. This article is part Theo Murphy meeting issue ‘Circadian rhythms infection immunity’.

Language: Английский

Citations

1
Time-course transcriptome analysis reveals gene co-expression networks and transposable element responses to cold stress in cotton DOI Creative Commons
Yan Dai, Jialiang Zhou,

Baohong Zhang

et al.

BMC Genomics, Journal Year: 2025, Volume and Issue: 26(1)

Published: March 12, 2025

Cold stress significantly challenges cotton growth and productivity, yet the genetic molecular mechanisms underlying cold tolerance remain poorly understood. We employed RNA-seq iterative weighted gene co-expression network analysis (WGCNA) to investigate transposable element (TE) expression changes at six time points (0 h, 2 4 6 12 24 h). Thousands of differentially expressed genes (DEGs) were identified, exhibiting time-specific patterns that highlight a phase-dependent transcriptional response. While A D subgenomes contributed comparably DEG numbers, numerous homeologous pairs showed differential expression, indicating regulatory divergence. Iterative WGCNA uncovered 125 modules, with some enriched in specific chromosomes or chromosomal regions, suggesting localized hotspots for Notably, transcription factors, including MYB73, ERF017, MYB30, OBP1, emerged as central regulators within these modules. Analysis 11 plant hormone-related revealed dynamic ethylene (ETH) cytokinins (CK) playing significant roles stress-responsive pathways. Furthermore, we documented over 15,000 TEs, TEs forming five distinct clusters. TE families, such LTR/Copia, demonstrated enrichment clusters, their potential role modulators under stress. These findings provide valuable insights into complex networks response cotton, highlighting key components involved regulation. This study provides targets breeding strategies aimed enhancing cotton.

Language: Английский

Citations

1
Low-temperature and circadian signals are integrated by the sigma factor SIG5 DOI Creative Commons
Dora L. Cano-Ramírez, Paige E. Panter,

Tokiaki Takemura

et al.

Nature Plants, Journal Year: 2023, Volume and Issue: 9(4), P. 661 - 672

Published: March 30, 2023

Chloroplasts are a common feature of plant cells and aspects their metabolism, including photosynthesis, influenced by low-temperature conditions. contain small circular genome that encodes essential components the photosynthetic apparatus chloroplast transcription/translation machinery. Here, we show in Arabidopsis, nuclear-encoded sigma factor controls transcription (SIGMA FACTOR5) contributes to adaptation This process involves regulation SIGMA FACTOR5 expression response cold bZIP factors ELONGATED HYPOCOTYL5 HOMOLOG. The this pathway is gated circadian clock, it enhances efficiency during long-term freezing exposure. We identify integrates signals, modulates chloroplasts

Language: Английский

Citations

16
Diurnal rhythms in durum wheat triggered by Rhopalosiphum padi (bird cherry-oat aphid) DOI Creative Commons
Yoshiahu Goldstein, Jinlong Han, Daniel Kunk

et al.

BMC Plant Biology, Journal Year: 2025, Volume and Issue: 25(1)

Published: April 10, 2025

Wheat is a staple crop and one of the most widely consumed grains globally. yields can experience significant losses due to damaging effects herbivore infestation. However, little known about effect aphids have on natural diurnal rhythms in plants. Our time-series transcriptomics metabolomics study reveals intriguing molecular changes occurring plant rhythmicity upon aphid Under control conditions, 15,366 out 66,559 genes tetraploid wheat cultivar Svevo, representing approximately 25% transcriptome, exhibited rhythmicity. Upon infestation, 5,682 lost their rhythmicity, while 5,203 began exhibit The aphid-induced rhythmic were enriched GO terms associated with defense, such as protein phosphorylation cellular response ABA motifs WRKY transcription factor families. In contrast, that infestation TCP ERF While core circadian clock maintain during we observed 60% disruptions These influence both plant's growth development processes well defense responses. Furthermore, analysis metabolite composition revealed several monoterpenoids gained activity under saccharides retained patterns. findings highlight ability insect disrupt cycles plants, expanding our knowledge complex interactions between plants insects.

Language: Английский

Citations

0
Homoeolog expression divergence contributes to time of day changes in transcriptomic and glucosinolate responses to prolonged water limitation in Brassica napus DOI Creative Commons

Angela Ricono,

Ella Ludwig, Anna Casto

et al.

The Plant Journal, Journal Year: 2025, Volume and Issue: 121(4)

Published: Feb. 1, 2025

SUMMARY Water availability is a major determinant of crop production, and rising temperatures from climate change are leading to more extreme droughts. To combat the effects on yields, we need develop varieties that tolerant water‐limited conditions. We aimed determine how diverse types (winter/spring oilseed, tuberous, leafy) allopolyploid Brassica napus , species contains economically important rapeseed oilseed crop, respond prolonged water limitation. exposed plants an 80% reduction in assessed growth color high‐throughput phenotyping system over 4 weeks ended experiment with tissue collection for time course transcriptomic study. found overall across cultivars but varying degrees. Diel transcriptome analyses revealed significant accession‐specific changes time‐of‐day regulation photosynthesis, carbohydrate metabolism, sulfur metabolism. Interestingly, there was extensive variation which homoeologs two parental subgenomes responded limitation could be due differences regulatory regions these lines. Follow‐up experiments select confirmed maintained photosynthetic health during while slowing growth. In examined, day levels glucosinolates, sulfur‐ nitrogen ‐rich specialized metabolites, consistent diel responses. These results suggest lines adjusting their stores under conditions through distinct regulation.

Language: Английский

Citations

0
The circadian clock and thermal regulation in plants: novel insights into the role of positive circadian clock regulators in temperature responses DOI
María José de Leone, Marcelo J. Yanovsky

Journal of Experimental Botany, Journal Year: 2024, Volume and Issue: 75(10), P. 2809 - 2818

Published: Feb. 19, 2024

Abstract The impact of rising global temperatures on crop yields is a serious concern, and the development heat-resistant varieties crucial for mitigating effects climate change agriculture. To achieve this, better understanding molecular basis thermal responses plants necessary. circadian clock plays central role in modulating plant biology synchrony with environmental changes, including temperature fluctuations. Recent studies have uncovered transcriptional activators core network responses. This expert view highlights key novel findings regarding RVE LNK gene families controlling expression patterns growth under different conditions, ranging from regular diurnal oscillations to extreme stress temperatures. These reinforce essential adaptation changing provide future improvement.

Language: Английский

Citations

1
Light has a principal role in the physiological adaptation of plants to the spaceflight environment DOI Creative Commons
Anna‐Lisa Paul, Mingqi Zhou, Robert J. Ferl

et al.

Research Square (Research Square), Journal Year: 2024, Volume and Issue: unknown

Published: March 20, 2024

Abstract The Characterizing Arabidopsis Root Attractions (CARA) spaceflight experiment provides comparative transcriptome analyses of plants grown in both light and dark conditions within the same spaceflight. CARA compared three genotypes ambient on board International Space Station (ISS); Col-0, Ws, phyD , a phytochrome D mutant Col-0 background. In all genotypes, leaves responded to with higher number differentially expressed genes (DEGs) than root tips, each genotype displayed distinct / transcriptomic patterns that were unique environment. exhibited substantial dichotomy, ten-times as many DEGs light-grown versus dark-grown plants. Although total is not very different from altered manner which respond spaceflight, associated physiological adaptation represented. This result contrast where previous study showed substantially reduced DEGs. There few DEGs, but series space-altered gene categories, common lighting conditions. commonality indicates key are signal transduction for light, defense, oxidative stress responses. However, these signaling pathways enriched opposite regulatory direction response under conditions, suggesting complex interaction between signal, light-signaling acclimation

Language: Английский

Citations

0
Title: Diurnal rhythms in durum wheat triggered by Rhopalosiphum padi (bird cherry-oat 2 aphid) DOI Creative Commons
Yoshiahu Goldstein, Jinlong Han, Daniel Kunk

et al.

bioRxiv (Cold Spring Harbor Laboratory), Journal Year: 2024, Volume and Issue: unknown

Published: Aug. 25, 2024

Abstract Wheat is a staple crop and one of the most widely consumed grains globally. yields can experience significant losses due to damaging effects herbivore infestation. However, little known about effect aphids have on natural diurnal rhythms in plants. Our time-series transcriptomics metabolomics study reveal intriguing molecular changes occurring plant rhythmicity upon aphid Under control conditions, 15,366 out 66,559 genes tetraploid wheat cultivar Svevo, representing approximately 25% transcriptome, exhibited rhythmicity. Upon infestation, 5,682 lost their rhythmicity, while additional 5,203 began exhibit The aphid-induced rhythmic were enriched GO terms associated with defense, such as protein phosphorylation cellular response ABA motifs WRKY transcription factor families. Conversely, that infestation TCP ERF While core circadian clock maintain during we observed 60% disruptions These influence both plant’s growth development processes well defense responses. Furthermore, analysis metabolite composition revealed several monoterpenoids gained activity under saccharides retained patterns. findings highlight ability insect disrupt cycles plants, expanding our knowledge complex interactions between plants insects.

Language: Английский

Citations

0
Investigating Circadian Gating of Temperature Responsive Genes DOI

Rachel I. Strout,

Calum A. Graham, Antony N. Dodd

et al.

Methods in molecular biology, Journal Year: 2024, Volume and Issue: unknown, P. 213 - 225

Published: Jan. 1, 2024

Language: Английский

Citations

0