Circadian rhythm and melatonin

mTOR signalling, not clock gene rhythms, organises daily physiology

This study shows that mTOR signalling, not clock gene rhythms, drives daily physiological variations in mammals and plants.

Defining cell type-specific diurnal gene expression in the mouse retina

The paper identifies cell-type-specific diurnal gene expression patterns in the mouse retina using single-nucleus RNA sequencing.

Capturing the rhythm: methodological choices shape inference from circadian activity data

The paper evaluates methodological choices for analysing circadian activity data and identifies optimal approaches for different scenarios.

Daylight exposure improves sleep and subsequent sleepiness

This study shows that high-intensity daylight exposure in the afternoon increases nighttime sleep intensity and reduces morning sleepiness without affecting circadian phase.

Loss of PEA-15 Alters ERK/MAPK Signaling and Circadian Function in the Suprachiasmatic Nucleus

This study shows that loss of PEA-15 in mice affects circadian rhythms and ERK/MAPK signaling in the suprachiasmatic nucleus.

From womb to crib: How fetal activity patterns in utero reveal postnatal sleep behavior

This study examines how fetal activity patterns in utero relate to postnatal infant sleep behavior, finding that fetal circadian entrainment predicts infant sleep preferences.

The CK2 and DBT kinases promote temperature compensation of the Drosophila circadian clock via distinct pathways

This study identifies DBT and CK2 kinases as critical for temperature compensation in Drosophila circadian clocks through distinct phosphorylation pathways.

Genetic control and tissue specificity of transcriptomic rhythmicity

This study identifies genetic regulators of transcriptomic rhythmicity using GTEx data and links them to phenotypes in the Pan-UK Biobank.

Development of Circadian Circuitry Underlying Feeding-Fasting Rhythms in Drosophila Larvae

This study identifies the neural circuitry regulating feeding-fasting rhythms in Drosophila larvae, showing that s-LNv and SIFa neuron interactions are critical for rhythm development.

A physics-informed neural network framework for inferring infinitesimal phase response curves from finite-pulse circadian recordings

This paper introduces PINN-iPRC, a neural network framework that infers infinitesimal phase response curves from finite-pulse circadian recordings, achieving accurate results comparable to specialized experiments.

Different, same, or arrhythmic: an empirically informed benchmark of differential rhythmicity methods

The paper benchmarks 12 differential rhythmicity methods using synthetic RNA-seq data to guide method selection for time series analysis.

Decoding Cell-level Circadian Phase and Rhythm-state Remodeling in Single-cell Transcriptomes With scRhythmBayes

scRhythmBayes infers cell-level circadian phase and rhythm-state remodeling in single-cell transcriptomes, revealing distinct temporal patterns in liver zonation and heart disease.

Small Molecule Regulation of CLOCK:BMAL1 DNA Binding Activity

This study identifies small molecules that bind to the PAS-A domain of CLOCK and NPAS2, stabilizing the domain and reducing DNA binding affinity of CLOCK:BMAL1.

Chromatin states coordinate diurnal gene expression in the Drosophila retina

The paper shows that chromatin states, not just circadian transcription factors, coordinate diurnal gene expression in Drosophila photoreceptor neurons by aligning gene phases with promoter, enhancer, or repressive chromatin signatures.

Cell State Transitions Drive Transcriptome-Proteome Alignment in a Minimal Photoautotroph

The paper investigates how cell state transitions in Prochlorococcus marinus MED4 affect transcriptome-proteome alignment through regulatory mechanisms involving RpaB and HimA.

Epithelial function of the circadian clock gene, Bmal1, in regulating the mucosa.

This study shows that Bmal1 in colon epithelial cells promotes mucus production and is essential for sex-specific tissue regeneration after injury.

A circalunar oscillator and moonlight tune the circadian clock to moon phase via cwo/Dec1

This study identifies cwo/Dec1 as a molecular mechanism linking the circadian clock to lunar phase in Platynereis dumerilii, showing its role in circalunar oscillation.

Phasic pupil responses to melanopsin- and cone-directed stimulation remain stable across circadian time

The paper examines circadian modulation of pupil responses to different photoreceptor pathways and finds no support for circadian modulation of phasic pupil tracking.

A Benchmark of Unsupervised Circadian Phase Inference Methods for Bulk Transcriptomic Data

This study benchmarks unsupervised circadian phase inference methods on bulk transcriptomic data, finding CHIRAL performs best with lower error than other methods.

Host Plant and Light Regime Shape Limited, Whole-Body Transcriptional Rhythmicity in the Bird Cherry-Oat Aphid (Rhopalosiphum padi)

This study examines transcriptional rhythmicity in aphids under different light and host conditions, finding limited rhythmic transcripts and host-dependent regulation.

Membrane proteomics of the Drosophila circadian neural network

The paper identifies novel membrane proteins in Drosophila circadian neurons and shows their roles in regulating locomotor rhythms under different photoperiods.

DiffRhyShiny: A Benchmarking-Informed Platform for Differential Rhythmicity Analysis with Dependence-Aware Evidence Integration

The paper benchmarks differential rhythmicity analysis methods and introduces a web platform for robust analysis and visualization of rhythmicity changes.

A KaiA Conformational Switch Links Day-Night Transitions to Clock Robustness

This study identifies a conformational switch in KaiA that regulates the day-night transition in cyanobacterial clocks and shows its role in maintaining rhythmicity.

Hyperglycaemia reversibly disrupts circadian behaviour in mice

This study shows that hyperglycaemia reversibly disrupts circadian behaviour in mice by reducing rhythm amplitude and altering phase, with effects reversed upon normoglycaemia restoration.

Circadian phase alignment promotes survival under predictive oxidative stress

This study shows that the free-running period (FRP) length in Synechococcus elongatus affects the phase alignment of stress responses with environmental cues, enhancing survival under oxidative stress.

rhythmCI: an R package for rhythm detection using harmonic regression amplitude confidence intervals

rhythmCI provides an R package for detecting circadian rhythms using harmonic regression confidence intervals, improving rhythmicity analysis in small clinical datasets.

On the evolution of emergence patterns driven by environmental cycles

The paper models the evolution of emergence patterns in Clunio insects using replicator-mutator dynamics, showing how phenotypic variability and environmental cycles influence population-level synchronization.

Molecular Shape Evolution of Cyanobacterial Circadian Clock Protein KaiC

This paper traces the molecular shape evolution of KaiC, a circadian clock protein, showing it evolved from an asymmetric hexamer to a compact symmetric hexamer and a dodecamer over 3.1 billion years.

Circadian photoreceptor CRYPTOCHROME promotes wakefulness under short winter-like days via a GABAergic circuitry

The paper shows that cryptochrome (CRY) in fruit flies reduces GABAergic inhibition under short days, increasing wakefulness and mirroring SAD hypersomnolence.

Attractive and repulsive couplings between circadian pacemaker neurons promote entrainment to light-dark cycles with after-effect

The paper models circadian pacemaker neuron interactions to show how attractive and repulsive couplings between SCN core and shell regions enable entrainment to light-dark cycles and produce the after-effect.