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Chronic hepatitis B virus (HBV) infection is a major cause of liver disease and cancer worldwide for which there are no curative therapies. The major challenge in curing infection is eradicating or silencing the covalent closed circular DNA (cccDNA) form of the viral genome. The circadian factors BMAL1/CLOCK and REV-ERB are master regulators of the liver transcriptome and yet their role in HBV replication is unknown. We establish a circadian cycling liver cell-model and demonstrate that REV-ERB directly regulates NTCP-dependent hepatitis B and delta virus particle entry. Importantly, we show that pharmacological activation of REV-ERB inhibits HBV infection in vitro and in human liver chimeric mice. We uncover a role for BMAL1 to bind HBV genomes and increase viral promoter activity. Pharmacological inhibition of BMAL1 through REV-ERB ligands reduces pre-genomic RNA and de novo particle secretion. The presence of conserved E-box motifs among members of the Hepadnaviridae family highlight an evolutionarily conserved role for BMAL1 in regulating this family of small DNA viruses. The circadian factors BMAL1/CLOCK and REV-ERB are master regulators of the human liver transcriptome but their role in hepatitis B virus infection is largely unknown. Here, Zhuang et al. show that REV-ERB regulates hepatitis B virus entry and BMAL1 directly binds HBV DNA and activates viral genome transcription.

Biological clocks are genetically encoded oscillators that allow organisms to anticipate changes in the light–dark environment that are tied to the rotation of Earth. Clocks enhance fitness and growth in prokaryotes, and they are expressed throughout the central nervous system and peripheral tissues of multicelled organisms in which they influence sleep, arousal, feeding and metabolism. Biological clocks capture the imagination because of their tie to geophysical time, and tools are now in hand to analyse their function in health and disease at the cellular and molecular level.

Several electrical neural oscillatory abnormalities have been associated with schizophrenia, although the underlying mechanisms of these oscillatory problems are unclear. Animal studies suggest that one of the key mechanisms of neural oscillations is through glutamatergic regulation; therefore, neural oscillations may provide a valuable animal–clinical interface on studying glutamatergic dysfunction in schizophrenia. To identify glutamatergic control of neural oscillation relevant to human subjects, we studied the effects of ketamine, an N -methyl- D -aspartate antagonist that can mimic some clinical aspects of schizophrenia, on auditory-evoked neural oscillations using a paired-click paradigm. This was a double-blind, placebo-controlled, crossover study of ketamine vs saline infusion on 10 healthy subjects. Clinically, infusion of ketamine in subanesthetic dose significantly increased thought disorder, withdrawal–retardation, and dissociative symptoms. Ketamine significantly augmented high-frequency oscillations (gamma band at 40–85 Hz, p =0.006) and reduced low-frequency oscillations (delta band at 1–5 Hz, p <0.001) compared with placebo. Importantly, the combined effect of increased gamma and reduced delta frequency oscillations was significantly associated with more withdrawal–retardation symptoms experienced during ketamine administration ( p =0.02). Ketamine also reduced gating of the theta-alpha (5–12 Hz) range oscillation, an effect that mimics previously described deficits in schizophrenia patients and their first-degree relatives. In conclusion, acute ketamine appeared to mimic some aspects of neural oscillatory deficits in schizophrenia, and showed an opposite effect on scalp-recorded gamma vs low-frequency oscillations. These electrical oscillatory indexes of subanesthetic ketamine can be potentially used to cross-examine glutamatergic pharmacological effects in translational animal and human studies.

Most processes within organisms, and most interactions between organisms and their environment, have distinct time profiles. The temporal coordination of such processes is crucial across levels of biological organization, but disciplines differ widely in their approaches to study timing. Such differences are accentuated between ecologists, who are centrally concerned with a holistic view of an organism in relation to its external environment, and chronobiologists, who emphasize internal timekeeping within an organism and the mechanisms of its adjustment to the environment. We argue that ecological and chronobiological perspectives are complementary, and that studies at the intersection will enable both fields to jointly overcome obstacles that currently hinder progress. However, to achieve this integration, we first have to cross some conceptual barriers, clarifying prohibitively inaccessible terminologies. We critically assess main assumptions and concepts in either field, as well as their common interests. Both approaches intersect in their need to understand the extent and regulation of temporal plasticity, and in the concept of ‘chronotype’, i.e. the characteristic temporal properties of individuals which are the targets of natural and sexual selection. We then highlight promising developments, point out open questions, acknowledge difficulties and propose directions for further integration of ecological and chronobiological perspectives through Wild Clock research. This article is part of the themed issue ‘Wild Clocks: integrating chronobiology and ecology to understand timekeeping in free-living animals’.

Synchronizing rhythms of behaviour and metabolic processes is important for cardiovascular health and preventing metabolic diseases. The nuclear receptors REV-ERB-α and REV-ERB-β have an integral role in regulating the expression of core clock proteins driving rhythms in activity and metabolism. Here we describe the identification of potent synthetic REV-ERB agonists with in vivo activity. Administration of synthetic REV-ERB ligands alters circadian behaviour and the circadian pattern of core clock gene expression in the hypothalami of mice. The circadian pattern of expression of an array of metabolic genes in the liver, skeletal muscle and adipose tissue was also altered, resulting in increased energy expenditure. Treatment of diet-induced obese mice with a REV-ERB agonist decreased obesity by reducing fat mass and markedly improving dyslipidaemia and hyperglycaemia. These results indicate that synthetic REV-ERB ligands that pharmacologically target the circadian rhythm may be beneficial in the treatment of sleep disorders as well as metabolic diseases. Synthetic REV-ERB agonists can alter the circadian expression of core clock genes in the hypothalami of mice, which changes the expression of metabolic genes in liver, skeletal muscle and adipose tissue, and results in increased energy expenditure. Adjusting the metabolic clock Metabolic processes need to run like clockwork to prevent disease. Core clock proteins drive these rhythms, and the nuclear receptors REV-ERB-α and REV-ERB-β have a central role in regulating the expression of clock genes. Solt et al . report the identification of potent synthetic REV-ERB agonists, termed SR9011 and SR9009, which can alter the circadian expression of core clock genes in the hypothalami of mice. This is shown to alter the expression of metabolic genes in liver, skeletal-muscle and adipose tissue, and results in increased energy expenditure by the mice. The REV-ERB agonists reduce fat mass in diet-induced obese mice and improve dyslipidaemia and hyperglycaemia. These results suggest that synthetic REV-ERB ligands are promising candidates for the treatment of metabolic diseases. Cho et al . present genetic evidence that REV-ERB-α and REV-ERB-β are indispensible for the coordination of circadian rhythm and metabolism. Mice without REV-ERBs show disrupted expression of clock and lipid homeostatic gene networks. They have altered circadian wheel-running behaviour and deregulated lipid metabolism. These data ally REV-ERB-α and REV-ERB-β with PER, CRY and other components of the principal feedback loop that drives circadian expression.

Circadian clocks are endogenous oscillators driving daily rhythms in physiology and behavior. Synchronization of these timers to environmental light–dark cycles (‘entrainment’) is crucial for an organism's fitness. Little is known about which oscillator qualities determine entrainment, i.e., entrainment range, phase and amplitude. In a systematic theoretical and experimental study, we uncovered these qualities for circadian oscillators in the suprachiasmatic nucleus (SCN—the master clock in mammals) and the lung (a peripheral clock): (i) the ratio between stimulus (zeitgeber) strength and oscillator amplitude and (ii) the rigidity of the oscillatory system (relaxation rate upon perturbation) determine entrainment properties. Coupling among oscillators affects both qualities resulting in increased amplitude and rigidity. These principles explain our experimental findings that lung clocks entrain to extreme zeitgeber cycles, whereas SCN clocks do not. We confirmed our theoretical predictions by showing that pharmacological inhibition of coupling in the SCN leads to larger ranges of entrainment. These differences between master and the peripheral clocks suggest that coupling‐induced rigidity in the SCN filters environmental noise to create a robust circadian system. Synopsis Daily rhythms in physiology, metabolism and behavior are controlled by an endogenous circadian timing system, which has evolved to synchronize an organism to periodically recurring environmental conditions, such as light–dark or temperature cycles. In mammals, the circadian system relies on cell‐autonomous oscillators residing in almost every cell of the body. Cells of the SCN in the anterior hypothalamus are able to generate precise, long‐lasting self‐sustained circadian oscillations, which drive most rhythmic behavioral and physiological outputs, and which are believed to originate from the fact that the SCN tissue consists of tightly coupled cells (Aton and Herzog, 2005 ). In contrast, peripheral oscillators, such as lung tissue, exhibit seemingly damped and usually less precise oscillations, which are thought to be brought about by the lack of intercellular coupling. Precise synchronization of these rhythms within the organism, but also with the environment (so‐called entrainment), is an essential part of circadian organization. Entrainment is one of the cornerstones of circadian biology (Roenneberg et al , 2003 ). In evolution, the phase of a rhythmic variable is selective rather than its endogenous period. Thus, the synchronization of endogenous rhythms to zeitgeber cycles of the environment (resulting in a specific phase of entrainment) is fundamental for the adaptive value of circadian clocks. In this study, we systematically investigated the properties of circadian oscillators that are essential for entrainment behavior and describe coupling as a primary determinant. As an experimental starting point of this study, we found that the circadian oscillators of lung tissue have a larger range of entrainment than SCN tissue—they readily entrained to extreme experimental temperature cycle of 20 or 28 h, whereas SCN tissue did not (Figure 4 ). For this purpose, we cultured SCN and lung slices derived from mice that express luciferase as fusion protein together with the clock protein PERIOD2 (Yoo et al , 2004 ). The detection of luciferase‐driven bioluminescence allowed us to follow molecular clock gene activity in real‐time over the course of several days. In theoretical analyses, we show that both the ratio of amplitude and zeitgeber strength and, importantly, inter‐oscillator coupling are major determinants for entrainment. The reason for coupling being critical is twofold: (i) Coupling makes an oscillatory system more rigid, i.e., it relaxes faster in response to a perturbation, and (ii) coupling increases the amplitude of the oscillatory system. Both of these consequences of coupling lead to a smaller entrainment range, because zeitgeber stimuli affect the oscillatory system less if the relaxation is fast and the amplitude is high (Figure 1 ). From these theoretical considerations, we conclude that the lung clock probably constitutes a weak oscillatory system, likely because a lack in coupling leads to a slow amplitude relaxation. (Circadian amplitude is not particularly low in lung (Figure 4 ).) In contrast, the SCN constitutes a rigid oscillator, whereby coupling and its described consequences probably are the primary causes for this rigidity. We then tested these theoretical predictions by experimentally perturbing coupling in the SCN (with MDL and TTX; O'Neill et al , 2008 ; Yamaguchi et al , 2003 ) and find that, indeed, reducing the coupling weakens the circadian oscillatory system in the SCN, which results in an enlargement of the entrainment range (Figure 6 ). Why is the SCN designed to be a stronger circadian oscillator than peripheral organs? We speculate that the position of the SCN—as the tissue that conveys environmental timing information (i.e., light) to the rest of the body—makes it necessary to create a circadian clock that is robust against noisy environmental stimuli. The SCN oscillator needs to be robust enough to be protected from environmental noise, but flexible enough to fulfill its function as an entrainable clock even in extreme photoperiods (i.e., seasons). By the same token, peripheral clocks are more protected from the environmental zeitgebers due to intrinsic homeostatic mechanisms. Thus, they do not necessarily need to develop a strong oscillatory system (e.g., by strengthening the coupling), rather they need to stay flexible enough to respond to direct or indirect signals from the SCN, such as hormonal, neural, temperature or metabolic signals. Such a design ensures that only robust and persistent environmental signals trigger an SCN resetting response, while SCN signals can relatively easily be conveyed to the rest of the body. Thus, the robustness in the SCN clock likely serves as a filter for environmental noise. In summary, using a combination of simulation studies, analytical calculations and experiments, we uncovered critical features for entrainment, such as zeitgeber‐to‐amplitude ratio and amplitude relaxation rate. Coupling is a primary factor that governs these features explaining important differences in the design of SCN and peripheral oscillators that ensure a robust, but also flexible circadian system. Circadian clock oscillator properties that are crucial for synchronization with the environment (entrainment) are studied in experiment and theory. The ratio between stimulus (zeitgeber) strength and oscillator amplitude, and the rigidity of the oscillatory system (relaxation rate upon perturbation) determine entrainment properties. Coupling among oscillators affects both qualities resulting in increased amplitude and rigidity. Uncoupled lung clocks entrain to extreme zeitgeber cycles, whereas the coupled oscillator system in the suprachiasmatic nucleus (SCN) does not; however, when coupling in the SCN is inhibited, larger ranges of entrainment can be achieved.

Properties of the circadian and annual timing systems are expected to vary systematically with latitude on the basis of different annual light and temperature patterns at higher latitudes, creating specific selection pressures. We review literature with respect to latitudinal clines in circadian phenotypes as well as in polymorphisms of circadian clock genes and their possible association with annual timing. The use of latitudinal (and altitudinal) clines in identifying selective forces acting on biological rhythms is discussed, and we evaluate how these studies can reveal novel molecular and physiological components of these rhythms.

Misalignment between internal circadian rhythmicity and externally imposed behavioral schedules, such as occurs in shift workers, has been implicated in elevated risk of metabolic disorders. To determine underlying mechanisms, it is essential to assess whether and how peripheral clocks are disturbed during shift work and to what extent this is linked to the central suprachiasmatic nuclei (SCN) pacemaker and/or misaligned behavioral time cues. Investigating rhythms in circulating metabolites as biomarkers of peripheral clock disturbances may offer new insights. We evaluated the impact of misaligned sleep/wake and feeding/fasting cycles on circulating metabolites using a targeted metabolomics approach. Sequential plasma samples obtained during a 24-h constant routine that followed a 3-d simulated night-shift schedule, compared with a simulated day-shift schedule, were analyzed for 132 circulating metabolites. Nearly half of these metabolites showed a 24-h rhythmicity under constant routine following either or both simulated shift schedules. However, while traditional markers of the circadian clock in the SCN—melatonin, cortisol, and PER3 expression—maintained a stable phase alignment after both schedules, only a few metabolites did the same. Many showed reversed rhythms, lost their rhythms, or showed rhythmicity only under constant routine following the night-shift schedule. Here, 95% of the metabolites with a 24-h rhythmicity showed rhythms that were driven by behavioral time cues externally imposed during the preceding simulated shift schedule rather than being driven by the central SCN circadian clock. Characterization of these metabolite rhythms will provide insight into the underlying mechanisms linking shift work and metabolic disorders.

The engineering of genetic circuits with predictive functionality in living cells represents a defining focus of the expanding field of synthetic biology. This focus was elegantly set in motion a decade ago with the design and construction of a genetic toggle switch and an oscillator, with subsequent highlights that have included circuits capable of pattern generation, noise shaping, edge detection and event counting. Here we describe an engineered gene network with global intercellular coupling that is capable of generating synchronized oscillations in a growing population of cells. Using microfluidic devices tailored for cellular populations at differing length scales, we investigate the collective synchronization properties along with spatiotemporal waves occurring at millimetre scales. We use computational modelling to describe quantitatively the observed dependence of the period and amplitude of the bulk oscillations on the flow rate. The synchronized genetic clock sets the stage for the use of microbes in the creation of a macroscopic biosensor with an oscillatory output. Furthermore, it provides a specific model system for the generation of a mechanistic description of emergent coordinated behaviour at the colony level. Synthetic biology clocks on The genetic circuits approach to synthetic biology uses computer modelling to design small gene networks that function in living cells. Less than a decade after its first successes — the synthetic oscillator and the toggle switch — Jeff Hasty and colleagues have built a population of synchronized Escherichia coli cells by engineering natural 'quorum sensing' genes. Using microfluidics and time-lapse fluorescence microscopy they derive general rules about the factors controlling synchronous oscillations or wave propagation. This work should facilitate research on more complex natural oscillations; in this model system the genetic clock produces synchronized flashes of light but similar genetic switching could trigger events relating to insulin secretion and circadian rhythms, for instance. A defining focus of synthetic biology is the engineering of genetic circuits with predictive functionality in living cells. Here, a decade after the first synthesized genetic toggle switch and oscillator, an engineered gene network with global intercellular coupling is designed that is capable of generating synchronized oscillations in a growing population of cells.