The phylogeny of sleep

Unraveling the Mysteries of Sleep: Exploring Phylogenomic Sleep Signals in the Recently Characterized Archaeal Phylum Lokiarchaeota near Loki's Castle

Sleep is a universally conserved behavior whose origin and evolutionary purpose are uncertain. Using phylogenomics, this article investigates the evolutionary foundations of sleep from a never before used perspective. More specifically, it identifies orthologs of human sleep-related genes in the Lokiarchaeota of the Asgard superphylum and examines their functional role. Our findings indicate that a conserved suite of genes associated with energy metabolism and cellular repair is involved, thus suggesting that sleep plays a primordial role in cellular maintenance. The data cited lend credence to the idea that sleep improves organismal fitness across evolutionary time by acting as a restorative process. Notably, our approach demonstrates that phylogenomics is more useful than standard phylogenetics for clarifying common evolutionary traits. By offering insight into the evolutionary history of sleep and putting forth a novel model framework for sleep research across taxa, these findings contribute to our growing understanding of the molecular foundation of sleep. This study lays the groundwork for further investigations into the importance of sleep in various organisms. Such investigations could have consequences for improving human health and more generally could provide a deeper comprehension of the fundamental processes of life.

Variation and convergence in the morpho-functional properties of the mammalian neocortex

Man's natural inclination to classify and hierarchize the living world has prompted neurophysiologists to explore possible differences in brain organisation between mammals, with the aim of understanding the diversity of their behavioural repertoires. But what really distinguishes the human brain from that of a platypus, an opossum or a rodent? In this review, we compare the structural and electrical properties of neocortical neurons in the main mammalian radiations and examine their impact on the functioning of the networks they form. We discuss variations in overall brain size, number of neurons, length of their dendritic trees and density of spines, acknowledging their increase in humans as in most large-brained species. Our comparative analysis also highlights a remarkable consistency, particularly pronounced in marsupial and placental mammals, in the cell typology, intrinsic and synaptic electrical properties of pyramidal neuron subtypes, and in their organisation into functional circuits. These shared cellular and network characteristics contribute to the emergence of strikingly similar large-scale physiological and pathological brain dynamics across a wide range of species. These findings support the existence of a core set of neural principles and processes conserved throughout mammalian evolution, from which a number of species-specific adaptations appear, likely allowing distinct functional needs to be met in a variety of environmental contexts.

Sleep-like State in Pond Snails Leads to Enhanced Memory Formation

To test the hypothesis that a sleep-like quiescent state enhances memory consolidation in the pond snail Lymnaea stagnalis, we interposed a period in which snails experienced either a quiescent, sleeping state or an active, non-sleeping state following escape behavior suppression learning (EBSL). During EBSL training, the number of escapes made by a snail from a container was significantly suppressed using an external aversive stimulus (punishment). After training, the snails were divided into two groups. One group of snails was allowed to move freely and to experience a sleep-like quiescent state for 3 h in distilled water. The other group was stimulated with a sucrose solution every 10 min to keep them active (i.e., non-sleeping). In the memory test, escape behavior was suppressed in the group that experienced the quiescent state, whereas the suppression was not observed in snails that were kept active. Additionally, the latency of the first escape in the memory test was shorter in the snails kept active than in those that experienced the quiescent state. Together, these data are consistent with the hypothesis that a sleep-like quiescent state enhances EBSL memory consolidation in L. stagnalis.

Temperature-robust rapid eye movement and slow wave sleep in the lizard Laudakia vulgaris

During sleep our brain switches between two starkly different brain states - slow wave sleep (SWS) and rapid eye movement (REM) sleep. While this two-state sleep pattern is abundant across birds and mammals, its existence in other vertebrates is not universally accepted, its evolutionary emergence is unclear and it is undetermined whether it is a fundamental property of vertebrate brains or an adaptation specific to homeotherms. To address these questions, we conducted electrophysiological recordings in the Agamid lizard, Laudakia vulgaris during sleep. We found clear signatures of two-state sleep that resemble the mammalian and avian sleep patterns. These states switched periodically throughout the night with a cycle of ~90 seconds and were remarkably similar to the states previously reported in Pogona vitticeps. Interestingly, in contrast to the high temperature sensitivity of mammalian states, state switches were robust to large variations in temperature. We also found that breathing rate, micro-movements and eye movements were locked to the REM state as they are in mammals. Collectively, these findings suggest that two-state sleep is abundant across the agamid family, shares physiological similarity to mammalian sleep, and can be maintain in poikilothems, increasing the probability that it existed in the cold-blooded ancestor of amniotes.

An attention-based temporal convolutional network for rodent sleep stage classification across species, mutants and experimental environments with single-channel electroencephalogram

Objective.Sleep perturbation by environment, medical procedure and genetic background is under continuous study in biomedical research. Analyzing brain states in animal models such as rodents relies on categorizing electroencephalogram (EEG) recordings. Traditionally, sleep experts have classified these states by visual inspection of EEG signatures, which is laborious. The heterogeneity of sleep patterns complicates the development of a generalizable solution across different species, genotypes and experimental environments.Approach.To realize a generalizable solution, we proposed a cross-species rodent sleep scoring network called CSSleep, a robust deep-learning model based on single-channel EEG. CSSleep starts with a local time-invariant information learning convolutional neural network. The second module is the global transition rules learning temporal convolutional network (TRTCN), stacked with bidirectional attention-based temporal convolutional network modules. The TRTCN simultaneously captures positive and negative time direction information and highlights relevant in-sequence features. The dataset for model evaluation comprises the single-EEG signatures of four cohorts of 16 mice and 8 rats from three laboratories.Main results.In leave-one-cohort-out cross-validation, our model achieved an accuracy of 91.33%. CSSleep performed well on generalization across experimental environments, mutants and rodent species by using single-channel EEG.Significance.This study aims to promote well-standardized cross-laboratory sleep studies to improve our understanding of sleep. Our source codes and supplementary materials will be disclosed later.

Neurobiology of dream activity and effects of stimulants on dreams

The sleep-wake cycle is the result of the activity of a multiple neurobiological network interaction. Dreaming feature is one interesting sleep phenomena that represents sensorial components, mostly visual perceptions, accompanied with intense emotions. Further complexity has been added to the topic of the neurobiological mechanism of dreams generation by the current data that suggests the influence of drugs on dream generation. Here, we discuss the review on some of the neurobiological mechanism of the regulation of dream activity, with special emphasis on the effects of stimulants on dreaming.

Self-Reported Sleep Quality Across Age Modulates Resting-State Functional Connectivity in Limbic and Fronto-Temporo-Parietal Networks: An Exploratory Cross-Sectional fMRI Study

Sleep problems are increasingly present in the general population at any age, and they are frequently concurrent with—or predictive of—memory disturbances, anxiety, and depression. In this exploratory cross-sectional study, 54 healthy participants recruited in Naples (Italy; 23 females; mean age = 37.1 years, range = 20–68) completed the Pittsburgh Sleep Quality Index (PSQI) and a neurocognitive assessment concerning both verbal and visuospatial working memory as well as subjective measures of anxiety and depression. Then, 3T fMRI images with structural and resting-state functional sequences were acquired. A whole-brain seed-to-seed functional connectivity (FC) analysis was conducted by contrasting good (PSQI score <5) vs. bad (PSQI score ≥5) sleepers. Results highlighted FC differences in limbic and fronto-temporo-parietal brain areas. Also, bad sleepers showed an anxious/depressive behavioural phenotype and performed worse than good sleepers at visuospatial working-memory tasks. These findings may help to reveal the effects of sleep quality on daily-life cognitive functioning and further elucidate pathophysiological mechanisms of sleep disorders.

Sleep Deprivation, Immune Suppression and SARS-CoV-2 Infection

Sleep health and its adaptation to individual and environmental factors are crucial to promote physical and mental well-being across animal species. In recent years, increasing evidence has been reported regarding the relationship between sleep and the immune system and how sleep disturbances may perturb the delicate balance with severe repercussions on health outcomes. For instance, experimental sleep deprivation studies in vivo have reported several major detrimental effects on immune health, including induced failure of host defense in rats and increased risk for metabolic syndrome (MetS) and immune suppression in humans. In addition, two novel risk factors for dysregulated metabolic physiology have recently been identified: sleep disruption and circadian misalignment. In light of these recent findings about the interplay between sleep and the immune system, in this review, we focus on the relationship between sleep deprivation and immunity against viruses, with a special interest in SARS-CoV-2 infection.

Sleep Phases in Crayfish: Relationship Between Brain Electrical Activity and Autonomic Variables

In vertebrates like mammals and birds, two types of sleep have been identified: rapid eye movement and non-rapid eye movement sleep. Each one is associated with specific electroencephalogram patterns and is accompanied by variations in cardiac and respiratory frequencies. Sleep has been demonstrated only in a handful of invertebrates, and evidence for different sleep stages remains elusive. Previous results show that crayfish sleeps while lying on one side on the surface of the water, but it is not known if this animal has sleep phases. Heart rate and respiratory frequency are modified by diverse changes in the crayfish environment during wakefulness, and previously, we showed that variations in these variables are present during sleep despite that there are no autonomic anatomical structures described in this animal. Here, we conducted experiments to search for sleep phases in crayfish and the relationships between sleep and cardiorespiratory activity. We used the wavelet transform, grouping analysis with k-means clustering, and principal component analysis, to analyze brain and cardiorespiratory electrical activity. Our results show that (a) crayfish can sleep lying on one side or when it is motionless and (b) the depth of sleep (measured as the power of electroencephalographic activity) changes over time and is accompanied by oscillations in cardiorespiratory signal amplitude and power. Finally, we propose that in crayfish there are at least three phases of sleep.

Evidence for Sleep in Sharks and Rays: Behavioural, Physiological, and Evolutionary Considerations

Sleep is widespread across the animal kingdom. However, most comparative sleep data exist for terrestrial vertebrates, with much less known about sleep in amphibians, bony fishes, and invertebrates. There is an absence of knowledge on sleep in cartilaginous fishes. Sharks and rays are amongst the earliest vertebrates, and may hold clues to the evolutionary history of sleep and sleep states found in more derived animals, such as mammals and birds. Here, we review the literature concerning activity patterns, sleep behaviour, and electrophysiological evidence for sleep in cartilaginous (and bony) fishes following an exhaustive literature search that found more than 80 relevant studies in laboratory and field environments. Evidence for sleep in sharks and rays that respire without swimming is preliminary; evidence for sleep in continuously swimming fishes is currently absent. We discuss ways in which the latter group might sleep concurrent with sustained movement, and conclude with suggestions for future studies in order to provide more comprehensive data on when, how, and why sharks and rays sleep.

Glial Cells in the Genesis and Regulation of Circadian Rhythms

Circadian rhythms are biological oscillations with a period of ~24 h. These rhythms are orchestrated by a circadian timekeeper in the suprachiasmatic nucleus of the hypothalamus, the circadian "master clock," which exactly adjusts clock outputs to solar time via photic synchronization. At the molecular level, circadian rhythms are generated by the interaction of positive and negative feedback loops of transcriptional and translational processes of the so-called "clock genes." A large number of clock genes encode numerous proteins that regulate their own transcription and that of other genes, collectively known as "clock-controlled genes." In addition to the sleep/wake cycle, many cellular processes are regulated by circadian rhythms, including synaptic plasticity in which an exquisite interplay between neurons and glial cells takes place. In particular, there is compelling evidence suggesting that glial cells participate in and regulate synaptic plasticity in a circadian fashion, possibly representing the missing cellular and physiological link between circadian rhythms with learning and cognition processes. Here we review recent studies in support of this hypothesis, focusing on the interplay between glial cells, synaptic plasticity, and circadian rhythmogenesis.

Acute Sleep Deprivation Blocks Short- and Long-Term Operant Memory in Aplysia

STUDY OBJECTIVES

Insufficient sleep in individuals appears increasingly common due to the demands of modern work schedules and technology use. Consequently, there is a growing need to understand the interactions between sleep deprivation and memory. The current study determined the effects of acute sleep deprivation on short and long-term associative memory using the marine mollusk Aplysia californica, a relatively simple model system well known for studies of learning and memory.

METHODS

Aplysia were sleep deprived for 9 hours using context changes and tactile stimulation either prior to or after training for the operant learning paradigm, learning that food is inedible (LFI). The effects of sleep deprivation on short-term (STM) and long-term memory (LTM) were assessed.

RESULTS

Acute sleep deprivation prior to LFI training impaired the induction of STM and LTM with persistent effects lasting at least 24 h. Sleep deprivation immediately after training blocked the consolidation of LTM. However, sleep deprivation following the period of molecular consolidation did not affect memory recall. Memory impairments were independent of handling-induced stress, as daytime handled control animals demonstrated no memory deficits. Additional training immediately after sleep deprivation failed to rescue the induction of memory, but additional training alleviated the persistent impairment in memory induction when training occurred 24 h following sleep deprivation.

CONCLUSIONS

Acute sleep deprivation inhibited the induction and consolidation, but not the recall of memory. These behavioral studies establish Aplysia as an effective model system for studying the interactions between sleep and memory formation.

Anaplastic Lymphoma Kinase Acts in the Drosophila Mushroom Body to Negatively Regulate Sleep

Though evidence is mounting that a major function of sleep is to maintain brain plasticity and consolidate memory, little is known about the molecular pathways by which learning and sleep processes intercept. Anaplastic lymphoma kinase (Alk), the gene encoding a tyrosine receptor kinase whose inadvertent activation is the cause of many cancers, is implicated in synapse formation and cognitive functions. In particular, Alk genetically interacts with Neurofibromatosis 1 (Nf1) to regulate growth and associative learning in flies. We show that Alk mutants have increased sleep. Using a targeted RNAi screen we localized the negative effects of Alk on sleep to the mushroom body, a structure important for both sleep and memory. We also report that mutations in Nf1 produce a sexually dimorphic short sleep phenotype, and suppress the long sleep phenotype of Alk. Thus Alk and Nf1 interact in both learning and sleep regulation, highlighting a common pathway in these two processes.

Characterization of sleep in Aplysia californica

STUDY OBJECTIVE

To characterize sleep in the marine mollusk, Aplysia californica.

DESIGN

Animal behavior and activity were assessed using video recordings to measure activity, resting posture, resting place preference, and behavior after rest deprivation. Latencies for behavioral responses were measured for appetitive and aversive stimuli for animals in the wake and rest states.

SETTING

Circadian research laboratory for Aplysia.

PATIENTS OR PARTICIPANTS

A. californica from the Pacific Ocean.

INTERVENTIONS

N/A.

MEASUREMENTS AND RESULTS

Aplysia rest almost exclusively during the night in a semi-contracted body position with preferential resting locations in the upper corners of their tank. Resting animals demonstrate longer latencies in head orientation and biting in response to a seaweed stimulus and less frequent escape response steps following an aversive salt stimulus applied to the tail compared to awake animals at the same time point. Aplysia exhibit rebound rest the day following rest deprivation during the night, but not after similar handling stimulation during the day.

CONCLUSIONS

Resting behavior in Aplysia fulfills all invertebrate characteristics of sleep including: (1) a specific sleep body posture, (2) preferred resting location, (3) reversible behavioral quiescence, (4) elevated arousal thresholds for sensory stimuli during sleep, and (5) compensatory sleep rebound after sleep deprivation.

Circadian clocks, rhythmic synaptic plasticity and the sleep-wake cycle in zebrafish

The circadian clock and homeostatic processes are fundamental mechanisms that regulate sleep. Surprisingly, despite decades of research, we still do not know why we sleep. Intriguing hypotheses suggest that sleep regulates synaptic plasticity and consequently has a beneficial role in learning and memory. However, direct evidence is still limited and the molecular regulatory mechanisms remain unclear. The zebrafish provides a powerful vertebrate model system that enables simple genetic manipulation, imaging of neuronal circuits and synapses in living animals, and the monitoring of behavioral performance during day and night. Thus, the zebrafish has become an attractive model to study circadian and homeostatic processes that regulate sleep. Zebrafish clock- and sleep-related genes have been cloned, neuronal circuits that exhibit circadian rhythms of activity and synaptic plasticity have been studied, and rhythmic behavioral outputs have been characterized. Integration of this data could lead to a better understanding of sleep regulation. Here, we review the progress of circadian clock and sleep studies in zebrafish with special emphasis on the genetic and neuroendocrine mechanisms that regulate rhythms of melatonin secretion, structural synaptic plasticity, locomotor activity and sleep.

Synaptic plasticity in sleep: learning, homeostasis and disease

Sleep is a fundamental and evolutionarily conserved aspect of animal life. Recent studies have shed light on the role of sleep in synaptic plasticity. Demonstrations of memory replay and synapse homeostasis suggest that one essential role of sleep is in the consolidation and optimization of synaptic circuits to retain salient memory traces despite the noise of daily experience. Here, we review this recent evidence and suggest that sleep creates a heightened state of plasticity, which may be essential for this optimization. Furthermore, we discuss how sleep deficits seen in diseases such as Alzheimer's disease and autism spectrum disorders might not just reflect underlying circuit malfunction, but could also play a direct role in the progression of those disorders.