Do You Hear that Beat? Expectation Versus Uncertainty as Influenced by Background Noise

AbstractThe human ability to perceive and synchronize to musical beat has communicative importance beyond the purely musical context. Entrainment to the beat hints at more general deductive and predictive mechanisms. Evidence for beat entrainment and its related mechanisms was found in behavioural as well as neuroimaging studies. However, the mechanisms behind this phenomenon are not yet fully understood, and in particular, it is not known whether beat entrainment relies on lasting, sensory- specific cortical activity. To answer this question, we asked participants to listen to sequences of isochronous and non- isochronous beats. The sequences faded above and below an individual participant's hearing level, into either silence or background noise. Participants were asked to press a button for as long as they heard the sequence, and let go once they no longer hear it. Results show a consistently lengthened button press for isochronous sequences, beyond the actual fade-out period (leptokurtic, slim fit). The release delay to the non-isochronous sequences was instead characterized by uncertainty (platicurtic, broad fit). Background noise appeared to improve the isochronous sequence ending detection, possibly by raising the level of attention to sounds. These results support the view of entrainment mechanism as an internal, self-sustaining circuit. The activity of such a mechanism, driven by temporal regularity, together with the gradual disappearance of the beat, might create an illusory perception of beat continuation

Unravelling the developmental and functional significance of an ancient Argonaute duplication

MicroRNAs (miRNAs) base-pair to messenger RNA targets and guide Argonaute proteins to mediate their silencing. This target regulation is considered crucial for animal physiology and development. However, this notion is based exclusively on studies in bilaterians, which comprise almost all lab model animals. To fill this phylogenetic gap, we characterize the functions of two Argonaute paralogs in the sea anemone Nematostella vectensis of the phylum Cnidaria, which is separated from bilaterians by ~600 million years. Using genetic manipulations, Argonaute-immunoprecipitations and high-throughput sequencing, we provide experimental evidence for the developmental importance of miRNAs in a non-bilaterian animal. Additionally, we uncover unexpected differential distribution of distinct miRNAs between the two Argonautes and the ability of one of them to load additional types of small RNAs. This enables us to postulate a novel model for evolution of miRNA precursors in sea anemones and their relatives, revealing alternative trajectories for metazoan miRNA evolution

Conservation of miRNA-mediated silencing mechanisms across 600 million years of animal evolution

Our current knowledge about the mechanisms of miRNA silencing is restricted to few lineages such as vertebrates, arthropods, nematodes and land plants. miRNA-mediated silencing in bilaterian animals is dependent on the proteins of the GW182 family. Here, we dissect the function of GW182 protein in the cnidarian Nematostella, separated by 600 million years from other Metazoa. Using cultured human cells, we show that Nematostella GW182 recruits the CCR4-NOT deadenylation complexes via its tryptophan-containing motifs, thereby inhibiting translation and promoting mRNA decay. Further, similarly to bilaterians, GW182 in Nematostella is recruited to the miRNA repression complex via interaction with Argonaute proteins, and functions downstream to repress mRNA. Thus, our work suggests that this mechanism of miRNA-mediated silencing was already active in the last common ancestor of Cnidaria and Bilateria

Some like it hot: population-specific adaptations in venom production to abiotic stressors in a widely distributed cnidarian

Background: In cnidarians, antagonistic interactions with predators and prey are mediated by their venom, whose synthesis may be metabolically expensive. The potentially high cost of venom production has been hypothesized to drive population-specific variation in venom expression due to differences in abiotic conditions. However, the effects of environmental factors on venom production have been rarely demonstrated in animals. Here, we explore the impact of specific abiotic stresses on venom production of distinct populations of the sea anemone Nematostella vectensis (Actiniaria, Cnidaria) inhabiting estuaries over a broad geographic range where environmental conditions such as temperatures and salinity vary widely. Results: We challenged Nematostella polyps with heat, salinity, UV light stressors, and a combination of all three factors to determine how abiotic stressors impact toxin expression for individuals collected across this species’ range. Transcriptomics and proteomics revealed that the highly abundant toxin Nv1 was the most downregulated gene under heat stress conditions in multiple populations. Physiological measurements demonstrated that venom is metabolically costly to produce. Strikingly, under a range of abiotic stressors, individuals from different geographic locations along this latitudinal cline modulate differently their venom production levels. Conclusions: We demonstrate that abiotic stress results in venom regulation in Nematostella. Together with anecdotal observations from other cnidarian species, our results suggest this might be a universal phenomenon in Cnidaria. The decrease in venom production under stress conditions across species coupled with the evidence for its high metabolic cost in Nematostella suggests downregulation of venom production under certain conditions may be highly advantageous and adaptive. Furthermore, our results point towards local adaptation of this mechanism in Nematostella populations along a latitudinal cline, possibly resulting from distinct genetics and significant environmental differences between their habitats.publishedVersio

HeLayers: A Tile Tensors Framework for Large Neural Networks on Encrypted Data

Privacy-preserving solutions enable companies to offload confidential data to third-party services while fulfilling their government regulations. To accomplish this, they leverage various cryptographic techniques such as Homomorphic Encryption (HE), which allows performing computation on encrypted data. Most HE schemes work in a SIMD fashion, and the data packing method can dramatically affect the running time and memory costs. Finding a packing method that leads to an optimal performant implementation is a hard task. We present a simple and intuitive framework that abstracts the packing decision for the user. We explain its underlying data structures and optimizer, and propose a novel algorithm for performing 2D convolution operations. We used this framework to implement an HE-friendly version of AlexNet, which runs in three minutes, several orders of magnitude faster than other state-of-the-art solutions that only use HE.Comment: 17 pages, 7 figure

EEG probe

PROBING THE AFTER-BEAT PERIOD - EEG and behavioral data for a target-detection task preceded by a regular sound sequenc

Cell type-specific expression profiling unravels the development and evolution of stinging cells in sea anemone

Background: Cnidocytes are specialized cells that define the phylum Cnidaria. They possess an ``explosive'' organelle called cnidocyst that is important for prey capture and anti-predator defense. An extraordinary morphological and functional complexity of the cnidocysts has inspired numerous studies to investigate their structure and development However, the transcriptomes of the cells bearing these unique organelles are yet to be characterized, impeding our understanding of the genetic basis of their biogenesis. Results: In this study, we generated a nematocyte reporter transgenic line of the sea anemone Nematostella vectensis using the CRISPR/Cas9 system. By using a fluorescence-activated cell sorter (FACS), we have characterized cell type-specific transcriptomic profiles of various stages of cnidocyte maturation and showed that nematogenesis (the formation of functional cnidocysts) is underpinned by dramatic shifts in the spatiotemporal gene expression. Among the genes identified as upregulated in cnidocytes were Cnido-Jun and Cnido-Fos1-cnidarian-specific paralogs of the highly conserved c-Jun and c-Fos proteins of the stress-induced AP-1 transcriptional complex. The knockdown of the cnidocyte specific c-Jun homolog by microinjection of morpholino antisense oligomer results in disruption of normal nematogenesis. Conclusions: Here, we show that the majority of upregulated genes and enriched biochemical pathways specific to cnidocytes are uncharacterized, emphasizing the need for further functional research on nematogenesis. The recruitment of the metazoan stress-related transcription factor c-Fos/c-Jun complex into nematogenesis highlights the evolutionary ingenuity and novelty associated with the formation of these highly complex, enigmatic, and phyletically unique organelles. Thus, we provide novel insights into the biology, development and evolution of cnidocytes

Metabolic Engineering of the Phenylpropanoid and Its Primary, Precursor Pathway to Enhance the Flavor of Fruits and the Aroma of Flowers

Plants produce a diverse repertoire of specialized metabolites that have multiple roles throughout their life cycle. Some of these metabolites are essential components of the aroma and flavor of flowers and fruits. Unfortunately, attempts to increase the yield and prolong the shelf life of crops have generally been associated with reduced levels of volatile specialized metabolites and hence with decreased aroma and flavor. Thus, there is a need for the development of new varieties that will retain their desired traits while gaining enhanced scent and flavor. Metabolic engineering holds great promise as a tool for improving the profile of emitted volatiles of domesticated crops. This mini review discusses recent attempts to utilize metabolic engineering of the phenylpropanoid and its primary precursor pathway to enhance the aroma and flavor of flowers and fruits