RNA sequencing reveals small RNAs differentially expressed between incipient Japanese threespine sticklebacks

BACKGROUND: Non-coding small RNAs, ranging from 20 to 30 nucleotides in length, mediate the regulation of gene expression and play important roles in many biological processes. One class of small RNAs, microRNAs (miRNAs), are highly conserved across taxa and mediate the regulation of the chromatin state and the post-transcriptional regulation of messenger RNA (mRNA). Another class of small RNAs is the Piwi-interacting RNAs, which play important roles in the silencing of transposons and other functional genes. Although the biological functions of the different small RNAs have been elucidated in several laboratory animals, little is known regarding naturally occurring variation in small RNA transcriptomes among closely related species. RESULTS: We employed next-generation sequencing technology to compare the expression profiles of brain small RNAs between sympatric species of the Japanese threespine stickleback (Gasterosteus aculeatus). We identified several small RNAs that were differentially expressed between sympatric Pacific Ocean and Japan Sea sticklebacks. Potential targets of several small RNAs were identified as repetitive sequences. Female-biased miRNA expression from the old X chromosome was also observed, and it was attributed to the degeneration of the Y chromosome. CONCLUSIONS: Our results suggest that expression patterns of small RNA can differ between incipient species and may be a potential mechanism underlying differential mRNA expression and transposon activity

Flare Duty Cycle of Gamma-Ray Blazars and Implications for High-Energy Neutrino Emission

Gamma-ray flares of blazars may be accompanied by high-energy neutrinos due to interactions of high-energy cosmic rays in the jet with photons, as suggested by the detection of the high-energy neutrino IceCube-170922A during a major gamma-ray flare from blazar TXS 0506+056 at the $\sim3\sigma$ significance level. In this work, we present a statistical study of gamma-ray emission from blazars to constrain the contribution of gamma-ray flares to their neutrino output. We construct weekly binned light curves for 145 gamma-ray bright blazars in the {\it Fermi} Large Area Telescope (LAT) Monitored Source List adding TXS 0506+056. We derive the fraction of time spent in the flaring state (flare duty cycle) and the fraction of energy released during each flare from the light curves with a Bayesian blocks algorithm. We find that blazars with lower flare duty cycles and energy fractions are more numerous among our sample. We identify a significant difference in flare duty cycles between blazar sub-classes at a significance level of 5~\%. Then using a general scaling relation for the neutrino and gamma-ray luminosities, $L_{\nu} \propto (L_{\gamma})^{\gamma}$ with a weighting exponent of ${\gamma} = 1.0 - 2.0$, normalized to the quiescent gamma-ray or X-ray flux of each blazar, we evaluate the neutrino energy flux of each gamma-ray flare. The gamma-ray flare distribution indicates that blazar neutrino emission may be dominated by flares for $\gamma\gtrsim1.5$. The neutrino energy fluxes for one-week and 10-year bins are compared with the declination-dependent IceCube sensitivity to constrain the standard neutrino emission models for gamma-ray flares. Finally, we present the upper-limit contribution of blazar gamma-ray flares to the isotropic diffuse neutrino flux.Comment: 20 pages, 18 figures, Accepted for publication in Ap

Identifying High Energy Neutrino Transients by Neutrino Multiplet-Triggered Followups

Transient sources such as supernovae (SNe) and tidal disruption events are candidates of high energy neutrino sources. However, SNe commonly occur in the universe and a chance coincidence of their detection with a neutrino signal cannot be avoided, which may lead to a challenge of claiming their association with neutrino emission. In order to overcome this difficulty, we propose a search for $\sim10-100$ TeV neutrino multiple events within a timescale of $\sim 30$ days coming from the same direction, called neutrino multiplets. We show that demanding multiplet detection by a $\sim 1$ km$^3$ neutrino telescope limits distances of detectable neutrino sources, which enables us to identify source counterparts by multiwavelength observations owing to the substantially reduced rate of the chance coincidence detection of transients. We apply our results by constructing a feasible strategy for optical followup observations and demonstrate that wide-field optical telescopes with a $\gtrsim4$ m dish should be capable of identifying a transient associated with a neutrino multiplet. We also present the resultant sensitivity of multiplet neutrino detection as a function of the released energy of neutrinos and burst rate density. A model of neutrino transient sources with an emission energy greater than ${\rm a~few}\times 10^{51}$erg and a burst rate rarer than ${\rm a~few}\times 10^{-8}\ {\rm Mpc}^{-3}\ {\rm yr}^{-1}$ is constrained by the null detection of multiplets by a $\sim 1$km$^3$ scale neutrino telescope. This already disfavors the canonical high-luminosity gamma ray bursts and jetted tidal disruption events as major sources in the TeV-energy neutrino sky.Comment: The version accepted for publication in Ap

Athermally Enhanced High Temperature Plastic Flow in Zirconia Ceramics under Flash Event

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Genetic and Neural Modularity Underlie the Evolution of Schooling Behavior in Threespine Sticklebacks

SummaryAlthough descriptions of striking diversity in animal behavior are plentiful, little is known about the mechanisms by which behaviors change and evolve between groups. To fully understand behavioral evolution, it will be necessary to identify the genetic mechanisms that mediate behavioral change in a natural context [1–3]. Genetic analysis of behavior can also reveal associations between behavior and morphological or neural phenotypes, providing insight into the proximate mechanisms that control behavior. Relatively few studies to date have successfully identified genes or genomic regions that contribute to behavioral variation among natural populations or species [2], particularly in vertebrates [4–8]. Here, we apply genetic approaches to dissect a complex social behavior that has long fascinated biologists, schooling behavior [9–13]. We performed quantitative trait locus (QTL) analysis of schooling in an F2 intercross between strongly schooling marine and weakly schooling benthic sticklebacks (Gasterosteus aculeatus) and found that distinct genetic modules control different aspects of schooling behavior. Two key components of the behavior, tendency to school and body position when schooling, are uncorrelated in hybrids and map to different genomic regions. Our results further point to a genetic link between one behavioral component, schooling position, and variation in the neurosensory lateral line

Self-joining of Y-TZP by flash event under an AC electric field

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The genomic landscape at a late stage of stickleback speciation: High genomic divergence interspersed by small localized regions of introgression

Speciation is a continuous process and analysis of species pairs at different stages of divergence provides insight into how it unfolds. Previous genomic studies on young species pairs have revealed peaks of divergence and heterogeneous genomic differentiation. Yet less known is how localised peaks of differentiation progress to genome-wide divergence during the later stages of speciation in the presence of persistent gene flow. Spanning the speciation continuum, stickleback species pairs are ideal for investigating how genomic divergence builds up during speciation. However, attention has largely focused on young postglacial species pairs, with little knowledge of the genomic signatures of divergence and introgression in older stickleback systems. The Japanese stickleback species pair, composed of the Pacific Ocean three-spined stickleback (Gasterosteus aculeatus) and the Japan Sea stickleback (G. nipponicus), which co-occur in the Japanese islands, is at a late stage of speciation. Divergence likely started well before the end of the last glacial period and crosses between Japan Sea females and Pacific Ocean males result in hybrid male sterility. Here we use coalescent analyses and Approximate Bayesian Computation to show that the two species split approximately 0.68–1 million years ago but that they have continued to exchange genes at a low rate throughout divergence. Population genomic data revealed that, despite gene flow, a high level of genomic differentiation is maintained across the majority of the genome. However, we identified multiple, small regions of introgression, occurring mainly in areas of low recombination rate. Our results demonstrate that a high level of genome-wide divergence can establish in the face of persistent introgression and that gene flow can be localized to small genomic regions at the later stages of speciation with gene flow