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RNPC1 is reported to act as a tumor suppressor by binding and regulating the expression of target genes in various cancers. However, the role of RNPC1 in gastric cancer and the underlying mechanisms are still unclear.
Abstract The visual cycle is a metabolic pathway essential for visual function. The bisretinoid byproducts of this pathway can induce retinal toxicity, as occurs in Stargardt disease type 1 (STGD1). Emixustat, which inhibits bisretinoid production, is a visual cycle modulator (VCM) that targets RPE65. However, it causes visual impairment due to its unfavorable duration of action. Here, we report ester-containing analogs of emixustat that are susceptible to hydrolytic clearance and function as short-acting VCMs. We show that the esterase-mediated metabolism of these compounds can be tuned while maintaining high-affinity RPE65 targeting. Compounds 6 (EYE-002) and 7 (EYE-003) containing diethyl acetate and valproate esters, respectively, allowed faster recovery of visual cycle function compared to emixustat. These molecules protected against retinal degeneration in mouse models of photic retinopathy and STGD1. These data demonstrate that shorter attenuation of the visual cycle can therapeutically intervene in retinal diseases with fewer visual side effects compared to emixustat.
We use vertical profiles of airborne measurements of CO2 from frontal cases during the summer 2016 Atmospheric Carbon and Transport – America (ACT-America) campaign to evaluate the skill of a set of ten global CO2 inversion models participating in the Orbiting Carbon Observatory – 2 (OCO-2) Model Intercomparison Project (MIP). Model errors and biases (model minus observation) were categorized by region (Mid-Atlantic, Midwest, and South), frontal sector (warm or cold), and transport model (predominantly Tracer Model 5 (TM5) and Goddard Earth Observing System – Chemistry (GEOS-Chem)). Overall, the inversions reproduce the general structures of the observed vertical profiles and the enhanced / depleted low-level CO2 in warm / cold sectors, but tend to underestimate the magnitude of the sector difference in each region. In the Midwest and South warm sectors, inversion biases were about 1 ppm above 1500 m AGL, though model spread (quantified by interquartile range) was often even smaller; below 1500 m AGL, model biases were negative and about -2 ppm near the surface. For the Midwest and South cold sectors, models had +2-3 ppm biases below 1500 m AGL, but with comparable model spread. Uniquely, in the Mid-Atlantic there was a consistent difference between TM5 and GEOS-Chem mole fractions for both sectors up to 3000 m AGL (TM5 lower by 2 ppm), on the order of the observation-relative biases. In the MidAtlantic TM5 inversions had negative biases in warm sectors, while GEOS-Chem inversions had positive biases in cold sectors. Possible reasons for the regional variability are discussed.
Abstract Silencing of exogenous DNA can make transgene expression very inefficient. Genetic screens in the model alga Chlamydomonas have demonstrated that transgene silencing can be overcome by mutations in unknown gene(s), thus producing algal strains that stably express foreign genes to high levels. Here, we show that the silencing mechanism specifically acts on transgenic DNA. Once a permissive chromatin structure has assembled, transgene expression can persist even in the absence of mutations disrupting the silencing pathway. We have identified the gene conferring the silencing and show it to encode a sirtuin-type histone deacetylase. Loss of gene function does not appreciably affect endogenous gene expression. Our data suggest that transgenic DNA is recognized and then quickly inactivated by the assembly of a repressive chromatin structure composed of deacetylated histones. We propose that this mechanism may have evolved to provide protection from potentially harmful types of environmental DNA.
8-Hydroxyquinolines (8HQs) comprise a family of metal-binding compounds that have been used or tested for use in numerous medicinal applications, including as treatments for bacterial infection, Alzheimer's disease, and cancer. Two key 8HQs, CQ (5-chloro-7-iodo-8-hydroxyquinoline) and PBT2 (2-(dimethylamino)methyl-5,7-dichloro-8-hydroxyquinoline), have drawn considerable interest and have been the focus of many studies investigating their in vivo properties. These drugs have been described as copper and zinc ionophores because they do not cause metal depletion, as would be expected for a chelation mechanism, but rather cellular accumulation of these ions. In studies of their anti-cancer properties, CQ has been proposed to elicit toxic intracellular copper accumulation and to trigger apoptotic cancer cell death through several possible pathways. In this study we used synchrotron X-ray fluorescence imaging, in combination with biochemical assays and light microscopy, to investigate 8HQ-induced alterations to metal ion homeostasis, as well as cytotoxicity and cell death. We used the bromine fluorescence from a bromine labelled CQ congener (5,7-dibromo-8-hydroxyquinoline; B2Q) to trace the intracellular localization of B2Q following treatment and found that B2Q crosses the cell membrane. We also found that 8HQ co-treatment with Cu(ii) results in significantly increased intracellular copper and significant cytotoxicity compared with 8HQ treatments alone. PBT2 was found to be more cytotoxic, but a weaker Cu(ii) ionophore than other 8HQs. Moreover, treatment of cells with copper in the presence of CQ or B2Q resulted in copper accumulation in the nuclei, while PBT2-guided copper was distributed near to the cell membrane. Furthermore, these results suggest that PBT2 may be acting through a different mechanism than that of other 8HQs to cause the observed cytotoxicity.
Here we measured the cross-correlation between galaxy weak lensing data from the Kilo Degree Survey (KiDS-1000, DR4) and cosmic microwave background (CMB) lensing data from the Atacama Cosmology Telescope (ACT, DR4) and the Planck Legacy survey. We used two samples of source galaxies, selected with photometric redshifts, (0.1 < z B < 1.2) and (1.2 < z B < 2), which produce a combined detection significance of the CMB lensing and weak galaxy lensing cross-spectrum of 7.7σ. With the lower redshift galaxy sample, for which the cross-correlation was detected at a significance of 5.3σ, we present joint cosmological constraints on the matter density parameter, Ω m , and the matter fluctuation amplitude parameter, σ 8 , marginalising over three nuisance parameters that model our uncertainty in the redshift and shear calibration as well as the intrinsic alignment of galaxies. We find our measurement to be consistent with the best-fitting flat ΛCDM cosmological models from both Planck and KiDS-1000. We demonstrate the capacity of CMB weak lensing cross-correlations to set constraints on either the redshift or shear calibration by analysing a previously unused high-redshift KiDS galaxy sample (1.2 < z B < 2), with the cross-correlation detected at a significance of 7σ. This analysis provides an independent assessment for the accuracy of redshift measurements in a regime that is challenging to calibrate directly owing to known incompleteness in spectroscopic surveys.
As an alternative approach for measuring the weak effects associated with the artificial preparation of rare events in quantum metrology, we propose the study of the interference pattern generated by acts of pre- and postselection of a quantum system. An example of two Mach – Zehnder interferometers connected by a cross-Kerr nonlinearity is considered. Postselection of photon states at the output of one of the interferometers and the application of a controlled phase shift in one of its arms induces interference phenomena in the photodetection statistics at the output of the second interferometer. The nonlinearity parameter determines the shift and width of the structures in the interference pattern. The main features of this pattern are studied depending on the magnitude of the Kerr nonlinearity and the number of photons at the input of the interferometers. (paper)
One of the most important checks for systematic errors in CMB studies is the cross correlation of maps made by independent experiments. In this study we report on the cross correlation between maps from the Atacama B-mode Search (ABS) and Atacama Cosmology Telescope (ACT) experiments in both temperature and polarization. These completely different measurements have a clear correlation with each other and with the Planck satellite in both the EE and TE spectra at ℓ<400 over the roughly 0110 deg 2 common to all three. The TB, EB, and BB cross spectra are consistent with noise. Exploiting such cross-correlations will be important for future experiments operating in Chile that aim to probe the 30<ℓ<8,000 range.
We present a measurement of the cross-correlation between the MagLim galaxies selected from the Dark Energy Survey (DES) first three years of observations (Y3) and cosmic microwave background (CMB) lensing from the Atacama Cosmology Telescope (ACT) Data Release 4 (DR4), reconstructed over ∼ 436 deg 2 of the sky. Our galaxy sample, which covers ∼ 4143 deg 2 , is divided into six redshift bins spanning the redshift range of 0.20 < z <1.05. We adopt a blinding procedure until passing all consistency and systematics tests. After imposing scale cuts for the cross-power spectrum measurement, we reject the null hypothesis of no correlation at 9.1σ. We constrain cosmological parameters from a joint analysis of galaxy and CMB lensing-galaxy power spectra considering a flat ΛCDM model, marginalized over 23 astrophysical and systematic nuisance parameters. We find the clustering amplitude S 8 ≡ σ 8 (Ω m /0.3) 0.5 = 0.75 +0.04 -0.05 . In addition, we constrain the linear growth of cosmic structure as a function of redshift. Our results are consistent with recent DES Y3 analyses and suggest a preference for a lower S 8 compared to results from measurements of CMB anisotropies by the Planck satellite, although at a mild level (< 2σ) of statistical significance.
We use weak gravitational lensing measurements from Year 3 Dark Energy Survey data to calibrate the masses of 443 galaxy clusters selected via the Sunyaev-Zel'dovich effect from Atacama Cosmology Telescope Data Release 5 maps of the cosmic microwave background. We incorporate redshift and SZ measurements for individual clusters into a hierarchical model for the stacked lensing signals and perform Bayesian analyses to constrain the hydrostatic mass bias of the clusters. Our treatment of systematic uncertainties includes a prescription for measuring and accounting for the weak lensing boost factor, consideration of a miscentering effect, as well as marginalization over uncertainties in the source galaxy photometric redshift distributions and shear calibration. The resultant constraints on the normalization of the mass-observable relation have a precision of approximately 7%, with the mean WL halo mass of M $_{500c}$ = 5.4 × 10$^{14}$ M $_{⊙}$. We measure the bias between the true cluster mass and the mass estimated from the SZ signal based on an X-ray-calibrated scaling relation assuming hydrostatic equilibrium, to be 1 - b = 0.74$^{+0.06}$ $_{-0.05}$ over the full sample. When splitting the clusters into high (z = 0.43-0.70) and low (z = 0.15-0.43) redshift bins, we measure 1 - b = 0.58$^{+0.06}$ $_{-0.05}$ and 0.81$^{+0.08}$ $_{-0.06}$, respectively. When introducing additional freedom in redshift and mass to the hydrostatic bias model, we find that 1 - b decreases with redshift (with the power law of -1.8$^{+0.5}$ $_{-0.6}$, 99.95% confidence), consistent with findings from other recent studies, while we do not find any significant trend in mass. We also demonstrate that our result is robust against various systematics such as a scale cut, priors on baryonic and miscentering parameters, and degree of scatter in mass-observable relation. The weak-lensing mass calibration presented in this study will be a useful tool for using the ACT clusters as probes of astrophysics, and as a step towards using their abundance as a cosmological probe.
Fifty years ago the Clean Air Act amendments of 1970 were the first major US legislation that authorized regulation of air pollutants, creating National Ambient Air Quality Standards (NAAQSs) to protect public health and the environment. While US air quality has improved, with average PM 2.5 concentrations in 2016 a third of 1981 levels, air pollution remains a major health risk in the US and globally. Moreover, air pollution impacts are still uneven, with the most polluted US communities of 50 years ago still so today. Air pollution “hot spots” result in disproportionate exposure at neighborhood scales within cities, particularly in disadvantaged communities, but an in-depth understanding at these scales is lacking. This policy perspective discusses how trends in sensor technology, spatial data collection, analytics and retrieval are converging to enable the production of hyperlocal air pollution data, and that this needs to be done in a manner that enables marginalized communities to shape decision making.
ABSTRACT We characterize the properties and evolution of bright central galaxies (BCGs) and the surrounding intracluster light (ICL) in galaxy clusters identified in the Dark Energy Survey and Atacama Cosmology Telescope Survey (DES-ACT) overlapping regions, covering the redshift range 0.20 < z < 0.80. Over this redshift range, we measure no change in the ICL’s stellar content (between 50 and 300 kpc) in clusters with log10(M200m,SZ/M⊙) >14.4. We also measure the stellar mass–halo mass (SMHM) relation for the BCG+ICL system and find that the slope, β, which characterizes the dependence of M200m,SZ on the BCG+ICL stellar mass, increases with radius. The outskirts are more strongly correlated with the halo than the core, which supports that the BCG+ICL system follows a two-phase growth, where recent growth (z < 2) occurs beyond the BCG’s core. Additionally, we compare our observed SMHM relation results to the IllustrisTNG300-1 cosmological hydrodynamic simulations and find moderate qualitative agreement in the amount of diffuse light. However, the SMHM relation’s slope is steeper in TNG300-1 and the intrinsic scatter is lower, likely from the absence of projection effects in TNG300-1. Additionally, we find that the ICL exhibits a colour gradient such that the outskirts are bluer than the core. Moreover, for the lower halo mass clusters (log10(M200m,SZ/M⊙) < 14.59), we detect a modest change in the colour gradient’s slope with lookback time, which combined with the absence of stellar mass growth may suggest that lower mass clusters have been involved in growth via tidal stripping more recently than their higher mass counterparts.
Abstract Adenosine deaminases acting on RNA (ADARs) are enzymes that convert adenosine to inosine in duplex RNA, a modification that exhibits a multitude of effects on RNA structure and function. Recent studies have identified ADAR1 as a potential cancer therapeutic target. ADARs are also important in the development of directed RNA editing therapeutics. A comprehensive understanding of the molecular mechanism of the ADAR reaction will advance efforts to develop ADAR inhibitors and new tools for directed RNA editing. Here we report the X-ray crystal structure of a fragment of human ADAR2 comprising its deaminase domain and double stranded RNA binding domain 2 (dsRBD2) bound to an RNA duplex as an asymmetric homodimer. We identified a highly conserved ADAR dimerization interface and validated the importance of these sequence elements on dimer formation via gel mobility shift assays and size exclusion chromatography. We also show that mutation in the dimerization interface inhibits editing in an RNA substrate-dependent manner for both ADAR1 and ADAR2.
Multiple converging lines of evidence from experimental and human genetic studies indicate that both common and rare sequence variants involving enhancers play major roles in Mendelian and complex human disease phenotypes. We use a combination of sequence-based molecular approaches including chromatin mapping and synthesis-enabled modification of enhancer sequences, large-scale transgenic mouse studies (http://enhancer.lbl.gov), and CRISPR genome editing in the mouse model to study the in vivofunction of enhancers in developmental, evolutionary, and disease-related processes. Using examples from our ongoing work, I will illustrate how these methods provide insight into the function and evolution of distant-acting regulatory sequences and offer a starting point for understanding their role in human disease. I will discuss how improved in vivo mouse assays can be used to study candidate pathogenic human mutations in enhancers at scale, revealing the extent to which human genetic studies alone can be insufficient to identify truly causal mutations in enhancers. I will also show how such assays can be used to explore the sensitivity of enhancers that are extremely conserved ("ultraconserved") in evolution to mutations, revealing a remarkable functional robustness to sequence changes that contrasts with apparent evolutionary constraints.
We present a measurement of the pairwise kinematic Sunyaev-Zel’dovich (kSZ) signal using the Dark Energy Spectroscopic Instrument (DESI) Bright Galaxy Sample (BGS) Data Release 1 (DR1) galaxy sample overlapping with the Atacama Cosmology Telescope (ACT) CMB temperature map. Our analysis makes use of 1.6 million galaxies with stellar masses log 𝑀 ⋆ /𝑀 ⊙ >10, and we explore measurements across a range of aperture sizes (2.1′ <𝜃 ap <3.5′) and stellar mass selections. This statistic directly probes the velocity field of the large-scale structure, a unique observable of cosmic dynamics and modified gravity. In particular, at low redshifts, this quantity is especially interesting, as deviations from General Relativity are expected to be largest. Notably, our result represents the highest-significance low-redshift (𝑧 ∼ 0.3) detection of the kSZ pairwise effect yet. In our most optimal configuration (𝜃 ap =3.3′, log 𝑀 ⋆ >11), we achieve a 5𝜎 detection. Assuming that an estimate of the optical depth and galaxy bias of the sample exists via e.g., external observables, this measurement constrains the fundamental cosmological combination 𝐻 0 𝑓𝜎$^2_8$. A key challenge is the degeneracy with the galaxy optical depth. We address this by combining CMB lensing, which allows us to infer the halo mass and galaxy population properties, with hydrodynamical simulation estimates of the mean optical depth, $\bar{𝜏}$ . We stress that this is a proof-of-concept analysis; with BGS DR2 data we expect to improve the statistical precision by roughly a factor of two, paving the way toward robust tests of modified gravity with kSZ-informed velocity-field measurements at low redshift.
We forecast the sensitivity of future correlations between cosmic microwave background (CMB) lensing and the Lyman-𝛼 forest power spectrum. This squeezed-limit bispectrum probes the connection between the Lyman-𝛼 transmission and the underlying large-scale matter density field. We recover the measured signal-to-noise (SNR) ratio obtained with Planck × BOSS, and forecast a SNR of 10.3, 14.8 and 20.2 for DESI combined with ACT, SO, and CMB-S4, respectively. For DESI and SO/CMB-S4, the correlation should be detectable at SNR ≥ 5 in 5 redshift bins, useful for distinguishing our signal from several contaminants. Indeed, our forecast is affected by large theoretical uncertainties in the current modeling of the signal and its contaminants, such as continuum misestimation bias or damped-Lyman-𝛼 absorbers. Quantifying these more accurately will be crucial to enable a reliable cosmological interpretation of this observable in future measurements. We attempt to enumerate the features required in future Lyman-𝛼 forest simulations required to do so.
Recent advances in cosmological observations have provided an unprecedented opportunity to investigate the distribution of baryons relative to the underlying matter. In this work, we show that the gas is more extended than the dark matter, and the amount of baryonic feedback at $z \lesssim 1$ disfavors low-feedback models such as that of state-of-the-art hydrodynamical simulation IllustrisTNG compared with high-feedback models such as that of the original Illustris simulation. This has important implications for bridging the gap between theory and observations and understanding galaxy formation and evolution. Furthermore, a better grasp of the baryon-dark matter link is critical to future cosmological analyses, which are currently impeded by our limited knowledge of baryonic feedback. Here, we measure the kinematic Sunyaev-Zel'dovich (kSZ) effect from the Atacama Cosmology Telescope (ACT), stacked on the luminous red galaxy (LRG) sample of the Dark Energy Spectroscopic Instrument (DESI) imaging survey. This is the first analysis to use photometric redshifts for reconstructing galaxy velocities. Due to the large number of galaxies comprising the DESI imaging survey, this is the highest signal-to-noise stacked kSZ measurement to date: we detect the signal at 13$σ$, finding strong evidence that the gas is more spread out than the dark matter, as well as a preference for larger feedback compared to some commonly used state-of-the-art hydrodynamical simulations. Here, our work opens up the possibility of recalibrating large hydrodynamical simulations using the kSZ effect. In addition, our findings highlight the importance of properly accounting for baryonic feedback with future surveys such as LSST through direct probes such as the kSZ, and shed light on long-standing enigmas in astrophysics, such as the “missing baryon” problem.
When two fragments are created in a fission decay, any torque due to nuclear and Coulomb interaction can change the fragment's angular momentum. This paper explores the character and magnitude of the angular momentum as a function of the initial conditions around the scission point using the time-dependent Hartree-Fock theory. To understand the torque acting on the fragments, the Frozen Hartree-Fock method is also used to determine the collective potential at scission. Two 240 Pu fission channels ( 132 Sn + 108 Ru and 144 Ba + 96 Sr) are studied. Further, these two channels cover different shapes (spherical, quadrupole, and octupole deformation) of the fragments. It is found that the angular momentum generated by the Coulomb interaction after fission is mainly collective, while this is not the case for the angular momentum generated at scission. The competition between rotational modes (bending, wriggling, and twisting) is discussed and shows that the angular momentum is generated mainly perpendicular to the fission axis.