A 50 pc Scale View of Star Formation Efficiency across NGC 628

Star formation is a multi-scale process that requires tracing cloud formation and stellar feedback within the local (≲kpc) and global galaxy environment. We present first results from two large observing programs on the Atacama Large Millimeter/submillimeter Array (ALMA)and the Very Large Telescope/Multi Unit Spectroscopic Explorer(VLT/MUSE), mapping cloud scales (1″ = 47 pc) in both molecular gas and star-forming tracers across 90 kpc2 of the central disk of NGC 628 to probe the physics of star formation. Systematic spatial offsets between molecular clouds and H ii regions illustrate the time evolution of star-forming regions. Using uniform sampling of both maps on 50-500 pc scales, we infer molecular gas depletion times of 1-3 Gyr, but also find that the increase of scatter in the star formation relation on small scales is consistent with gas and H ii regions being only weakly correlated at the cloud (50 pc) scale. This implies a short overlap phase for molecular clouds and H ii regions, which we test by directly matching our catalog of 1502 H ii regions and 738 GMCs. We uncover only 74 objects in the overlap phase, and we find depletion times >1 Gyr, significantly longer than previously reported for individual star-forming clouds in the Milky Way. Finally, we find no clear trends that relate variations in the depletion time observed on 500 pc scales to physical drivers (metallicity, molecular and stellar-mass surface density, molecular gas boundedness) on 50 pc scales.We thank the referee for helpful comments that improved this work. K.K. gratefully acknowledges support from grant KR 4598/1-2 from the German Research Foundation (DFG) Priority Program 1573. J.M.D.K. and M.C. gratefully acknowledge funding from the DFG in the form of an Emmy Noether Research Group (grant No. KR4801/1-1). J.M.D.K. gratefully acknowledges funding from the European Research Council (ERC) under the European Union’s Horizon 2020 Research and Innovation Programme via the ERC Starting Grant MUSTANG (grant agreement No. 714907). B.G. gratefully acknowledges the support of the Australian Research Council as the recipient of a Future Fellowship (FT140101202). F.B. acknowledges funding from the European Union’s Horizon 2020 Research and Innovation Programme (grant agreement No. 726384—EMPIRE). G.B. is supported by CONICYT/ FONDECYT, Programa de Iniciación, Folio 11150220. A.H. acknowledges support from the Centre National d’Etudes Spatiales (CNES). E.R. acknowledges the support of the Natural Sciences and Engineering Research Council of Canada (NSERC), funding reference No. RGPIN-2017-03987. R.M. and E.S. acknowledge funding from the ERC under the European Union’s Horizon 2020 Research and Innovation Programme (grant agreement No. 694343). J.P. acknowledges support by the Programme National “Physique et Chimie du Milieu Interstellaire”(PCMI) of CNRS/INSU with INC/INP co-funded by CEA and CNES

Investigating the biological properties of carbohydrate derived fulvic acid (CHD-FA) as a potential novel therapy for the management of oral biofilm infections.

Background: A number of oral diseases, including periodontitis, derive from microbial biofilms and are associated with increased antimicrobial resistance. Despite the widespread use of mouthwashes being used as adjunctive measures to control these biofilms, their prolonged use is not recommended due to various side effects. Therefore, alternative broad-spectrum antimicrobials that minimise these effects are highly sought after. Carbohydrate derived fulvic acid (CHD-FA) is an organic acid which has previously demonstrated to be microbiocidal against Candida albicans biofilms, therefore, the aims of this study were to evaluate the antibacterial activity of CHD-FA against orally derived biofilms and to investigate adjunctive biological effects.<p></p> Methods: Minimum inhibitory concentrations were evaluated for CHD-FA and chlorhexidine (CHX) against a range of oral bacteria using standardised microdilution testing for planktonic and sessile. Scanning electron microscopy was also employed to visualise changes in oral biofilms after antimicrobial treatment. Cytotoxicity of these compounds was assessed against oral epithelial cells, and the effect of CHD-FA on host inflammatory markers was assessed by measuring mRNA and protein expression.<p></p> Results: CHD-FA was highly active against all of the oral bacteria tested, including Porphyromonas gingivalis, with a sessile minimum inhibitory concentration of 0.5%. This concentration was shown to kill multi-species biofilms by approximately 90%, levels comparable to that of chlorhexidine (CHX). In a mammalian cell culture model, pretreatment of epithelial cells with buffered CHD-FA was shown to significantly down-regulate key inflammatory mediators, including interleukin-8 (IL-8), after stimulation with a multi-species biofilm.<p></p> Conclusions: Overall, CHD-FA was shown to possess broad-spectrum antibacterial activity, with a supplementary function of being able to down-regulate inflammation. These properties offer an attractive spectrum of function from a naturally derived compound, which could be used as an alternative topical treatment strategy for oral biofilm diseases. Further studies in vitro and in vivo are required to determine the precise mechanism by which CHD-FA modulates the host immune response.<p></p&gt

PHANGS CO kinematics: disk orientations and rotation curves at 150 pc resolution

We present kinematic orientations and high resolution (150 pc) rotation curves for 67 main sequence star-forming galaxies surveyed in CO (2-1) emission by PHANGS-ALMA. Our measurements are based on the application of a new fitting method tailored to CO velocity fields. Our approach identifies an optimal global orientation as a way to reduce the impact of non-axisymmetric (bar and spiral) features and the uneven spatial sampling characteristic of CO emission in the inner regions of nearby galaxies. The method performs especially well when applied to the large number of independent lines-of-sight contained in the PHANGS CO velocity fields mapped at 1'' resolution. The high resolution rotation curves fitted to these data are sensitive probes of mass distribution in the inner regions of these galaxies. We use the inner slope as well as the amplitude of our fitted rotation curves to demonstrate that CO is a reliable global dynamical mass tracer. From the consistency between photometric orientations from the literature and kinematic orientations determined with our method, we infer that the shapes of stellar disks in the mass range of log($\rm M_{\star}(M_{\odot})$)=9.0-10.9 probed by our sample are very close to circular and have uniform thickness.Comment: 19 figures, 36 pages, accepted for publication in ApJ. Table of PHANGS rotation curves available from http://phangs.org/dat

FRA2A is a CGG repeat expansion associated with silencing of AFF3

Folate-sensitive fragile sites (FSFS) are a rare cytogenetically visible subset of dynamic mutations. Of the eight molecularly characterized FSFS, four are associated with intellectual disability (ID). Cytogenetic expression results from CGG tri-nucleotide-repeat expansion mutation associated with local CpG hypermethylation and transcriptional silencing. The best studied is the FRAXA site in the FMR1 gene, where large expansions cause fragile X syndrome, the most common inherited ID syndrome. Here we studied three families with FRA2A expression at 2q11 associated with a wide spectrum of neurodevelopmental phenotypes. We identified a polymorphic CGG repeat in a conserved, brain-active alternative promoter of the AFF3 gene, an autosomal homolog of the X-linked AFF2/FMR2 gene: Expansion of the AFF2 CGG repeat causes FRAXE ID. We found that FRA2A-expressing individuals have mosaic expansions of the AFF3 CGG repeat in the range of several hundred repeat units. Moreover, bisulfite sequencing and pyrosequencing both suggest AFF3 promoter hypermethylation. cSNP-analysis demonstrates monoallelic expression of the AFF3 gene in FRA2A carriers thus predicting that FRA2A expression results in functional haploinsufficiency for AFF3 at least in a subset of tissues. By whole-mount in situ hybridization the mouse AFF3 ortholog shows strong regional expression in the developing brain, somites and limb buds in 9.5-12.5dpc mouse embryos. Our data suggest that there may be an association between FRA2A and a delay in the acquisition of motor and language skills in the families studied here. However, additional cases are required to firmly establish a causal relationship

Differential limit on the extremely-high-energy cosmic neutrino flux in the presence of astrophysical background from nine years of IceCube data

We report a quasi-differential upper limit on the extremely-high-energy (EHE) neutrino flux above $5\times 10^{6}$ GeV based on an analysis of nine years of IceCube data. The astrophysical neutrino flux measured by IceCube extends to PeV energies, and it is a background flux when searching for an independent signal flux at higher energies, such as the cosmogenic neutrino signal. We have developed a new method to place robust limits on the EHE neutrino flux in the presence of an astrophysical background, whose spectrum has yet to be understood with high precision at PeV energies. A distinct event with a deposited energy above $10^{6}$ GeV was found in the new two-year sample, in addition to the one event previously found in the seven-year EHE neutrino search. These two events represent a neutrino flux that is incompatible with predictions for a cosmogenic neutrino flux and are considered to be an astrophysical background in the current study. The obtained limit is the most stringent to date in the energy range between $5 \times 10^{6}$ and $5 \times 10^{10}$ GeV. This result constrains neutrino models predicting a three-flavor neutrino flux of $E_\nu^2\phi_{\nu_e+\nu_\mu+\nu_\tau}\simeq2\times 10^{-8}\ {\rm GeV}/{\rm cm}^2\ \sec\ {\rm sr}$at$10^9\ {\rm GeV}$. A significant part of the parameter-space for EHE neutrino production scenarios assuming a proton-dominated composition of ultra-high-energy cosmic rays is excluded.Comment: The version accepted for publication in Physical Review

Reference Transcriptomes of Porcine Peripheral Immune Cells Created Through Bulk and Single-Cell RNA Sequencing

Pigs are a valuable human biomedical model and an important protein source supporting global food security. The transcriptomes of peripheral blood immune cells in pigs were defined at the bulk cell-type and single cell levels. First, eight cell types were isolated in bulk from peripheral blood mononuclear cells (PBMCs) by cell sorting, representing Myeloid, NK cells and specific populations of T and B-cells. Transcriptomes for each bulk population of cells were generated by RNA-seq with 10,974 expressed genes detected. Pairwise comparisons between cell types revealed specific expression, while enrichment analysis identified 1,885 to 3,591 significantly enriched genes across all 8 cell types. Gene Ontology analysis for the top 25% of significantly enriched genes (SEG) showed high enrichment of biological processes related to the nature of each cell type. Comparison of gene expression indicated highly significant correlations between pig cells and corresponding human PBMC bulk RNA-seq data available in Haemopedia. Second, higher resolution of distinct cell populations was obtained by single-cell RNA-sequencing (scRNA-seq) of PBMC. Seven PBMC samples were partitioned and sequenced that produced 28,810 single cell transcriptomes distributed across 36 clusters and classified into 13 general cell types including plasmacytoid dendritic cells (DC), conventional DCs, monocytes, B-cell, conventional CD4 and CD8 αβ T-cells, NK cells, and γδ T-cells. Signature gene sets from the human Haemopedia data were assessed for relative enrichment in genes expressed in pig cells and integration of pig scRNA-seq with a public human scRNA-seq dataset provided further validation for similarity between human and pig data. The sorted porcine bulk RNAseq dataset informed classification of scRNA-seq PBMC populations; specifically, an integration of the datasets showed that the pig bulk RNAseq data helped define the CD4CD8 double-positive T-cell populations in the scRNA-seq data. Overall, the data provides deep and well-validated transcriptomic data from sorted PBMC populations and the first single-cell transcriptomic data for porcine PBMCs. This resource will be invaluable for annotation of pig genes controlling immunogenetic traits as part of the porcine Functional Annotation of Animal Genomes (FAANG) project, as well as further study of, and development of new reagents for, porcine immunology

Urban biodiversity : State of the science and future directions

Since the 1990s, recognition of urban biodiversity research has increased steadily. Knowledge of how ecological communities respond to urban pressures can assist in addressing global questions related to biodiversity. To assess the state of this research field in meeting this aim, we conducted a systematic review of the urban biodiversity literature published since 1990. We obtained data from 1209 studies that sampled ecological communities representing 12 taxonomic groups. While advances have been made in the field over the last 30 years, we found that urban biodiversity research has primarily been conducted in single cities within the Palearctic and Nearctic realms, within forest remnants and residential locations, and predominantly surveys plants and birds, with significant gaps in research within the Global South and little integration of multi-species and multi-trophic interactions. Sample sizes remain limited in spatial and temporal scope, but citizen science and remote sensing resources have broadened these efforts. Analytical approaches still rely on taxonomic diversity to describe urban plant and animal communities, with increasing numbers of integrated phylogenetic and trait-based analyses. Despite the implementation of nature-based solutions across the world's cities, only 5% of studies link biodiversity to ecosystem function and services, pointing to substantial gaps in our understanding of such solutions. We advocate for future research that encompasses a greater diversity of taxonomic groups and urban systems, focusing on biodiversity hotspots. Implementing such research would enable researchers to move forward in an equitable and multidisciplinary way to tackle the complex issues facing global urban biodiversity.Peer reviewe

Dynamical Equilibrium in the Molecular ISM in 28 Nearby Star-forming Galaxies

We compare the observed turbulent pressure in molecular gas, P_(turb), to the required pressure for the interstellar gas to stay in equilibrium in the gravitational potential of a galaxy, P_(DE). To do this, we combine arcsecond resolution CO data from PHANGS-ALMA with multiwavelength data that trace the atomic gas, stellar structure, and star formation rate (SFR) for 28 nearby star-forming galaxies. We find that P_(turb) correlates with—but almost always exceeds—the estimated P_(DE) on kiloparsec scales. This indicates that the molecular gas is overpressurized relative to the large-scale environment. We show that this overpressurization can be explained by the clumpy nature of molecular gas; a revised estimate of P_(DE) on cloud scales, which accounts for molecular gas self-gravity, external gravity, and ambient pressure, agrees well with the observed P_(turb) in galaxy disks. We also find that molecular gas with cloud-scale P_(turb) ≈ P_(DE) ≳ 10⁵ kB K cm⁻³ in our sample is more likely to be self-gravitating, whereas gas at lower pressure it appears more influenced by ambient pressure and/or external gravity. Furthermore, we show that the ratio between P_(turb) and the observed SFR surface density, Σ_(SFR), is compatible with stellar feedback-driven momentum injection in most cases, while a subset of the regions may show evidence of turbulence driven by additional sources. The correlation between Σ_(SFR) and kpc-scale P_(DE) in galaxy disks is consistent with the expectation from self-regulated star formation models. Finally, we confirm the empirical correlation between molecular-to-atomic gas ratio and kpc-scale P_(DE) reported in previous works