Large-Scale Release of Campylobacter Draft Genomes: Resources for Food Safety and Public Health from the 100K Pathogen Genome Project.

Campylobacter is a food-associated bacterium and a leading cause of foodborne illness worldwide, being associated with poultry in the food supply. This is the initial public release of 202 Campylobacter genome sequences as part of the 100K Pathogen Genome Project. These isolates represent global genomic diversity in the Campylobacter genus

Direct in situ spectroscopic evidence of the crucial role played by surface oxygen vacancies in the O2-sensing mechanism of SnO2

NAP-XPS characterisation of SnO2 under operando conditions shows that resistance change, band bending and surface O-vacancy concentration are correlated with ambient O2 concentration, challenging current preconceptions of gas sensor function

First Light And Reionisation Epoch Simulations (FLARES) XIII: the Lyman-continuum emission of high-redshift galaxies

The history of reionisation is highly dependent on the ionising properties of high-redshift galaxies. It is therefore important to have a solid understanding of how the ionising properties of galaxies are linked to physical and observable quantities. In this paper, we use the First Light and Reionisation Epoch Simulations (FLARES) to study the Lyman-continuum (LyC, i.e. hydrogen-ionising) emission of massive ($M_*>10^8\,\mathrm{M_\odot}$) galaxies at redshifts $z=5-10$. We find that the specific ionising emissivity (i.e. intrinsic ionising emissivity per unit stellar mass) decreases as stellar mass increases, due to the combined effects of increasing age and metallicity. FLARES predicts a median ionising photon production efficiency (i.e. intrinsic ionising emissivity per unit intrinsic far-UV luminosity) of $\log_{10}(\xi_{\rm ion}\rm{/erg^{-1}Hz})=25.40^{+0.16}_{-0.17}$, with values spanning the range $\log_{10}(\xi_{\rm ion}\rm{/erg^{-1}Hz})=25-25.75$. This is within the range of many observational estimates, but below some of the extremes observed. We compare the production efficiency with observable properties, and find a weak negative correlation with the UV-continuum slope, and a positive correlation with the OIII equivalent width. We also consider the dust-attenuated production efficiency (i.e. intrinsic ionising emissivity per unit dust-attenuated far-UV luminosity), and find a median of $\log_{10}(\xi_{\rm ion}\rm{/erg^{-1}Hz})\sim25.5$. Within our sample of $M_*>10^8\,\mathrm{M_\odot}$ galaxies, it is the stellar populations in low mass galaxies that contribute the most to the total ionising emissivity. Active galactic nuclei (AGN) emission accounts for $10-20$ % of the total emissivity at a given redshift, and extends the LyC luminosity function by $\sim0.5$ dex.Comment: 18 pages, 17 figures, submitted to MNRA

Direct in situ spectroscopic evidence of the crucial role played by surface oxygen vacancies in the O2-sensing mechanism of SnO2

Conductometric gas sensors (CGS) provide a reproducible gas response at a low cost but their operation mechanisms are still not fully understood. In this paper, we elucidate the nature of interactions between SnO2, a common gas-sensitive material, and O2, a ubiquitous gas central to the detection mechanisms of CGS. Using synchrotron radiation, we investigated a working SnO2 sensor under operando conditions via near-ambient pressure (NAP) XPS with simultaneous resistance measurements, and created a depth profile of the variable near-surface stoichiometry of SnO2−x as a function of O2 pressure. Our results reveal a correlation between the dynamically changing surface oxygen vacancies and the resistance response in SnO2-based CGS. While oxygen adsorbates were observed in this study we conclude that these are an intermediary in oxygen transport between the gas phase and the lattice, and that surface oxygen vacancies, not the observed oxygen adsorbates, are central to response generation in SnO2-based gas sensors

Genome-wide interaction study of a proxy for stress-sensitivity and its prediction of major depressive disorder

Individual response to stress is correlated with neuroticism and is an important predictor of both neuroticism and the onset of major depressive disorder (MDD). Identification of the genetics underpinning individual differences in response to negative events (stress-sensitivity) may improve our understanding of the molecular pathways involved, and its association with stress-related illnesses. We sought to generate a proxy for stress-sensitivity through modelling the interaction between SNP allele and MDD status on neuroticism score in order to identify genetic variants that contribute to the higher neuroticism seen in individuals with a lifetime diagnosis of depression compared to unaffected individuals. Meta-analysis of genome-wide interaction studies (GWIS) in UK Biobank (N = 23,092) and Generation Scotland: Scottish Family Health Study (N = 7,155) identified no genome-wide significance SNP interactions. However, gene-based tests identified a genome-wide significant gene, ZNF366, a negative regulator of glucocorticoid receptor function implicated in alcohol dependence (p = 1.48x10-7; Bonferroni-corrected significance threshold p < 2.79x10-6). Using summary statistics from the stress-sensitivity term of the GWIS, SNP heritability for stress-sensitivity was estimated at 5.0%. In models fitting polygenic risk scores of both MDD and neuroticism derived from independent GWAS, we show that polygenic risk scores derived from the UK Biobank stress-sensitivity GWIS significantly improved the prediction of MDD in Generation Scotland. This study may improve interpretation of larger genome-wide association studies of MDD and other stress-related illnesses, and the understanding of the etiological mechanisms underpinning stress-sensitivity

Does Childhood Trauma Moderate Polygenic Risk for Depression? A Meta-analysis of 5765 Subjects From the Psychiatric Genomics Consortium.

BackgroundThe heterogeneity of genetic effects on major depressive disorder (MDD) may be partly attributable to moderation of genetic effects by environment, such as exposure to childhood trauma (CT). Indeed, previous findings in two independent cohorts showed evidence for interaction between polygenic risk scores (PRSs) and CT, albeit in opposing directions. This study aims to meta-analyze MDD-PRS × CT interaction results across these two and other cohorts, while applying more accurate PRSs based on a larger discovery sample.MethodsData were combined from 3024 MDD cases and 2741 control subjects from nine cohorts contributing to the MDD Working Group of the Psychiatric Genomics Consortium. MDD-PRS were based on a discovery sample of ∼110,000 independent individuals. CT was assessed as exposure to sexual or physical abuse during childhood. In a subset of 1957 cases and 2002 control subjects, a more detailed five-domain measure additionally included emotional abuse, physical neglect, and emotional neglect.ResultsMDD was associated with the MDD-PRS (odds ratio [OR] = 1.24, p = 3.6 × 10-5, R2 = 1.18%) and with CT (OR = 2.63, p = 3.5 × 10-18 and OR = 2.62, p = 1.4 ×10-5 for the two- and five-domain measures, respectively). No interaction was found between MDD-PRS and the two-domain and five-domain CT measure (OR = 1.00, p = .89 and OR = 1.05, p = .66).ConclusionsNo meta-analytic evidence for interaction between MDD-PRS and CT was found. This suggests that the previously reported interaction effects, although both statistically significant, can best be interpreted as chance findings. Further research is required, but this study suggests that the genetic heterogeneity of MDD is not attributable to genome-wide moderation of genetic effects by CT