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  • 11
    Online Resource
    Online Resource
    Oxford University Press (OUP) ; 2021
    In:  Journal of Animal Science Vol. 99, No. Supplement_1 ( 2021-05-07), p. 18-19
    In: Journal of Animal Science, Oxford University Press (OUP), Vol. 99, No. Supplement_1 ( 2021-05-07), p. 18-19
    Abstract: Studies on differences in resilience to porcine reproductive and respiratory syndrome (PRRS) virus (PRRSV) between breeds are scarce in the literature. Thus, the objective of this work was to assess PRRSV resilience in PRRSV wild-type infected sows from two breeds. Farrowing data included 2546 and 2522 litters from 894 Duroc and 813 Landrace sows, respectively, which were housed together and experienced the same PRRSV outbreak. Traits used for this study were number of piglets born alive (NBA), number born dead (NBD), total number born (TNB), and number weaned (NW). The impact of PRRSV infection was evaluated by comparing the reproductive performance of breeds between PRRS phases (pre-PRRS, PRRS, and post-PRRS). PRRS phases were defined based on the reproductive performance data. NBA, NBD, and NW were analyzed as a proportion of TNB using a Poisson mixed model. Pre-defined contrasts were used to evaluate the effect of breed on PRRSV resilience and on return to PRRSV-free performance, representing the differences between breeds for the difference between pre-PRRS and PRRS phases, and pre-PRRS and post-PRRS phases, respectively. There was a significant (P ≤ 0.003) interaction between PRRS phase and breed for all traits, as shown in Table 1. In general, reproductive performance reduced from pre-PRRS to PRRS, and then increased from PRRS to post-PRRS, as expected. The resilience contrast was significant for all traits (P ≤ 0.003). In all cases, the drop in percent reproductive performance from pre-PRRS to PRRS was lower for Duroc than for Landrace, indicating that Duroc sows have greater PRRSV resilience than Landrace sows. The return to PRRSV-free performance contrast had a trending effect for NBD (P = 0.055), and it was not significant for the other traits (P ≥ 0.515). These results indicate that Duroc sows have overall greater phenotypic PRRSV resilience for reproductive performance than Landrace sows.
    Type of Medium: Online Resource
    ISSN: 0021-8812 , 1525-3163
    Language: English
    Publisher: Oxford University Press (OUP)
    Publication Date: 2021
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  • 12
    In: The Astronomical Journal, American Astronomical Society, Vol. 164, No. 4 ( 2022-10-01), p. 141-
    Abstract: We give an overview and describe the rationale, methods, and testing of the Hubble Space Telescope (HST) Archival Legacy project “SKYSURF.” SKYSURF uses HST’s unique capability as an absolute photometer to measure the ∼0.2–1.7 μ m sky-surface brightness (sky-SB) from 249,861 WFPC2, ACS, and WFC3 exposures in ∼1400 independent HST fields. SKYSURF’s panchromatic data set is designed to constrain the discrete and diffuse UV to near-IR sky components: Zodiacal Light (ZL), Kuiper Belt Objects (KBOs), Diffuse Galactic Light (DGL), and the discrete plus diffuse Extragalactic Background Light (EBL). We outline SKYSURF’s methods to: (1) measure sky-SB levels between detected objects; (2) measure the discrete EBL, most of which comes from AB≃17–22 mag galaxies; and (3) estimate how much truly diffuse light may exist. Simulations of HST WFC3/IR images with known sky values and gradients, realistic cosmic ray (CR) distributions, and star plus galaxy counts were processed with nine different algorithms to measure the “Lowest Estimated Sky-SB” (LES) in each image between the discrete objects. The best algorithms recover the LES values within 0.2% when there are no image gradients, and within 0.2%–0.4% when there are 5%–10% gradients. We provide a proof of concept of our methods from the WFC3/IR F125W images, where any residual diffuse light that HST sees in excess of zodiacal model predictions does not depend on the total object flux that each image contains. This enables us to present our first SKYSURF results on diffuse light in Carleton et al.
    Type of Medium: Online Resource
    ISSN: 0004-6256 , 1538-3881
    RVK:
    Language: Unknown
    Publisher: American Astronomical Society
    Publication Date: 2022
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  • 13
    In: The Astronomical Journal, American Astronomical Society, Vol. 164, No. 5 ( 2022-11-01), p. 170-
    Abstract: We present the first results from the HST Archival Legacy project “SKYSURF.” As described in Windhorst et al., SKYSURF utilizes the large HST archive to study the diffuse UV, optical, and near-IR backgrounds and foregrounds in detail. Here, we utilize SKYSURF’s first sky-surface-brightness measurements to constrain the level of near-IR diffuse Extragalactic Background Light (EBL) in three near-IR filters (F125W, F140W, and F160W). This is done by comparing our preliminary sky measurements of 〉 30,000 images to zodiacal light models, carefully selecting the darkest images to avoid contamination from stray light. Our sky-surface-brightness measurements have been verified to an accuracy of better than 1%, which when combined with systematic errors associated with HST, results in sky-brightness uncertainties of ∼ 2%–4% ≃ 0.005 MJy sr −1 in each image. When compared to the Kelsall et al. zodiacal model, an isotropic diffuse background of ∼30 nW m −2 sr −1 remains, whereas using the Wright zodiacal model results in no discernible diffuse background. Based primarily on uncertainties in the foreground model subtraction, we present limits on the amount of diffuse EBL of 29, 40, and 29 nW m −2 sr −1 , for F125W, F140W, and F160W, respectively. While this light is generally isotropic, our modeling at this point does not distinguish between a cosmological origin or a solar system origin (such as a dim, diffuse, spherical cloud of cometary dust).
    Type of Medium: Online Resource
    ISSN: 0004-6256 , 1538-3881
    RVK:
    Language: Unknown
    Publisher: American Astronomical Society
    Publication Date: 2022
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  • 14
    In: Proceedings of the National Academy of Sciences, Proceedings of the National Academy of Sciences, Vol. 117, No. 5 ( 2020-02-04), p. 2560-2569
    Abstract: De novo mutations (DNMs), or mutations that appear in an individual despite not being seen in their parents, are an important source of genetic variation whose impact is relevant to studies of human evolution, genetics, and disease. Utilizing high-coverage whole-genome sequencing data as part of the Trans-Omics for Precision Medicine (TOPMed) Program, we called 93,325 single-nucleotide DNMs across 1,465 trios from an array of diverse human populations, and used them to directly estimate and analyze DNM counts, rates, and spectra. We find a significant positive correlation between local recombination rate and local DNM rate, and that DNM rate explains a substantial portion (8.98 to 34.92%, depending on the model) of the genome-wide variation in population-level genetic variation from 41K unrelated TOPMed samples. Genome-wide heterozygosity does correlate with DNM rate, but only explains 〈 1% of variation. While we are underpowered to see small differences, we do not find significant differences in DNM rate between individuals of European, African, and Latino ancestry, nor across ancestrally distinct segments within admixed individuals. However, we did find significantly fewer DNMs in Amish individuals, even when compared with other Europeans, and even after accounting for parental age and sequencing center. Specifically, we found significant reductions in the number of C→A and T→C mutations in the Amish, which seem to underpin their overall reduction in DNMs. Finally, we calculated near-zero estimates of narrow sense heritability ( h 2 ), which suggest that variation in DNM rate is significantly shaped by nonadditive genetic effects and the environment.
    Type of Medium: Online Resource
    ISSN: 0027-8424 , 1091-6490
    RVK:
    RVK:
    Language: English
    Publisher: Proceedings of the National Academy of Sciences
    Publication Date: 2020
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  • 15
    In: Circulation, Ovid Technologies (Wolters Kluwer Health), Vol. 144, No. 23 ( 2021-12-07), p. 1845-1855
    Abstract: Despite advances in surgery and pharmacotherapy, there remains significant residual ischemic risk after coronary artery bypass grafting surgery. Methods: In REDUCE-IT (Reduction of Cardiovascular Events With Icosapent Ethyl–Intervention Trial), a multicenter, placebo-controlled, double-blind trial, statin-treated patients with controlled low-density lipoprotein cholesterol and mild to moderate hypertriglyceridemia were randomized to 4 g daily of icosapent ethyl or placebo. They experienced a 25% reduction in risk of a primary efficacy end point (composite of cardiovascular death, myocardial infarction, stroke, coronary revascularization, or hospitalization for unstable angina) and a 26% reduction in risk of a key secondary efficacy end point (composite of cardiovascular death, myocardial infarction, or stroke) when compared with placebo. The current analysis reports on the subgroup of patients from the trial with a history of coronary artery bypass grafting. Results: Of the 8179 patients randomized in REDUCE-IT, a total of 1837 (22.5%) had a history of coronary artery bypass grafting, with 897 patients randomized to icosapent ethyl and 940 to placebo. Baseline characteristics were similar between treatment groups. Randomization to icosapent ethyl was associated with a significant reduction in the primary end point (hazard ratio [HR], 0.76 [95% CI, 0.63–0.92] ; P =0.004), in the key secondary end point (HR, 0.69 [95% CI, 0.56–0.87]; P =0.001), and in total (first plus subsequent or recurrent) ischemic events (rate ratio, 0.64 [95% CI, 0.50–0.81]; P =0.0002) compared with placebo. This yielded an absolute risk reduction of 6.2% (95% CI, 2.3%–10.2%) in first events, with a number needed to treat of 16 (95% CI, 10–44) during a median follow-up time of 4.8 years. Safety findings were similar to the overall study: beyond an increased rate of atrial fibrillation/flutter requiring hospitalization for at least 24 hours (5.0% vs 3.1%; P =0.03) and a nonsignificant increase in bleeding, occurrences of adverse events were comparable between groups. Conclusions: In REDUCE-IT patients with a history of coronary artery bypass grafting, treatment with icosapent ethyl was associated with significant reductions in first and recurrent ischemic events. Registration: URL: https://www.clinicaltrials.gov ; Unique identifier: NCT01492361.
    Type of Medium: Online Resource
    ISSN: 0009-7322 , 1524-4539
    Language: English
    Publisher: Ovid Technologies (Wolters Kluwer Health)
    Publication Date: 2021
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  • 16
    In: Global Change Biology, Wiley, Vol. 26, No. 1 ( 2020-01), p. 119-188
    Abstract: Plant traits—the morphological, anatomical, physiological, biochemical and phenological characteristics of plants—determine how plants respond to environmental factors, affect other trophic levels, and influence ecosystem properties and their benefits and detriments to people. Plant trait data thus represent the basis for a vast area of research spanning from evolutionary biology, community and functional ecology, to biodiversity conservation, ecosystem and landscape management, restoration, biogeography and earth system modelling. Since its foundation in 2007, the TRY database of plant traits has grown continuously. It now provides unprecedented data coverage under an open access data policy and is the main plant trait database used by the research community worldwide. Increasingly, the TRY database also supports new frontiers of trait‐based plant research, including the identification of data gaps and the subsequent mobilization or measurement of new data. To support this development, in this article we evaluate the extent of the trait data compiled in TRY and analyse emerging patterns of data coverage and representativeness. Best species coverage is achieved for categorical traits—almost complete coverage for ‘plant growth form’. However, most traits relevant for ecology and vegetation modelling are characterized by continuous intraspecific variation and trait–environmental relationships. These traits have to be measured on individual plants in their respective environment. Despite unprecedented data coverage, we observe a humbling lack of completeness and representativeness of these continuous traits in many aspects. We, therefore, conclude that reducing data gaps and biases in the TRY database remains a key challenge and requires a coordinated approach to data mobilization and trait measurements. This can only be achieved in collaboration with other initiatives.
    Type of Medium: Online Resource
    ISSN: 1354-1013 , 1365-2486
    URL: Issue
    Language: English
    Publisher: Wiley
    Publication Date: 2020
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  • 17
    In: Nature Genetics, Springer Science and Business Media LLC, Vol. 54, No. 9 ( 2022-09), p. 1305-1319
    Abstract: To capture the full spectrum of genetic risk for autism, we performed a two-stage analysis of rare de novo and inherited coding variants in 42,607 autism cases, including 35,130 new cases recruited online by SPARK. We identified 60 genes with exome-wide significance ( P   〈  2.5 × 10 −6 ), including five new risk genes ( NAV3 , ITSN1 , MARK2 , SCAF1 and HNRNPUL2 ). The association of NAV3 with autism risk is primarily driven by rare inherited loss-of-function (LoF) variants, with an estimated relative risk of 4, consistent with moderate effect. Autistic individuals with LoF variants in the four moderate-risk genes ( NAV3 , ITSN1 , SCAF1 and HNRNPUL2 ; n  = 95) have less cognitive impairment than 129 autistic individuals with LoF variants in highly penetrant genes ( CHD8, SCN2A, ADNP, FOXP1 and SHANK3 ) (59% vs 88%, P  = 1.9 × 10 −6 ). Power calculations suggest that much larger numbers of autism cases are needed to identify additional moderate-risk genes.
    Type of Medium: Online Resource
    ISSN: 1061-4036 , 1546-1718
    RVK:
    Language: English
    Publisher: Springer Science and Business Media LLC
    Publication Date: 2022
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  • 18
    In: Global Ecology and Biogeography, Wiley, Vol. 30, No. 1 ( 2021-01), p. 25-37
    Abstract: Trait data are fundamental to the quantitative description of plant form and function. Although root traits capture key dimensions related to plant responses to changing environmental conditions and effects on ecosystem processes, they have rarely been included in large‐scale comparative studies and global models. For instance, root traits remain absent from nearly all studies that define the global spectrum of plant form and function. Thus, to overcome conceptual and methodological roadblocks preventing a widespread integration of root trait data into large‐scale analyses we created the Global Root Trait (GRooT) Database. GRooT provides ready‐to‐use data by combining the expertise of root ecologists with data mobilization and curation. Specifically, we (a) determined a set of core root traits relevant to the description of plant form and function based on an assessment by experts, (b) maximized species coverage through data standardization within and among traits, and (c) implemented data quality checks. Main types of variables contained GRooT contains 114,222 trait records on 38 continuous root traits. Spatial location and grain Global coverage with data from arid, continental, polar, temperate and tropical biomes. Data on root traits were derived from experimental studies and field studies. Time period and grain Data were recorded between 1911 and 2019. Major taxa and level of measurement GRooT includes root trait data for which taxonomic information is available. Trait records vary in their taxonomic resolution, with subspecies or varieties being the highest and genera the lowest taxonomic resolution available. It contains information for 184 subspecies or varieties, 6,214 species, 1,967 genera and 254 families. Owing to variation in data sources, trait records in the database include both individual observations and mean values. Software format GRooT includes two csv files. A GitHub repository contains the csv files and a script in R to query the database.
    Type of Medium: Online Resource
    ISSN: 1466-822X , 1466-8238
    URL: Issue
    Language: English
    Publisher: Wiley
    Publication Date: 2021
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  • 19
    In: Atmospheric Chemistry and Physics, Copernicus GmbH, Vol. 21, No. 2 ( 2021-01-21), p. 853-874
    Abstract: Abstract. This paper quantifies the pre-industrial (1850) to present-day (2014) effective radiative forcing (ERF) of anthropogenic emissions of NOX, volatile organic compounds (VOCs; including CO), SO2, NH3, black carbon, organic carbon, and concentrations of methane, N2O and ozone-depleting halocarbons, using CMIP6 models. Concentration and emission changes of reactive species can cause multiple changes in the composition of radiatively active species: tropospheric ozone, stratospheric ozone, stratospheric water vapour, secondary inorganic and organic aerosol, and methane. Where possible we break down the ERFs from each emitted species into the contributions from the composition changes. The ERFs are calculated for each of the models that participated in the AerChemMIP experiments as part of the CMIP6 project, where the relevant model output was available. The 1850 to 2014 multi-model mean ERFs (± standard deviations) are −1.03 ± 0.37 W m−2 for SO2 emissions, −0.25 ± 0.09 W m−2 for organic carbon (OC), 0.15 ± 0.17 W m−2 for black carbon (BC) and −0.07 ± 0.01 W m−2 for NH3. For the combined aerosols (in the piClim-aer experiment) it is −1.01 ± 0.25 W m−2. The multi-model means for the reactive well-mixed greenhouse gases (including any effects on ozone and aerosol chemistry) are 0.67 ± 0.17 W m−2 for methane (CH4), 0.26 ± 0.07 W m−2 for nitrous oxide (N2O) and 0.12 ± 0.2 W m−2 for ozone-depleting halocarbons (HC). Emissions of the ozone precursors nitrogen oxides (NOx), volatile organic compounds and both together (O3) lead to ERFs of 0.14 ± 0.13, 0.09 ± 0.14 and 0.20 ± 0.07 W m−2 respectively. The differences in ERFs calculated for the different models reflect differences in the complexity of their aerosol and chemistry schemes, especially in the case of methane where tropospheric chemistry captures increased forcing from ozone production.
    Type of Medium: Online Resource
    ISSN: 1680-7324
    Language: English
    Publisher: Copernicus GmbH
    Publication Date: 2021
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  • 20
    In: Canadian Medical Association Journal, CMA Impact Inc., Vol. 192, No. 14 ( 2020-04-06), p. E361-E369
    Type of Medium: Online Resource
    ISSN: 0820-3946 , 1488-2329
    Language: English
    Publisher: CMA Impact Inc.
    Publication Date: 2020
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