| 1. |
- Abdalla, H., et al.
(författare)
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Sensitivity of the Cherenkov Telescope Array for probing cosmology and fundamental physics with gamma-ray propagation
- 2021
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Ingår i: Journal of Cosmology and Astroparticle Physics. - : Institute of Physics Publishing (IOPP). - 1475-7516. ; :2
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Tidskriftsartikel (refereegranskat)abstract
- The Cherenkov Telescope Array (CTA), the new-generation ground-based observatory for gamma-ray astronomy, provides unique capabilities to address significant open questions in astrophysics, cosmology, and fundamental physics. We study some of the salient areas of gamma-ray cosmology that can be explored as part of the Key Science Projects of CTA, through simulated observations of active galactic nuclei (AGN) and of their relativistic jets. Observations of AGN with CTA will enable a measurement of gamma-ray absorption on the extragalactic background light with a statistical uncertainty below 15% up to a redshift z = 2 and to constrain or detect gamma-ray halos up to intergalactic-magnetic-field strengths of at least 0.3 pG. Extragalactic observations with CTA also show promising potential to probe physics beyond the Standard Model. The best limits on Lorentz invariance violation from gamma-ray astronomy will be improved by a factor of at least two to three. CTA will also probe the parameter space in which axion-like particles could constitute a significant fraction, if not all, of dark matter. We conclude on the synergies between CTA and other upcoming facilities that will foster the growth of gamma-ray cosmology.
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| 2. |
- Abdalla, H., et al.
(författare)
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TeV Emission of Galactic Plane Sources with HAWC and HESS
- 2021
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Ingår i: Astrophysical Journal. - : Institute of Physics Publishing (IOPP). - 0004-637X .- 1538-4357. ; 917:1
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Tidskriftsartikel (refereegranskat)abstract
- The High Altitude Water Cherenkov (HAWC) observatory and the High Energy Stereoscopic System (H.E.S.S.) are two leading instruments in the ground-based very-high-energy gamma-ray domain. HAWC employs the water Cherenkov detection (WCD) technique, while H.E.S.S. is an array of Imaging Atmospheric Cherenkov Telescopes (IACTs). The two facilities therefore differ in multiple aspects, including their observation strategy, the size of their field of view, and their angular resolution, leading to different analysis approaches. Until now, it has been unclear if the results of observations by both types of instruments are consistent: several of the recently discovered HAWC sources have been followed up by IACTs, resulting in a confirmed detection only in a minority of cases. With this paper, we go further and try to resolve the tensions between previous results by performing a new analysis of the H.E.S.S. Galactic plane survey data, applying an analysis technique comparable between H.E.S.S. and HAWC. Events above 1 TeV are selected for both data sets, the point-spread function of H.E.S.S. is broadened to approach that of HAWC, and a similar background estimation method is used. This is the first detailed comparison of the Galactic plane observed by both instruments. H.E.S.S. can confirm the gamma-ray emission of four HAWC sources among seven previously undetected by IACTs, while the three others have measured fluxes below the sensitivity of the H.E.S.S. data set. Remaining differences in the overall gamma-ray flux can be explained by the systematic uncertainties. Therefore, we confirm a consistent view of the gamma-ray sky between WCD and IACT techniques.
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| 3. |
- Sabatini, F. M., et al.
(författare)
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sPlotOpen - An environmentally balanced, open-access, global dataset of vegetation plots
- 2021
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Ingår i: Global Ecology and Biogeography. - : Wiley. - 1466-822X .- 1466-8238.
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Tidskriftsartikel (refereegranskat)abstract
- Motivation Assessing biodiversity status and trends in plant communities is critical for understanding, quantifying and predicting the effects of global change on ecosystems. Vegetation plots record the occurrence or abundance of all plant species co-occurring within delimited local areas. This allows species absences to be inferred, information seldom provided by existing global plant datasets. Although many vegetation plots have been recorded, most are not available to the global research community. A recent initiative, called 'sPlot', compiled the first global vegetation plot database, and continues to grow and curate it. The sPlot database, however, is extremely unbalanced spatially and environmentally, and is not open-access. Here, we address both these issues by (a) resampling the vegetation plots using several environmental variables as sampling strata and (b) securing permission from data holders of 105 local-to-regional datasets to openly release data. We thus present sPlotOpen, the largest open-access dataset of vegetation plots ever released. sPlotOpen can be used to explore global diversity at the plant community level, as ground truth data in remote sensing applications, or as a baseline for biodiversity monitoring. Main types of variable contained Vegetation plots (n = 95,104) recording cover or abundance of naturally co-occurring vascular plant species within delimited areas. sPlotOpen contains three partially overlapping resampled datasets (c. 50,000 plots each), to be used as replicates in global analyses. Besides geographical location, date, plot size, biome, elevation, slope, aspect, vegetation type, naturalness, coverage of various vegetation layers, and source dataset, plot-level data also include community-weighted means and variances of 18 plant functional traits from the TRY Plant Trait Database. Spatial location and grain Global, 0.01-40,000 m(2). Time period and grain 1888-2015, recording dates. Major taxa and level of measurement 42,677 vascular plant taxa, plot-level records. Software format Three main matrices (.csv), relationally linked.
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| 4. |
- Gilmore, G., et al.
(författare)
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The Gaia-ESO Public Spectroscopic Survey : Motivation, implementation, GIRAFFE data processing, analysis, and final data products star
- 2022
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Ingår i: Astronomy and Astrophysics. - : EDP Sciences. - 0004-6361 .- 1432-0746. ; 666
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Tidskriftsartikel (refereegranskat)abstract
- Context. The Gaia-ESO Public Spectroscopic Survey is an ambitious project designed to obtain astrophysical parameters and elemental abundances for 100 000 stars, including large representative samples of the stellar populations in the Galaxy, and a well-defined sample of 60 (plus 20 archive) open clusters. We provide internally consistent results calibrated on benchmark stars and star clusters, extending across a very wide range of abundances and ages. This provides a legacy data set of intrinsic value, and equally a large wide-ranging dataset that is of value for the homogenisation of other and future stellar surveys and Gaia's astrophysical parameters. Aims. This article provides an overview of the survey methodology, the scientific aims, and the implementation, including a description of the data processing for the GIRAFFE spectra. A companion paper introduces the survey results. Methods. Gaia-ESO aspires to quantify both random and systematic contributions to measurement uncertainties. Thus, all available spectroscopic analysis techniques are utilised, each spectrum being analysed by up to several different analysis pipelines, with considerable effort being made to homogenise and calibrate the resulting parameters. We describe here the sequence of activities up to delivery of processed data products to the ESO Science Archive Facility for open use. Results. The Gaia-ESO Survey obtained 202 000 spectra of 115 000 stars using 340 allocated VLT nights between December 2011 and January 2018 from GIRAFFE and UVES. Conclusions. The full consistently reduced final data set of spectra was released through the ESO Science Archive Facility in late 2020, with the full astrophysical parameters sets following in 2022. A companion article reviews the survey implementation, scientific highlights, the open cluster survey, and data products.
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| 5. |
- Randich, S., et al.
(författare)
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The Gaia-ESO Public Spectroscopic Survey : Implementation, data products, open cluster survey, science, and legacy
- 2022
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Ingår i: Astronomy and Astrophysics. - : EDP SCIENCES S A. - 0004-6361 .- 1432-0746. ; 666
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Tidskriftsartikel (refereegranskat)abstract
- Context. In the last 15 years different ground-based spectroscopic surveys have been started (and completed) with the general aim of delivering stellar parameters and elemental abundances for large samples of Galactic stars, complementing Gaia astrometry. Among those surveys, the Gaia-ESO Public Spectroscopic Survey, the only one performed on a 8m class telescope, was designed to target 100 000 stars using FLAMES on the ESO VLT (both Giraffe and UVES spectrographs), covering all the Milky Way populations, with a special focus on open star clusters. Aims. This article provides an overview of the survey implementation (observations, data quality, analysis and its success, data products, and releases), of the open cluster survey, of the science results and potential, and of the survey legacy. A companion article reviews the overall survey motivation, strategy, Giraffe pipeline data reduction, organisation, and workflow. Methods. We made use of the information recorded and archived in the observing blocks; during the observing runs; in a number of relevant documents; in the spectra and master catalogue of spectra; in the parameters delivered by the analysis nodes and the working groups; in the final catalogue; and in the science papers. Based on these sources, we critically analyse and discuss the output and products of the Survey, including science highlights. We also determined the average metallicities of the open clusters observed as science targets and of a sample of clusters whose spectra were retrieved from the ESO archive. Results. The Gaia-ESO Survey has determined homogeneous good-quality radial velocities and stellar parameters for a large fraction of its more than 110 000 unique target stars. Elemental abundances were derived for up to 31 elements for targets observed with UVES. Lithium abundances are delivered for about 1/3 of the sample. The analysis and homogenisation strategies have proven to be successful; several science topics have been addressed by the Gaia-ESO consortium and the community, with many highlight results achieved. Conclusions. The final catalogue will be released through the ESO archive in the first half of 2022, including the complete set of advanced data products. In addition to these results, the Gaia-ESO Survey will leave a very important legacy, for several aspects and for many years to come.
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| 6. |
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| 7. |
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The Seventeenth Data Release of the Sloan Digital Sky Surveys : Complete Release of MaNGA, MaStar, and APOGEE-2 Data
- 2022
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Ingår i: Astrophysical Journal Supplement Series. - : Institute of Physics (IOP). - 0067-0049 .- 1538-4365. ; 259:2
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Tidskriftsartikel (refereegranskat)abstract
- This paper documents the seventeenth data release (DR17) from the Sloan Digital Sky Surveys; the fifth and final release from the fourth phase (SDSS-IV). DR17 contains the complete release of the Mapping Nearby Galaxies at Apache Point Observatory (MaNGA) survey, which reached its goal of surveying over 10,000 nearby galaxies. The complete release of the MaNGA Stellar Library accompanies this data, providing observations of almost 30,000 stars through the MaNGA instrument during bright time. DR17 also contains the complete release of the Apache Point Observatory Galactic Evolution Experiment 2 survey that publicly releases infrared spectra of over 650,000 stars. The main sample from the Extended Baryon Oscillation Spectroscopic Survey (eBOSS), as well as the subsurvey Time Domain Spectroscopic Survey data were fully released in DR16. New single-fiber optical spectroscopy released in DR17 is from the SPectroscipic IDentification of ERosita Survey subsurvey and the eBOSS-RM program. Along with the primary data sets, DR17 includes 25 new or updated value-added catalogs. This paper concludes the release of SDSS-IV survey data. SDSS continues into its fifth phase with observations already underway for the Milky Way Mapper, Local Volume Mapper, and Black Hole Mapper surveys.
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| 8. |
- Gerkin, RC, et al.
(författare)
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The best COVID-19 predictor is recent smell loss: a cross-sectional study
- 2020
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Ingår i: medRxiv : the preprint server for health sciences. - : Cold Spring Harbor Laboratory.
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Tidskriftsartikel (övrigt vetenskapligt/konstnärligt)abstract
- BackgroundCOVID-19 has heterogeneous manifestations, though one of the most common symptoms is a sudden loss of smell (anosmia or hyposmia). We investigated whether olfactory loss is a reliable predictor of COVID-19.MethodsThis preregistered, cross-sectional study used a crowdsourced questionnaire in 23 languages to assess symptoms in individuals self-reporting recent respiratory illness. We quantified changes in chemosensory abilities during the course of the respiratory illness using 0-100 visual analog scales (VAS) for participants reporting a positive (C19+; n=4148) or negative (C19-; n=546) COVID-19 laboratory test outcome. Logistic regression models identified singular and cumulative predictors of COVID-19 status and post-COVID-19 olfactory recovery.ResultsBoth C19+ and C19-groups exhibited smell loss, but it was significantly larger in C19+ participants (mean±SD, C19+: -82.5±27.2 points; C19-: -59.8±37.7). Smell loss during illness was the best predictor of COVID-19 in both single and cumulative feature models (ROC AUC=0.72), with additional features providing negligible model improvement. VAS ratings of smell loss were more predictive than binary chemosensory yes/no-questions or other cardinal symptoms, such as fever or cough. Olfactory recovery within 40 days was reported for ∼50% of participants and was best predicted by time since illness onset.ConclusionsAs smell loss is the best predictor of COVID-19, we developed the ODoR-19 tool, a 0-10 scale to screen for recent olfactory loss. Numeric ratings ≤2 indicate high odds of symptomatic COVID-19 (4<OR<10), which can be deployed when viral lab tests are impractical or unavailable.
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| 9. |
- Bragaglia, A., et al.
(författare)
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The Gaia-ESO Survey : Target selection of open cluster stars & x22c6
- 2022
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Ingår i: Astronomy and Astrophysics. - : EDP Sciences. - 0004-6361 .- 1432-0746. ; 659
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Tidskriftsartikel (refereegranskat)abstract
- Context. The Gaia-ESO Survey (GES) is a public, high-resolution spectroscopic survey, conducted with the multi-object spectrograph Fibre Large Array Multi Element Spectrograph (FLAMES) on the Very Large Telescope (European Southern Observatory, ESO, Cerro Paranal, Chile) from December 2011 to January 2018. Gaia-ESO has targeted all the main stellar components of the Milky Way, including thin and thick disc, bulge, and halo. In particular, a large sample of open clusters has been observed, from very young ones, just out of the embedded phase, to very old ones. Aims. The different kinds of clusters and stars targeted in them are useful to reach the main science goals of the open cluster part of GES, which are the study of the open cluster structure and dynamics, the use of open clusters to constrain and improve stellar evolution models, and the definition of Galactic disc properties (e.g., metallicity distribution). Methods. The Gaia-ESO Survey is organised in 19 working groups (WGs), each one being responsible for a task. We describe here the work of three of them, one in charge of the selection of the targets within each cluster or association (WG4), one responsible for defining the most probable candidate member stars (WG1), and another one in charge of the preparation of the observations (WG6). As the entire GES has been conducted before the second Gaia data release, we could not make use of the Gaia astrometry to define cluster member candidates. We made use of public and private photometry to select the stars to be observed with FLAMES, once brought on a common astrometric system (the one defined by 2MASS). Candidate target selection was based on ground-based proper motions, radial velocities, and X-ray properties when appropriate, for example, and it was mostly used to define the position of the clusters' evolutionary sequences in the colour-magnitude diagrams. Targets for GIRAFFE were then selected near the sequences in an unbiased way. We used known information on membership, when available, only for the few stars to be observed with UVES. Results. We collected spectra for 62 confirmed clusters in the main observing campaign (and a few more clusters were taken from the ESO archive). Among them are very young clusters, where the main targets are pre-main sequence stars, clusters with very hot and massive stars currently on the main sequence, intermediate-age and old clusters where evolved stars are the main targets. Our strategy of making the selection of targets as inclusive and unbiased as possible and of observing a significant and representative fraction of all possible targets permitted us to collect the largest, most accurate, and most homogeneous spectroscopic data set on open star clusters ever achieved.
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| 10. |
- Worley, C. C., et al.
(författare)
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The Gaia-ESO Survey : The DR5 analysis of the medium-resolution GIRAFFE and high-resolution UVES spectra of FGK-type stars
- 2024
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Ingår i: Astronomy and Astrophysics. - 0004-6361 .- 1432-0746. ; 684
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Tidskriftsartikel (refereegranskat)abstract
- The Gaia-ESO Survey is an European Southern Observatory (ESO) public spectroscopic survey that targeted 105 stars in the Milky Way covering the major populations of the disk, bulge and halo. The observations were made using FLAMES on the VLT obtaining both UVES high (R ~ 47 000) and GIRAFFE medium (R ~ 20 000) resolution spectra. The analysis of the Gaia-ESO spectra was the work of multiple analysis teams (nodes) within five working groups (WG). The homogenisation of the stellar parameters within WG11 (high resolution observations of FGK stars) and the homogenisation of the stellar parameters within WG10 (medium resolution observations of FGK stars) is described here. In both cases, the homogenisation was carried out using a Bayesian Inference method developed specifically for the Gaia-ESO Survey by WG11. The method was also used for the chemical abundance homogenisation within WG11, however, the WG10 chemical abundance data set was too sparsely populated so basic corrections for each node analysis were employed for the homogenisation instead. The WG10 homogenisation primarily used the cross-match of stars with WG11 as the reference set in both the stellar parameter and chemical abundance homogenisation. In this way the WG10 homogenised results have been placed directly onto the WG11 stellar parameter and chemical abundance scales. The reference set for the metal-poor end was sparse which limited the effectiveness of the homogenisation in that regime. For WG11, the total number of stars for which stellar parameters were derived was 6 231 with typical uncertainties for Teff, log g and [Fe/H] of 32 K, 0.05 and 0.05 respectively. One or more chemical abundances out of a possible 39 elements were derived for 6 188 of the stars. For WG10, the total number of stars for which stellar parameters were derived was 76 675 with typical uncertainties for Teff, log g and [Fe/H] of 64 K, 0.15 and 0.07 respectively. One or more chemical abundances out of a possible 30 elements were derived for 64177 of the stars.
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| 11. |
- Babich, T, et al.
(författare)
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Ceftazidime, Carbapenems, or Piperacillin-tazobactam as Single Definitive Therapy for Pseudomonas aeruginosa Bloodstream Infection: A Multisite Retrospective Study
- 2020
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Ingår i: Clinical infectious diseases : an official publication of the Infectious Diseases Society of America. - : Oxford University Press (OUP). - 1537-6591. ; 70:11, s. 2270-2280
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Tidskriftsartikel (refereegranskat)abstract
- BackgroundThe optimal antibiotic regimen for Pseudomonas aeruginosa bacteremia is controversial. Although β-lactam monotherapy is common, data to guide the choice between antibiotics are scarce. We aimed to compare ceftazidime, carbapenems, and piperacillin-tazobactam as definitive monotherapy.MethodsA multinational retrospective study (9 countries, 25 centers) including 767 hospitalized patients with P. aeruginosa bacteremia treated with β-lactam monotherapy during 2009–2015. The primary outcome was 30-day all-cause mortality. Univariate and multivariate, including propensity-adjusted, analyses were conducted introducing monotherapy type as an independent variable.ResultsThirty-day mortality was 37/213 (17.4%), 42/210 (20%), and 55/344 (16%) in the ceftazidime, carbapenem, and piperacillin-tazobactam groups, respectively. Type of monotherapy was not significantly associated with mortality in either univariate, multivariate, or propensity-adjusted analyses (odds ratio [OR], 1.14; 95% confidence interval [CI], 0.52–2.46, for ceftazidime; OR, 1.3; 95% CI, 0.67–2.51, for piperacillin-tazobactam, with carbapenems as reference in propensity adjusted multivariate analysis; 542 patients). No significant difference between antibiotics was demonstrated for clinical failure, microbiological failure, or adverse events. Isolation of P. aeruginosa with new resistance to antipseudomonal drugs was significantly more frequent with carbapenems (36/206 [17.5%]) versus ceftazidime (25/201 [12.4%]) and piperacillin-tazobactam (28/332 [8.4%] (P = .007).ConclusionsNo significant difference in mortality, clinical, and microbiological outcomes or adverse events was demonstrated between ceftazidime, carbapenems, and piperacillin-tazobactam as definitive treatment of P. aeruginosa bacteremia. Higher rates of resistant P. aeruginosa after patients were treated with carbapenems, along with the general preference for carbapenem-sparing regimens, suggests using ceftazidime or piperacillin-tazobactam for treating susceptible infection.
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| 12. |
- Gutiérrez Albarrán, M. L., et al.
(författare)
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The Gaia-ESO Survey : Calibrating the lithium–age relation with open clusters and associations
- 2024
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Ingår i: Astronomy and Astrophysics. - 0004-6361. ; 685
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Tidskriftsartikel (refereegranskat)abstract
- Context. The Li abundance observed in pre-main sequence and main sequence late-type stars is strongly age-dependent, but also shows a complex pattern depending on several parameters, such as rotation, chromospheric activity, and metallicity. The best way to calibrate these effects, and with the aim of studying Li as an age indicator for FGK stars, is to calibrate coeval groups of stars, such as open clusters (OCs) and associations. Aims. We present a considerable target sample of 42 OCs and associations – with an age range from 1 Myr to 5 Gyr – observed within the Gaia-ESO survey (GES), and using the latest data provided by GES iDR6 and the most recent release of Gaia that was then available, EDR3. As part of this study, we update and improve the membership analysis for all 20 OCs presented in our previous article. Methods. We perform detailed membership analyses for all target clusters to identify likely candidates, using all available parameters provided by GES, complemented with detailed bibliographical searches, and based on numerous criteria: from radial velocity distributions, to the astrometry (proper motions and parallaxes) and photometry provided by Gaia, to gravity indicators (log g and the ? index), [Fe/H] metallicity, and Li content in diagrams of (Li equivalent widths) EW(Li) versus Teff. Results. We obtain updated lists of cluster members for the whole target sample, as well as a selection of Li-rich giant contaminants obtained as an additional result of the membership process. Each selection of cluster candidates was thoroughly contrasted with numerous existing membership studies using data from Gaia to ensure the most robust results. Conclusions. These final cluster selections will be used in the third and last paper of this series, which reports the results of a comparative study characterising the observable Li dispersion in each cluster and analysing its dependence on several parameters, allowing us to calibrate a Li–age relation and obtain a series of empirical Li envelopes for key ages in our sample.
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| 13. |
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| 14. |
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| 15. |
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| 16. |
- Baratella, M., et al.
(författare)
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The Gaia-ESO Survey : a new approach to chemically characterising young open clusters I. Stellar parameters, and iron-peak, alpha-, and proton-capture elements
- 2020
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Ingår i: Astronomy and Astrophysics. - : EDP SCIENCES S A. - 0004-6361 .- 1432-0746. ; 634
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Tidskriftsartikel (refereegranskat)abstract
- Context: Open clusters are recognised as excellent tracers of Galactic thin-disc properties. At variance with intermediate-age and old open clusters, for which a significant number of studies is now available, clusters younger than less than or similar to 150 Myr have been mostly overlooked in terms of their chemical composition until recently (with few exceptions). On the other hand, previous investigations seem to indicate an anomalous behaviour of young clusters, which includes (but is not limited to) slightly sub-solar iron (Fe) abundances and extreme, unexpectedly high barium (Ba) enhancements.Aims: In a series of papers, we plan to expand our understanding of this topic and investigate whether these chemical peculiarities are instead related to abundance analysis techniques.Methods: We present a new determination of the atmospheric parameters for 23 dwarf stars observed by the Gaia-ESO survey in five young open clusters (tau < 150 Myr) and one star-forming region (NGC 2264). We exploit a new method based on titanium (Ti) lines to derive the spectroscopic surface gravity, and most importantly, the microturbulence parameter. A combination of Ti and Fe lines is used to obtain effective temperatures. We also infer the abundances of Fe I, Fe II, Tit, Tin,Na I, Mg I, Al I,Sit, Ca I, Cr I, and Ni I.Results: Our findings are in fair agreement with Gaia-ESO iDR5 results for effective temperatures and surface gravities, but suggest that for very young stars, the microturbulence parameter is over-estimated when Fe lines are employed. This affects the derived chemical composition and causes the metal content of very young clusters to be under-estimated.Conclusions: Our clusters display a metallicity [Fe/H] between +0.04 +/- 0.01 and +0.12 +/- 0.02; they are not more metal poor than the Sun. Although based on a relatively small sample size, our explorative study suggests that we may not need to call for ad hoc explanations to reconcile the chemical composition of young open clusters with Galactic chemical evolution models.
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| 17. |
- Bedran, Georges, et al.
(författare)
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The Immunopeptidome from a Genomic Perspective : Establishing the Noncanonical Landscape of MHC Class I–Associated Peptides
- 2023
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Ingår i: Cancer immunology research. - 2326-6066. ; 11:6, s. 742-762
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Tidskriftsartikel (refereegranskat)abstract
- Tumor antigens can emerge through multiple mechanisms, including translation of noncoding genomic regions. This noncanonical category of tumor antigens has recently gained attention; however, our understanding of how they recur within and between cancer types is still in its infancy. Therefore, we developed a proteogenomic pipeline based on deep learning de novo mass spectrometry (MS) to enable the discovery of noncanonical MHC class I–associated peptides (ncMAP) from noncoding regions. Considering that the emergence of tumor antigens can also involve posttranslational modifications (PTM), we included an open search component in our pipeline. Leveraging the wealth of MS-based immunopeptidomics, we analyzed data from 26 MHC class I immunopeptidomic studies across 11 different cancer types. We validated the de novo identified ncMAPs, along with the most abundant PTMs, using spectral matching and controlled their FDR to 1%. The noncanonical presentation appeared to be 5 times enriched for the A03 HLA supertype, with a projected population coverage of 55%. The data reveal an atlas of 8,601 ncMAPs with varying levels of cancer selectivity and suggest 17 cancer-selective ncMAPs as attractive therapeutic targets according to a stringent cutoff. In summary, the combination of the open-source pipeline and the atlas of ncMAPs reported herein could facilitate the identification and screening of ncMAPs as targets for T-cell therapies or vaccine development.
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| 18. |
- Blomme, R., et al.
(författare)
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The Gaia-ESO Survey : The analysis of the hot-star spectra
- 2022
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Ingår i: Astronomy and Astrophysics. - : EDP Sciences. - 0004-6361 .- 1432-0746. ; 661
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Tidskriftsartikel (refereegranskat)abstract
- Context. The Gaia-ESO Survey (GES) is a large public spectroscopic survey that has collected, over a period of six years, spectra of similar to 10(5) stars. This survey provides not only the reduced spectra, but also the stellar parameters and abundances resulting from the analysis of the spectra.Aims. The GES dataflow is organised in 19 working groups. Working group 13 (WG13) is responsible for the spectral analysis of the hottest stars (O, B, and A type, with a formal cutoff of T-eff > 7000 K) that were observed as part of GES. We present the procedures and techniques that have been applied to the reduced spectra in order to determine the stellar parameters and abundances of these stars.Methods. The procedure used was similar to that of other working groups in GES. A number of groups (called Nodes) each independently analyse the spectra via state-of-the-art techniques and codes. Specific for the analysis in WG13 was the large temperature range covered (T-eff approximate to 7000-50 000 K), requiring the use of different analysis codes. Most Nodes could therefore only handle part of the data. Quality checks were applied to the results of these Nodes by comparing them to benchmark stars, and by comparing them to one another. For each star the Node values were then homogenised into a single result: the recommended parameters and abundances.Results. Eight Nodes each analysed part of the data. In total 17 693 spectra of 6462 stars were analysed, most of them in 37 open star clusters. The homogenisation led to stellar parameters for 5584 stars. Abundances were determined for a more limited number of stars. The elements studied are He, C, N, O, Ne, Mg, Al, Si, and Sc. Abundances for at least one of these elements were determined for 292 stars. Conclusions. The hot-star data analysed here, as well as the GES data in general, will be of considerable use in future studies of stellar evolution and open clusters.
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| 19. |
- Franciosini, E., et al.
(författare)
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The Gaia-ESO Survey : Lithium measurements and new curves of growth
- 2022
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Ingår i: Astronomy and Astrophysics. - : EDP Sciences. - 0004-6361 .- 1432-0746. ; 668
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Tidskriftsartikel (refereegranskat)abstract
- Context. The Gaia-ESO Survey (GES) is a large public spectroscopic survey that was carried out using the multi-object FLAMES spectrograph at the Very Large Telescope. The survey provides accurate radial velocities, stellar parameters, and elemental abundances for ~115 000 stars in all Milky Way components.Aims. In this paper, we describe the method adopted in the final data release to derive lithium equivalent widths (EWs) and abundances.Methods. Lithium EWs were measured using two different approaches for FGK and M-type stars, to account for the intrinsic differences in the spectra. For FGK stars, we fitted the lithium line using Gaussian components, while direct integration over a predefined interval was adopted for M-type stars. Care was taken to ensure continuity between the two regimes. Abundances were derived using a new set of homogeneous curves of growth that were derived specifically for GES, and which were measured on a synthetic spectral grid consistently with the way the EWs were measured. The derived abundances were validated by comparison with those measured by other analysis groups using different methods.Results. Lithium EWs were measured for ~40 000 stars, and abundances could be derived for ~38 000 of them. The vast majority of the measures (80%) have been obtained for stars in open cluster fields. The remaining objects are stars in globular clusters, or field stars in the Milky Way disc, bulge, and halo.Conclusions. The GES dataset of homogeneous lithium abundances described here will be valuable for our understanding of several processes, from stellar evolution and internal mixing in stars at different evolutionary stages to Galactic evolution.
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| 20. |
- Gjesfjeld, E., et al.
(författare)
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A quantitative workflow for modeling diversification in material culture
- 2020
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Ingår i: PLoS ONE. - : Public Library of Science (PLoS). - 1932-6203. ; 15:2
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Tidskriftsartikel (refereegranskat)abstract
- Questions about the evolution of material culture are widespread in the humanities and social sciences. Statistical modeling of long-term changes in material culture is less common due to a lack of appropriate frameworks. Our goal is to close this gap and provide robust statistical methods for examining changes in the diversity of material culture. We provide an open-source and quantitative workflow for estimating rates of origination, extinction, and preservation, as well as identifying key shift points in the diversification histories of material culture. We demonstrate our approach using two distinct kinds of data: age ranges for the production of American car models, and radiocarbon dates associated with archaeological cultures of the European Neolithic. Our approach improves on existing frameworks by disentangling the relative contributions of origination and extinction to diversification. Our method also permits rigorous statistical testing of competing hypotheses to explain changes in diversity. Finally, we stress the value of a flexible approach that can be applied to data in various forms; this flexibility allows scholars to explore commonalities between forms of material culture and ask questions about the general properties of cultural change.
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| 21. |
- Gutierrez Albarran, M. L., et al.
(författare)
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The Gaia-ESO Survey : Calibrating the lithium-age relation with open clusters and associations I. Cluster age range and initial membership selections
- 2020
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Ingår i: Astronomy and Astrophysics. - : EDP Sciences. - 0004-6361 .- 1432-0746. ; 643
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Tidskriftsartikel (refereegranskat)abstract
- Context: Previous studies of open clusters have shown that lithium depletion is not only strongly age dependent but also shows a complex pattern with other parameters that is not yet understood. For pre- and main-sequence late-type stars, these parameters include metallicity, mixing mechanisms, convection structure, rotation, and magnetic activity.Aims: We perform a thorough membership analysis for a large number of stars observed within the Gaia-ESO survey (GES) in the field of 20 open clusters, ranging in age from young clusters and associations, to intermediate-age and old open clusters.Methods: Based on the parameters derived from the GES spectroscopic observations, we obtained lists of candidate members for each of the clusters in the sample by deriving radial velocity distributions and studying the position of the kinematic selections in the EW(Li)-versus-T-eff plane to obtain lithium members. We used gravity indicators to discard field contaminants and studied [Fe/H] metallicity to further confirm the membership of the candidates. We also made use of studies using recent data from the Gaia DR1 and DR2 releases to assess our member selections.Results: We identified likely member candidates for the sample of 20 clusters observed in GES (iDR4) with UVES and GIRAFFE, and conducted a comparative study that allowed us to characterize the properties of these members as well as identify field contaminant stars, both lithium-rich giants and non-giant outliers.Conclusions: This work is the first step towards the calibration of the lithium-age relation and its dependence on other GES parameters. During this project we aim to use this relation to infer the ages of GES field stars, and identify their potential membership to young associations and stellar kinematic groups of different ages.
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| 22. |
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| 23. |
- Worley, C. C., et al.
(författare)
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The Gaia-ESO Survey : Spectroscopic-asteroseismic analysis of K2 stars in Gaia-ESO The K2 Galactic Caps Project
- 2020
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Ingår i: Astronomy and Astrophysics. - : EDP Sciences. - 0004-6361 .- 1432-0746. ; 643
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Tidskriftsartikel (refereegranskat)abstract
- Context. The extensive stellar spectroscopic datasets that are available for studies in Galactic Archeaology thanks to, for example, the Gaia-ESO Survey, now benefit from having a significant number of targets that overlap with asteroseismology projects such as Kepler, K2, and CoRoT. Combining the measurements from spectroscopy and asteroseismology allows us to attain greater accuracy with regard to the stellar parameters needed to characterise the stellar populations of the Milky Way.Aims. The aim of this Gaia-ESO Survey special project is to produce a catalogue of self-consistent stellar parameters by combining measurements from high-resolution spectroscopy and precision asteroseismology.Methods. We carried out an iterative analysis of 90 K2@Gaia-ESO red giants. The spectroscopic values of Teff were used as input in the seismic analysis to obtain log g values. The seismic estimates of log g were then used to re-determine the spectroscopic values of Teff and [Fe/H]. Only one iteration was required to obtain parameters that are in good agreement for both methods and, thus, to obtain the final stellar parameters. A detailed analysis of outliers was carried out to ensure a robust determination of the parameters. The results were then combined with Gaia DR2 data to compare the seismic log g with a parallax-based log g and to investigate instances of variations in the velocity and possible binaries within the dataset.Results. This analysis produced a high-quality catalogue of stellar parameters for 90 red giant stars from K2@Gaia-ESO that were determined through iterations between spectroscopy and asteroseismology. We compared the seismic gravities with those based on Gaia parallaxes to find an offset which is similar to other studies that have used asteroseismology. Our catalogue also includes spectroscopic chemical abundances and radial velocities, as well as indicators for possible binary detections.
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| 24. |
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| 25. |
- Alfaro-Murillo, A, et al.
(författare)
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Selective IgA deficiency, juvenile idiopathic arthritis and anterior uveitis in a Costa Rican child. Coincidental diseases?. Case report and literature review
- 2022
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Ingår i: Revista Ciencias Biomédicas. ; 11:3
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Tidskriftsartikel (refereegranskat)abstract
- Background: selective IgA deficiency is the most frequent primary immunodeficiency worldwide. Patients are usually asymptomatic. However, those cases with symptoms develop recurrent infections and increased risk of autoimmune and malignant diseases. On the other hand, rheumatic disorders are uncommon during childhood with juvenile idiopathic arthritis as the most common one. Case Presentation: we present the case of a female patient, who developed oligoarticular juvenile idiopathic arthritis at age 7 years. After the diagnosis, she developed acute anterior uveitis. During the initial immunological evaluation, the diagnosis of selective IgA deficiency was confirmed. A work-up for immunodeficiency demonstrated a normal T cell compartment. B cell subpopulations showed normal memory B lymphocytes, absence of transitional B cells, and an increase in the CD21 low unique subset. Conclusions: at the beginning of any rheumatological evaluation, the physician should request immunoglobulins levels, in order to detect possible primary antibodies deficiencies.
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| 26. |
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| 27. |
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| 28. |
- Biurrun, Idoia, et al.
(författare)
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Benchmarking plant diversity of Palaearctic grasslands and other open habitats
- 2021
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Ingår i: Journal of Vegetation Science. - Oxford : John Wiley & Sons. - 1100-9233 .- 1654-1103. ; 32:4
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Tidskriftsartikel (refereegranskat)abstract
- Journal of Vegetation Science published by John Wiley & Sons Ltd on behalf of International Association for Vegetation Science.Aims: Understanding fine-grain diversity patterns across large spatial extents is fundamental for macroecological research and biodiversity conservation. Using the GrassPlot database, we provide benchmarks of fine-grain richness values of Palaearctic open habitats for vascular plants, bryophytes, lichens and complete vegetation (i.e., the sum of the former three groups). Location: Palaearctic biogeographic realm. Methods: We used 126,524 plots of eight standard grain sizes from the GrassPlot database: 0.0001, 0.001, 0.01, 0.1, 1, 10, 100 and 1,000 m2 and calculated the mean richness and standard deviations, as well as maximum, minimum, median, and first and third quartiles for each combination of grain size, taxonomic group, biome, region, vegetation type and phytosociological class. Results: Patterns of plant diversity in vegetation types and biomes differ across grain sizes and taxonomic groups. Overall, secondary (mostly semi-natural) grasslands and natural grasslands are the richest vegetation type. The open-access file ”GrassPlot Diversity Benchmarks” and the web tool “GrassPlot Diversity Explorer” are now available online (https://edgg.org/databases/GrasslandDiversityExplorer) and provide more insights into species richness patterns in the Palaearctic open habitats. Conclusions: The GrassPlot Diversity Benchmarks provide high-quality data on species richness in open habitat types across the Palaearctic. These benchmark data can be used in vegetation ecology, macroecology, biodiversity conservation and data quality checking. While the amount of data in the underlying GrassPlot database and their spatial coverage are smaller than in other extensive vegetation-plot databases, species recordings in GrassPlot are on average more complete, making it a valuable complementary data source in macroecology. © 2021 The Authors.
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| 29. |
- Casali, G., et al.
(författare)
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The Gaia-ESO survey : the non-universality of the age-chemical-clocks-metallicity relations in the Galactic disc
- 2020
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Ingår i: Astronomy and Astrophysics. - : EDP Sciences. - 0004-6361 .- 1432-0746. ; 639
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Tidskriftsartikel (refereegranskat)abstract
- Context. In the era of large spectroscopic surveys, massive databases of high-quality spectra coupled with the products of the Gaia satellite provide tools to outline a new picture of our Galaxy. In this framework, an important piece of information is provided by our ability to infer stellar ages, and consequently to sketch a Galactic timeline.Aims. We aim to provide empirical relations between stellar ages and abundance ratios for a sample of stars with very similar stellar parameters to those of the Sun, namely the so-called solar-like stars. We investigate the dependence on metallicity, and we apply our relations to independent samples, that is, the Gaia-ESO samples of open clusters and of field stars.Methods. We analyse high-resolution and high-signal-to-noise-ratio HARPS spectra of a sample of solar-like stars to obtain precise determinations of their atmospheric parameters and abundances for 25 elements and/or ions belonging to the main nucleosynthesis channels through differential spectral analysis, and of their ages through isochrone fitting.Results. We investigate the relations between stellar ages and several abundance ratios. For the abundance ratios with a steeper dependence on age, we perform multivariate linear regressions, in which we include the dependence on metallicity, [Fe/H]. We apply our best relations to a sample of open clusters located from the inner to the outer regions of the Galactic disc. Using our relations, we are able to recover the literature ages only for clusters located at R-GC > 7 kpc. The values that we obtain for the ages of the inner-disc clusters are much greater than the literature ones. In these clusters, the content of neutron capture elements, such as Y and Zr, is indeed lower than expected from chemical evolution models, and consequently their [Y/Mg] and [Y/Al] are lower than in clusters of the same age located in the solar neighbourhood. With our chemical evolution model and a set of empirical yields, we suggest that a strong dependence on the star formation history and metallicity-dependent stellar yields of s-process elements can substantially modify the slope of the [s/alpha]-[Fe/H]-age relation in different regions of the Galaxy.Conclusions. Our results point towards a non-universal relation [s/alpha]-[Fe/H]-age, indicating the existence of relations with different slopes and intercepts at different Galactocentric distances or for different star formation histories. Therefore, relations between ages and abundance ratios obtained from samples of stars located in a limited region of the Galaxy cannot be translated into general relations valid for the whole disc. A better understanding of the s-process at high metallicity is necessary to fully understand the origin of these variations.
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| 30. |
- Dengler, Jürgen, et al.
(författare)
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Ecological Indicator Values for Europe (EIVE) 1.0
- 2023
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Ingår i: Vegetation Classification and Survey. - 2683-0671. ; 4, s. 7-29
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Tidskriftsartikel (refereegranskat)abstract
- Aims: To develop a consistent ecological indicator value system for Europe for five of the main plant niche dimensions: soil moisture (M), soil nitrogen (N), soil reaction (R), light (L) and temperature (T). Study area: Europe (and closely adjacent regions). Methods: We identified 31 indicator value systems for vascular plants in Europe that contained assessments on at least one of the five aforementioned niche dimensions. We rescaled the indicator values of each dimension to a continuous scale, in which 0 represents the minimum and 10 the maximum value present in Europe. Taxon names were harmonised to the Euro+Med Plantbase. For each of the five dimensions, we calculated European values for niche position and niche width by combining the values from the individual EIV systems. Using T values as an example, we externally validated our European indicator values against the median of bioclimatic conditions for global occurrence data of the taxa. Results: In total, we derived European indicator values of niche position and niche width for 14,835 taxa (14,714 for M, 13,748 for N, 14,254 for R, 14,054 for L, 14,496 for T). Relating the obtained values for temperature niche position to the bioclimatic data of species yielded a higher correlation than any of the original EIV systems (r = 0.859). The database: The newly developed Ecological Indicator Values for Europe (EIVE) 1.0, together with all source systems, is available in a flexible, harmonised open access database. Conclusions: EIVE is the most comprehensive ecological indicator value system for European vascular plants to date. The uniform interval scales for niche position and niche width provide new possibilities for ecological and macroecological analyses of vegetation patterns. The developed workflow and documentation will facilitate the future release of updated and expanded versions of EIVE, which may for example include the addition of further taxonomic groups, additional niche dimensions, external validation or regionalisation.
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| 31. |
- Garcia-Garcia, A, et al.
(författare)
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Humans with inherited MyD88 and IRAK-4 deficiencies are predisposed to hypoxemic COVID-19 pneumonia
- 2023
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Ingår i: The Journal of experimental medicine. - : Rockefeller University Press. - 1540-9538 .- 0022-1007. ; 220:5
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Tidskriftsartikel (refereegranskat)abstract
- X-linked recessive deficiency of TLR7, a MyD88- and IRAK-4–dependent endosomal ssRNA sensor, impairs SARS-CoV-2 recognition and type I IFN production in plasmacytoid dendritic cells (pDCs), thereby underlying hypoxemic COVID-19 pneumonia with high penetrance. We report 22 unvaccinated patients with autosomal recessive MyD88 or IRAK-4 deficiency infected with SARS-CoV-2 (mean age: 10.9 yr; 2 mo to 24 yr), originating from 17 kindreds from eight countries on three continents. 16 patients were hospitalized: six with moderate, four with severe, and six with critical pneumonia, one of whom died. The risk of hypoxemic pneumonia increased with age. The risk of invasive mechanical ventilation was also much greater than in age-matched controls from the general population (OR: 74.7, 95% CI: 26.8–207.8, P < 0.001). The patients’ susceptibility to SARS-CoV-2 can be attributed to impaired TLR7-dependent type I IFN production by pDCs, which do not sense SARS-CoV-2 correctly. Patients with inherited MyD88 or IRAK-4 deficiency were long thought to be selectively vulnerable to pyogenic bacteria, but also have a high risk of hypoxemic COVID-19 pneumonia.
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| 32. |
- Georgiadi, A, et al.
(författare)
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Orphan GPR116 mediates the insulin sensitizing effects of the hepatokine FNDC4 in adipose tissue
- 2021
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Ingår i: Nature communications. - : Springer Science and Business Media LLC. - 2041-1723. ; 12:1, s. 2999-
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Tidskriftsartikel (refereegranskat)abstract
- The proper functional interaction between different tissues represents a key component in systemic metabolic control. Indeed, disruption of endocrine inter-tissue communication is a hallmark of severe metabolic dysfunction in obesity and diabetes. Here, we show that the FNDC4-GPR116, liver-white adipose tissue endocrine axis controls glucose homeostasis. We found that the liver primarily controlled the circulating levels of soluble FNDC4 (sFNDC4) and lowering of the hepatokine FNDC4 led to prediabetes in mice. Further, we identified the orphan adhesion GPCR GPR116 as a receptor of sFNDC4 in the white adipose tissue. Upon direct and high affinity binding of sFNDC4 to GPR116, sFNDC4 promoted insulin signaling and insulin-mediated glucose uptake in white adipocytes. Indeed, supplementation with FcsFNDC4 in prediabetic mice improved glucose tolerance and inflammatory markers in a white-adipocyte selective and GPR116-dependent manner. Of note, the sFNDC4-GPR116, liver-adipose tissue axis was dampened in (pre) diabetic human patients. Thus our findings will now allow for harnessing this endocrine circuit for alternative therapeutic strategies in obesity-related pre-diabetes.
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| 33. |
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| 34. |
- Kemppinen, Julia, et al.
(författare)
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Microclimate, an important part of ecology and biogeography
- 2024
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Ingår i: GLOBAL ECOLOGY AND BIOGEOGRAPHY. - 1466-822X .- 1466-8238. ; 33:6
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Tidskriftsartikel (refereegranskat)abstract
- Brief introduction: What are microclimates and why are they important?Microclimate science has developed into a global discipline. Microclimate science is increasingly used to understand and mitigate climate and biodiversity shifts. Here, we provide an overview of the current status of microclimate ecology and biogeography in terrestrial ecosystems, and where this field is heading next.Microclimate investigations in ecology and biogeographyWe highlight the latest research on interactions between microclimates and organisms, including how microclimates influence individuals, and through them populations, communities and entire ecosystems and their processes. We also briefly discuss recent research on how organisms shape microclimates from the tropics to the poles.Microclimate applications in ecosystem managementMicroclimates are also important in ecosystem management under climate change. We showcase new research in microclimate management with examples from biodiversity conservation, forestry and urban ecology. We discuss the importance of microrefugia in conservation and how to promote microclimate heterogeneity.Methods for microclimate scienceWe showcase the recent advances in data acquisition, such as novel field sensors and remote sensing methods. We discuss microclimate modelling, mapping and data processing, including accessibility of modelling tools, advantages of mechanistic and statistical modelling and solutions for computational challenges that have pushed the state-of-the-art of the field.What's next?We identify major knowledge gaps that need to be filled for further advancing microclimate investigations, applications and methods. These gaps include spatiotemporal scaling of microclimate data, mismatches between macroclimate and microclimate in predicting responses of organisms to climate change, and the need for more evidence on the outcomes of microclimate management.
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| 35. |
- Mendieta-Leiva, Glenda, et al.
(författare)
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EpIG-DB: A database of vascular epiphyte assemblages in the Neotropics
- 2020
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Ingår i: Journal of Vegetation Science. - : Wiley. - 1100-9233 .- 1654-1103. ; 31, s. 518-528
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Tidskriftsartikel (refereegranskat)abstract
- Vascular epiphytes are a diverse and conspicuous component of biodiversity in tropical and subtropical forests. Yet, the patterns and drivers of epiphyte assemblages are poorly studied in comparison with soil-rooted plants. Current knowledge about diversity patterns of epiphytes mainly stems from local studies or floristic inventories, but this information has not yet been integrated to allow a better understanding of large-scale distribution patterns. EpIG-DB, the first database on epiphyte assemblages at the continental scale, resulted from an exhaustive compilation of published and unpublished inventory data from the Neotropics. The current version of EpIG-DB consists of 463,196 individual epiphytes from 3,005 species, which were collected from a total of 18,148 relevés (host trees and ‘understory’ plots). EpIG-DB reports the occurrence of ‘true’ epiphytes, hemiepiphytes and nomadic vines, including information on their cover, abundance, frequency and biomass. Most records (97%) correspond to sampled host trees, 76% of them aggregated in forest plots. The data is stored in a TURBOVEG database using the most up-to-date checklist of vascular epiphytes. A total of 18 additional fields were created for the standardization of associated data commonly used in epiphyte ecology (e.g. by considering different sampling methods). EpIG-DB currently covers six major biomes across the whole latitudinal range of epiphytes in the Neotropics but welcomes data globally. This novel database provides, for the first time, unique biodiversity data on epiphytes for the Neotropics and unified guidelines for future collection of epiphyte data. EpIG-DB will allow exploration of new ways to study the community ecology and biogeography of vascular epiphytes.
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