| 1. |
- Graco-Roza, Caio, et al.
(författare)
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Distance decay 2.0 – A global synthesis of taxonomic and functional turnover in ecological communities
- 2022
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Ingår i: Global Ecology and Biogeography. - : Wiley. - 1466-822X .- 1466-8238. ; 31:7, s. 1399-1421
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Tidskriftsartikel (refereegranskat)abstract
- Aim: Understanding the variation in community composition and species abundances (i.e., beta-diversity) is at the heart of community ecology. A common approach to examine beta-diversity is to evaluate directional variation in community composition by measuring the decay in the similarity among pairs of communities along spatial or environmental distance. We provide the first global synthesis of taxonomic and functional distance decay along spatial and environmental distance by analysing 148 datasets comprising different types of organisms and environments.Location: Global.Time period: 1990 to present.Major taxa studied: From diatoms to mammals.Method: We measured the strength of the decay using ranked Mantel tests (Mantel r) and the rate of distance decay as the slope of an exponential fit using generalized linear models. We used null models to test whether functional similarity decays faster or slower than expected given the taxonomic decay along the spatial and environmental distance. We also unveiled the factors driving the rate of decay across the datasets, including latitude, spatial extent, realm and organismal features.Results: Taxonomic distance decay was stronger than functional distance decay along both spatial and environmental distance. Functional distance decay was random given the taxonomic distance decay. The rate of taxonomic and functional spatial distance decay was fastest in the datasets from mid-latitudes. Overall, datasets covering larger spatial extents showed a lower rate of decay along spatial distance but a higher rate of decay along environmental distance. Marine ecosystems had the slowest rate of decay along environmental distances.Main conclusions: In general, taxonomic distance decay is a useful tool for biogeographical research because it reflects dispersal-related factors in addition to species responses to climatic and environmental variables. Moreover, functional distance decay might be a cost-effective option for investigating community changes in heterogeneous environments.
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| 2. |
- Feng, Shaohong, et al.
(författare)
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Dense sampling of bird diversity increases power of comparative genomics
- 2020
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Ingår i: Nature. - : Springer Science and Business Media LLC. - 0028-0836 .- 1476-4687. ; 587:7833
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Tidskriftsartikel (refereegranskat)abstract
- Whole-genome sequencing projects are increasingly populating the tree of life and characterizing biodiversity(1-4). Sparse taxon sampling has previously been proposed to confound phylogenetic inference(5), and captures only a fraction of the genomic diversity. Here we report a substantial step towards the dense representation of avian phylogenetic and molecular diversity, by analysing 363 genomes from 92.4% of bird families-including 267 newly sequenced genomes produced for phase II of the Bird 10,000 Genomes (B10K) Project. We use this comparative genome dataset in combination with a pipeline that leverages a reference-free whole-genome alignment to identify orthologous regions in greater numbers than has previously been possible and to recognize genomic novelties in particular bird lineages. The densely sampled alignment provides a single-base-pair map of selection, has more than doubled the fraction of bases that are confidently predicted to be under conservation and reveals extensive patterns of weak selection in predominantly non-coding DNA. Our results demonstrate that increasing the diversity of genomes used in comparative studies can reveal more shared and lineage-specific variation, and improve the investigation of genomic characteristics. We anticipate that this genomic resource will offer new perspectives on evolutionary processes in cross-species comparative analyses and assist in efforts to conserve species. A dataset of the genomes of 363 species from the Bird 10,000 Genomes Project shows increased power to detect shared and lineage-specific variation, demonstrating the importance of phylogenetically diverse taxon sampling in whole-genome sequencing.
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| 3. |
- Wisotzki, L., et al.
(författare)
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Nearly all the sky is covered by Lyman-alpha emission around high-redshift galaxies
- 2018
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Ingår i: Nature. - : Springer Science and Business Media LLC. - 0028-0836 .- 1476-4687. ; 562:7726, s. 229-232
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Tidskriftsartikel (refereegranskat)abstract
- Galaxies are surrounded by large reservoirs of gas, mostly hydrogen, that are fed by inflows from the intergalactic medium and by outflows from galactic winds. Absorption-line measurements along the lines of sight to bright and rare background quasars indicate that this circumgalactic medium extends far beyond the starlight seen in galaxies, but very little is known about its spatial distribution. The Lyman-alpha transition of atomic hydrogen at a wavelength of 121.6 nanometres is an important tracer of warm (about 104 kelvin) gas in and around galaxies, especially at cosmological redshifts greater than about 1.6 at which the spectral line becomes observable from the ground. Tracing cosmic hydrogen through its Lyman-a emission has been a long-standing goal of observational astrophysics(1-3), but the extremely low surface brightness of the spatially extended emission is a formidable obstacle. A new window into circumgalactic environments was recently opened by the discovery of ubiquitous extended Lyman-alpha emission from hydrogen around high-redshift galaxies(4,5). Such measurements were previously limited to especially favourable systems(6-8) or to the use of massive statistical averaging(9,10) because of the faintness of this emission. Here we report observations of low-surface-brightness Lyman-alpha emission surrounding faint galaxies at redshifts between 3 and 6. We find that the projected sky coverage approaches 100 per cent. The corresponding rate of incidence (the mean number of Lyman-alpha emitters penetrated by any arbitrary line of sight) is well above unity and similar to the incidence rate of high-column-density absorbers frequently detected in the spectra of distant quasars(11-14). This similarity suggests that most circumgalactic atomic hydrogen at these redshifts has now been detected in emission.
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| 4. |
- Diener, C., et al.
(författare)
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The MUSE-Wide survey : detection of a clustering signal from Lyman alpha emitters in the range 3 < z < 6
- 2017
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Ingår i: Monthly notices of the Royal Astronomical Society. - : Oxford University Press (OUP). - 0035-8711 .- 1365-2966. ; 471:3, s. 3186-3192
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Tidskriftsartikel (refereegranskat)abstract
- We present a clustering analysis of a sample of 238 Ly alpha emitters at redshift 3 less than or similar to z less than or similar to 6 from the MUSE-Wide survey. This survey mosaics extragalactic legacy fields with 1h MUSE pointings to detect statistically relevant samples of emission line galaxies. We analysed the first year observations from MUSE-Wide making use of the clustering signal in the line-of-sight direction. This method relies on comparing pair-counts at close redshifts for a fixed transverse distance and thus exploits the full potential of the redshift range covered by our sample. A clear clustering signal with a correlation length of r(0) = 2.9(-1.1)(+1.0) Mpc (comoving) is detected. Whilst this result is based on only about a quarter of the full survey size, it already shows the immense potential of MUSE for efficiently observing and studying the clustering of Ly alpha emitters.
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| 5. |
- Paalvast, M., et al.
(författare)
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Properties and redshift evolution of star-forming galaxies with high [0 III]/[O II] ratios with MUSE at 0.28 < z < 0.85
- 2018
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Ingår i: Astronomy and Astrophysics. - : EDP Sciences. - 0004-6361 .- 1432-0746. ; 618
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Tidskriftsartikel (refereegranskat)abstract
- We present a study of the [O III]/[O II] ratios of star-forming galaxies drawn from Multi-Unit Spectroscopic Explorer (MUSE) data spanning a redshift range 0.28 < z < 0.85. Recently discovered Lyman continuum (LyC) emitters have extremely high oxygen line ratios: [O III]lambda 5007/[O II]lambda lambda 3726, 3729 > 4. Here we aim to understand the properties and the occurrences of galaxies with such high line ratios. Combining data from several MUSE Guaranteed Time Observing (GTO) programmes, we select a population of star-forming galaxies with bright emission lines, from which we draw 406 galaxies for our analysis based on their position in the z-dependent star formation rate (SFR) stellar mass (M*) plane. Out of this sample 15 are identified as extreme oxygen emitters based on their [O III]/[O II] ratios (3.7%) and 104 galaxies have [O III]/[O II] > 1 (26%). Our analysis shows no significant correlation between M*, SFR, and the distance from the SFR M, relation with [O III]/[O II]. We find a decrease in the fraction of galaxies with [O III]/[O II] > 1 with increasing M*, however, this is most likely a result of the relationship between [O III]/[O II] and metallicity, rather than between [O III]/[O II] and M. We draw a comparison sample of local analogues with < z > 0.03 from the Sloan Digital Sky Survey, and find similar incidence rates for this sample. In order to investigate the evolution in the fraction of high [O III]/[O II] emitters with redshift, we bin the sample into three redshift subsamples of equal number, but find no evidence for a dependence on redshift. Furthermore, we compare the observed line ratios with those predicted by nebular models with no LyC escape and find that most of the extreme oxygen emitters can be reproduced by low metallicity models. The remaining galaxies are likely LyC emitter candidates.
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| 6. |
- Schmidt, K. B., et al.
(författare)
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Three-Dimensional Optimal Spectral Extraction (TDOSE) from integral field spectroscopy
- 2019
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Ingår i: Astronomy and Astrophysics. - : EDP Sciences. - 0004-6361 .- 1432-0746. ; 628
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Tidskriftsartikel (refereegranskat)abstract
- The amount of integral field spectrograph (IFS) data has grown considerably over the last few decades. The demand for tools to analyze such data is therefore bigger now than ever. We present a flexible Python tool for Three-Dimensional Optimal Spectral Extraction (TDOSE) from IFS data cubes. TDOSE works on any three-dimensional data cube and bases the spectral extractions on morphological reference image models. By default, these models are generated and composed of multiple multivariate Gaussian components, but can also be constructed with independent modeling tools and be provided as input to TDOSE. In each wavelength layer of the IFS data cube, TDOSE simultaneously optimizes all sources in the morphological model to minimize the difference between the scaled model components and the IFS data. The flux optimization produces individual data cubes containing the scaled three-dimensional source models. This allows the efficient de-blending of flux in both the spatial and spectral dimensions of the IFS data cubes, and extraction of the corresponding one-dimensional spectra. TDOSE implicitly requires an assumption about the two-dimensional light distribution. We describe how the flexibility of TDOSE can be used to mitigate and correct for deviations from the input distribution. Furthermore, we present an example of how the three-dimensional source models generated by TDOSE can be used to improve two-dimensional maps of physical parameters like velocity, metallicity, or star formation rate when flux contamination is a problem. By extracting TDOSE spectra of similar to 150 [OII] emitters from the MUSE-Wide survey we show that the median increase in line flux is similar to 5% when using multi-component models as opposed to single-component models. However, the increase in recovered line emission in individual cases can be as much as 50%. Comparing the TDOSE model-based extractions of the MUSE-Wide [OII] emitters with aperture spectra, the TDOSE spectra provides a median flux (S/N) increase of 9% (14%). Hence, TDOSE spectra optimize the S/N while still being able to recover the total emitted flux.
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| 7. |
- Stockwell, Jason D., et al.
(författare)
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Storm impacts on phytoplankton community dynamics in lakes
- 2020
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Ingår i: Global Change Biology. - : WILEY. - 1354-1013 .- 1365-2486. ; 26:5, s. 2756-2784
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Forskningsöversikt (refereegranskat)abstract
- In many regions across the globe, extreme weather events such as storms have increased in frequency, intensity, and duration due to climate change. Ecological theory predicts that such extreme events should have large impacts on ecosystem structure and function. High winds and precipitation associated with storms can affect lakes via short-term runoff events from watersheds and physical mixing of the water column. In addition, lakes connected to rivers and streams will also experience flushing due to high flow rates. Although we have a well-developed understanding of how wind and precipitation events can alter lake physical processes and some aspects of biogeochemical cycling, our mechanistic understanding of the emergent responses of phytoplankton communities is poor. Here we provide a comprehensive synthesis that identifies how storms interact with lake and watershed attributes and their antecedent conditions to generate changes in lake physical and chemical environments. Such changes can restructure phytoplankton communities and their dynamics, as well as result in altered ecological function (e.g., carbon, nutrient and energy cycling) in the short- and long-term. We summarize the current understanding of storm-induced phytoplankton dynamics, identify knowledge gaps with a systematic review of the literature, and suggest future research directions across a gradient of lake types and environmental conditions.
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| 8. |
- Urrutia, T., et al.
(författare)
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The MUSE-Wide Survey : survey description and first data release
- 2019
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Ingår i: Astronomy and Astrophysics. - : EDP Sciences. - 0004-6361 .- 1432-0746. ; 624
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Tidskriftsartikel (refereegranskat)abstract
- We present the MUSE-Wide survey, a blind, 3D spectroscopic survey in the CANDELS/GOODS-S and CANDELS/COSMOS regions. The final survey will cover 100 x 1 arcmin(2) MUSE fields. Each MUSE-Wide pointing has a depth of one hour and hence targets more extreme and more luminous objects over ten times the area of the MUSE-Deep fields. The legacy value of MUSE-Wide lies in providing spectroscopy of everything without photometric pre-selection. We describe the data reduction, post-processing and PSF characterization of the first 44 CANDELS /GOODS-S MUSE-Wide pointings released with this publication. Using a 3D matched filtering approach we detect 1602 emission line sources, including 479 Lyman-alpha (Ly alpha) emitting galaxies with redshifts 2.9 less than or similar to z less than or similar to 6.3. We cross-matched the emission line sources to existing photometric catalogs, finding almost complete agreement in redshifts (photometric and spectroscopic) and stellar masses for our low redshift (z < 1.5) emitters. At high redshift, we only find similar to 55% matches to photometric catalogs. We encounter a higher outlier rate and a systematic offset of Delta z similar or equal to 0.2 when comparing our MUSE redshifts with photometric redshifts from the literature. Cross-matching the emission line sources with X-ray catalogs from the Chandra Deep Field South, we find 127 matches, mostly in agreement with the literature redshifts, including ten objects with no prior spectroscopic identification. Stacking X-ray images centered on our Ly alpha emitters yields no signal; the Ly alpha population is not dominated by even low luminosity AGN. Other cross-matches of our emission-line catalog to radio and submillimeter data, yielded far lower numbers of matches, most of which already were covered by the X-ray catalog. A total of 9205 photometrically selected objects from the CANDELS survey lie in the MUSE-Wide footprint, of which we provide optimally extracted 1D spectra. We are able to determine the spectroscopic redshift of 98% of 772 photometrically selected galaxies brighter than 24th F775W magnitude. All the data in the first data release - datacubes, catalogs, extracted spectra, maps - are available on the MUSE-Wide data release webpage.
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| 9. |
- Hintz, William D., et al.
(författare)
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Current water quality guidelines across North America and Europe do not protect lakes from salinization
- 2022
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Ingår i: Proceedings of the National Academy of Sciences of the United States of America. - : National Academy of Sciences. - 0027-8424 .- 1091-6490. ; 119:9
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Tidskriftsartikel (refereegranskat)abstract
- Human-induced salinization caused by the use of road deicing salts, agricultural practices, mining operations, and climate change is a major threat to the biodiversity and functioning of freshwater ecosystems. Yet, it is unclear if freshwater ecosystems are protected from salinization by current water quality guidelines. Leveraging an experimental network of land-based and in-lake mesocosms across North America and Europe, we tested how salinization—indicated as elevated chloride (Cl−) concentration—will affect lake food webs and if two of the lowest Cl− thresholds found globally are sufficient to protect these food webs. Our results indicated that salinization will cause substantial zooplankton mortality at the lowest Cl− thresholds established in Canada (120 mg Cl−/L) and the United States (230 mg Cl−/L) and throughout Europe where Cl− thresholds are generally higher. For instance, at 73% of our study sites, Cl− concentrations that caused a ≥50% reduction in cladoceran abundance were at or below Cl− thresholds in Canada, in the United States, and throughout Europe. Similar trends occurred for copepod and rotifer zooplankton. The loss of zooplankton triggered a cascading effect causing an increase in phytoplankton biomass at 47% of study sites. Such changes in lake food webs could alter nutrient cycling and water clarity and trigger declines in fish production. Current Cl− thresholds across North America and Europe clearly do not adequately protect lake food webs. Water quality guidelines should be developed where they do not exist, and there is an urgent need to reassess existing guidelines to protect lake ecosystems from human-induced salinization.
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| 10. |
- Arnott, Shelley E., et al.
(författare)
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Widespread variation in salt tolerance within freshwater zooplankton species reduces the predictability of community-level salt tolerance
- 2023
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Ingår i: Limnology and Oceanography Letters. - : John Wiley & Sons. - 2378-2242. ; 8:1, s. 8-18
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Tidskriftsartikel (refereegranskat)abstract
- The salinization of freshwaters is a global threat to aquatic biodiversity. We quantified variation in chloride (Cl-) tolerance of 19 freshwater zooplankton species in four countries to answer three questions: (1) How much variation in Cl- tolerance is present among populations? (2) What factors predict intraspecific variation in Cl- tolerance? (3) Must we account for intraspecific variation to accurately predict community Cl- tolerance? We conducted field mesocosm experiments at 16 sites and compiled acute LC(50)s from published laboratory studies. We found high variation in LC(50)s for Cl- tolerance in multiple species, which, in the experiment, was only explained by zooplankton community composition. Variation in species-LC50 was high enough that at 45% of lakes, community response was not predictable based on species tolerances measured at other sites. This suggests that water quality guidelines should be based on multiple populations and communities to account for large intraspecific variation in Cl- tolerance.
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