cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.jm63xsj7b
title: Data from: Tetra-EU 1.0: a species-level trophic meta-web of European tetrapods

description: Motivation Documenting potential interactions between species represents a
 major step to understand and predict the spatial and temporal structure of
 multi-trophic communities and their functioning. The metaweb concept
 summarises the potential trophic (and non-trophic) interactions in a given
 species-pool. As such, it generalises the regional species-pool of
 community ecology by incorporating the potential relationships between
 species from different trophic levels along with their functional
 characteristics. However, while this concept is theoretically very
 attractive, it has rarely been used to understand the structure of
 ecological network, mostly because of data availability. Here, we provide
 a continental scale, species-level, metaweb for all tetrapods (mammals,
 breeding birds, reptiles, amphibians) occurring in Europe and in the
 Northern Mediterranean basin. This metaweb is based on data extracted from
 scientific literature, including published papers, books, and grey
 literature. Main type of variable contained For each species considered,
 we built the network of potential 2-way trophic interactions. Spatial
 location and grain We considered all species occurring in the entire
 European sub-continent, from Macaronesia (including only the islands
 politically belonging to Spain and Portugal) to the Ural Mountains (west
 to east), and from Fennoscandia and UK islands to the Mediterranean (north
 to south). We included Turkey, geographically part of Asia, to provide a
 complete picture of the north-eastern Mediterranean coast. Time period The
 data represent information published and/or collected during the last 50
 years. Major taxa studied and level of measurement We focused our metaweb
 on terrestrial tetrapods occurring in the study area. Only species
 introduced in historical times and currently naturalized were considered;
 novel introductions were excluded. In total we included 288 mammals, 509
 regularly breeding birds, 250 reptiles, and 104 amphibians. Software
 format Data are supplied as semi-colon separated text files.
DOI: 10.5061/dryad.4j0zpc883
title: Data from: Environmental enrichment induces intergenerational behavioural and epigenetic effects on fish

description: Parental effects influence offspring phenotypes through pre- and
 post-natal routes but little is known about their molecular basis, and
 therefore their adaptive significance. Epigenetic modifications, which
 control gene expression without changes in the DNA sequence and are
 influenced by the environment, may contribute to parental effects. We
 investigated the effects of environmental enrichment on the behaviour,
 metabolic rate and brain DNA methylation patterns of parents and offspring
 of the highly inbreed mangrove killifish (Kryptolebias marmoratus).
 Parental fish reared in enriched environments had lower cortisol levels,
 lower metabolic rates and were more active and neophobic than those reared
 in barren environments. They also differed in 1,854 methylated cytosines
 (DMCs). Offspring activity and neophobia were determined by the parental
 environment. Among the DMCs of the parents, 98 followed the same
 methylation patterns in the offspring, three of which were significantly
 influenced by parental environments irrespective of their own rearing
 environment. Our results suggest that parental environment influences the
 behaviour and, to some extent, the brain DNA methylation patterns of the
 offspring.
description: All methods are fully described in the material and methods
 section of the manuscript.
DOI: 10.5061/dryad.k6djh9w47
title: Lure, retain, and catch malaria mosquitoes. How heat and humidity improve odour-baited trap performance

description: Background: When seeking a human for a blood meal, mosquitoes use several
 cues to detect and find their hosts. From this knowledge, counter-flow
 odour-baited traps have been developed that use a combination of CO2,
 odour-blend, visual cues and circulating airflow to attract and capture
 mosquitoes. Initially developed for monitoring, these traps are now also
 being considered as promising vector control tools. These traps are
 attractive to host-seeking mosquitoes, but their capture efficiency is
 low. It has been hypothesized that the lack of short-range host cues such
 as heat and increased local humidity often prevents mosquitoes from
 getting close enough to get caught; this lack might even trigger avoidance
 manoeuvres near the capture region. Methods: We tested how close-range
 host cues affect the flight behaviour of Anopheles female malaria
 mosquitoes around odour-baited traps, and how this affects trap capture
 performance. For this, a novel counter-flow odour-baited trap was
 developed, the M-Tego. In addition to the usual CO2 and odour-blend, this
 trap can provide the short-range host cues heat and humidity. By
 systematically adding or removing these two cues, we tested how this
 affected the trap capture percentages and flight behaviour. We first
 compared capture percentages of the M-Tego with and without short-range
 host cues to the BG-Suna trap, in both laboratory and semi-field testing.
 Then, we used machine-vision techniques to track the three-dimensional
 flight movements of mosquitoes around the M-Tego. Results: With heat and
 humidity present, the M-Tego captured significantly more mosquitoes as
 capture percentages almost doubled. Comparing the flight behaviour around
 the M-Tego with variable close-range host cues showed that when these cues
 were present, flying mosquitoes were more attracted to the trap and spent
 more time there. In addition, we found that the M-Tego has a better
 capture mechanism than the BG-Suna, most likely because it does not elicit
 previously-observed upward avoiding manoeuvres. Conclusions: Our results
 suggest that adding heat and humidity to an odour-baited trap lures more
 mosquitoes close to the trap and retains them there longer, resulting in
 higher capture performance. These findings support the development of
 control tools for fighting mosquito-borne diseases such as malaria.
description: See attached README.txt for additional information.
DOI: 10.5061/dryad.dbrv15dz4
title: Effects of food availability on the trophic niche of the hazel dormouse Muscardinus avellanarius

description: The scale at which variations in food availability affect the foraging
 habits of individual animals can determine how the distribution
 of food resources affects populations. For species of conservation
 concern, these factors can have important implications for the
 management of habitats, as spatial and temporal variations in resource
 availability influence the trophic ecology of both individuals
 and populations. The hazel dormouse Muscardinus avellanarius is a
 species with seasonal dietary shifts and limited ranging, and whose
 populations in Great Britain are exhibiting marked decline,
 despite conservation measures. We compared resource availability and
 variation in dormouse traits with their trophic characteristics,
 determined by stable isotope analysis of dormouse hair and
 of their putative food items. The trophic levels of individual
 dormice were associated with the abundance of invertebrates in
 the surrounding habitat and in the woodland as a whole. Assessment of
 dormouse dietary composition suggests that the proportions of
 invertebrates and of tree seeds and flowers in dormouse diets are
 affected by the abundance of food plants in the local habitat.
 This suggests that dormice can exploit both invertebrates and
 plants in proportion to their availability, and are variable in their
 predatory habits, in response to both the availability of
 invertebrates and plants. Dormouse populations exhibit a broader trophic
 niche in autumn than in spring, most likely a consequence of
 their consumption of foods derived from a wider variety of tree and
 shrub species. We found no relationship between isotope
 signatures or food availability and the body mass or torpor of
 individuals, or the status of populations. This may be because, on the
 sites we studied, dormice could adapt to different food
 availabilities without discernible individual and population effects.
 Dormice are opportunistic feeders, rather than specialists,
 making use of abundant food resources at a local scale. Habitat
 conservation for dormice, therefore, could benefit from
 establishing and maintaining habitats that increase the overall
 abundance and uniform distribution of both flower and
 fruit-bearing shrubs and trees and invertebrate populations, at a
 fine spatial scale.
description: Stable isotope analysis of hazel dormice and putative food items
 from woodlands in England.
DOI: 10.5061/dryad.1g1jwsts7
title: Data from: Phylogenetic structure in the Sphagnum recurvum complex (Bryophyta: Sphagnaceae) relative to taxonomy and geography

description: METHODS RADseq analyses were applied to a sample of 384 collections
 representing the European, North American, and (to a lesser extent) Asian
 ranges of the complex. The data were subjected to maximum likelihood
 phylogenetic analyses and analyses of genetic structure using the
 software, STRUCTURE, and multivariate ordination approaches. RESULTS
 Defined phylogenetically, the S. recurvum complex includes S.
 angustifolium , S. fallax , S. flexuosum , S. pacificum , and S. recurvum
 , as distinct clades with little evidence of admixture within them. In
 addition, we resolved another clade, sister to either S. pacificum or S.
 fallax , that is currently unnamed and is referred to in this paper as S.
 “pseudopacificum.” We confirm that S. balticum , a species not generally
 included in the S. recurvum complex, and S. obtusum , never associated
 with the complex by previous authors, are nested within it among the core
 species. Species with geographic ranges that span Europe, eastern North
 America, and Western North America exhibit a sister-group relationship
 between amphi-Atlantic and Pacific clades. European plants within S.
 flexuosum form a clade that is nested within a paraphyletic group of
 eastern North American plants; this species does not occur in western
 North America. CONCLUSIONS We recognize seven species in the amended S.
 recurvum complex, including S. balticum and S. obtusum , in addition to
 the informal clade, S. “pseudopacificum”. Although we detected some
 geographically-correlated phylogenetic structure within widespread
 morphospecies, our RADseq data support the interpretation that these
 species have intercontinental geographic ranges. Please be aware that if
 you ask to have your user record removed, we will retain your name in the
 records concerning manuscripts for which you were an author, reviewer, or
 editor. In compliance with data protection regulations, you may request
 that we remove your personal registration details at any time. (Use the
 following URL: https://www.editorialmanager.com/ajb/login.asp?a=r). Please
 contact the publication office if you have any questions.
description: Zipped folder with 294 files of demultiplexed Illumina reads for
 <em>Sphagnum</em> samples included in the analyses.
 Phylip format alignment of 6148 RADseq loci generated by ipyrad
 for the 294 <em>Sphagnum</em> samples.
 Structure format file (one line per sample, haploid data) with
 one randomly selected SNP per locus generated by ipyrad for 280 ingroup
 (Recurvum complex) <em>Sphagnum</em> samples.
DOI: 10.5061/dryad.np5hqbzq9
title: Data for: High-resolution land value maps reveal underestimation of conservation costs in the United States

description: The justification and targeting of conservation policy rests on reliable
 measures of public and private benefits from competing land uses. Advances
 in Earth system observation and modeling permit the mapping of public
 ecosystem services at unprecedented scales and resolutions, prompting new
 proposals for land protection policies and priorities. Data on private
 benefits from land use are not available at similar scales and
 resolutions, resulting in a data mismatch with unknown consequences. Here
 I show that private benefits from land can be quantified at large scales
 and high resolutions, and that doing so can have important implications
 for conservation policy models. I develop the first high-resolution
 estimates of fair market value of private lands in the contiguous United
 States by training tree-based ensemble models on 6 million land sales. The
 resulting estimates predict conservation cost with up to 8.5 times greater
 accuracy than earlier proxies. Studies using coarser cost proxies
 underestimated conservation costs, especially at the expensive tail of the
 distribution. This might have led to underestimations of policy budgets by
 factors of up to 37.5 in recent work. More accurate cost accounting will
 help policy makers acknowledge the full magnitude of contemporary
 conservation challenges, and can assist with the targeting of public
 ecosystem service investments.
description: See Methods & Materials in Nolte (2020) PNAS
description: The density of training data and the spatial distribution of
 prediction error are important indicators of data quality. See Methods
 & Materials and SI Appendix in Nolte (2020) PNAS.
description: # Data for: High-resolution land value maps reveal underestimation of
 conservation costs in the United States
 [https://doi.org/10.5061/dryad.np5hqbzq9](https://doi.org/10.5061/dryad.np5hqbzq9) ## Description of the data and file structure For methods & data, see Nolte (2020) PNAS: https://www.pnas.org/doi/10.1073/pnas.2012865117 ### Files and variables All dollar estimates are in USD per hectare, deflated to Jan 2017. Raster values are logged (natural log). #### File: places\_fmv\_all.tif **Description:** Raster of estimated land values in 2010, based on sales of vacant and non-vacant properties. Unit: ln($2017 / hectare) #### File: places\_fmv\_vacant.tif **Description:** Raster of estimated land values in 2010, based on sales of vacant properties. Unit: ln($2017 / hectare) #### File: validation\_goco.csv **Description:** Easement prices (`actual`, $2017 / hectare) vs. estimated land value (`places_fmv_vacant`, $2017 / hectare). #### File: validation\_public\_acquisitions.csv **Description:** Prices (`spending_per_ha`, $2017 / hectare) of publicly funded land acquisitions for conservation vs. all proxies shown in Fig. 2 of Nolte (2020) PNAS.
DOI: 10.7910/dvn/udmsir
title: Replication Data for: Job Satisfaction, Labor Market Conditions, and Rural–Urban Inequality, 2013–2023

description: This dataset contains the county–month data and scripts used in the study “Job Satisfaction, Labor Market Conditions, and Rural–Urban Inequality, 2013–2023.” The job-satisfaction indicator is derived from a fine-tuned large language model applied to 2.6 billion georeferenced tweets, aggregated to county level and merged with official labor-market statistics (BLS LAUS), ACS 5-year income, population, and USDA rural–urban codes. The data cover January 2013–December 2023. These files support replication of all analyses in the paper.
DOI: 10.5061/dryad.hx3ffbgbm
title: The evolution and fate of diversity under hard and soft selection - all data and code

description: How genetic variation arises and persists over evolutionary time despite
 the depleting effects of natural selection remains a long-standing
 question. Here, we investigate the impacts of two extreme forms of
 population regulation – at the level of the total, mixed population (hard
 selection) and at the level of local, spatially distinct patches (soft
 selection) – on the emergence and fate of diversity under strong divergent
 selection. We find that while the form of population regulation has little
 effect on rates of diversification it can modulate the long-term fate of
 genetic variation, diversity being more readily maintained under soft
 selection compared to hard selection. The mechanism responsible for
 coexistence is negative frequency dependent selection which, while present
 initially under both forms of population regulation, persists over the
 long-term only under soft selection. Importantly, coexistence is robust to
 continued evolution of niche specialist types under soft selection but not
 hard selection. These results suggest that soft selection could be a
 general mechanism for the maintenance of ecological diversity over
 evolutionary time scales.
DOI: 10.5061/dryad.w0vt4b8n9
title: Incucyte data for infected cell colonized with Wolbachia or uncolonized

description: The ability of the endosymbiont Wolbachia pipientis to restrict RNA
 viruses is presently being leveraged to curb global transmission of
 arbovirus-induced diseases. Past studies have shown that virus replication
 is limited early in arthropod cells colonized by the bacterium, although
 it is unclear if this phenomenon is replicated in mosquito cells that
 first encounter viruses obtained through a vertebrate blood meal.
 Furthermore, these cellular events neither explain how Wolbachia limits
 dissemination of viruses between mosquito tissues, nor how it prevents
 transmission of infectious viruses from mosquitoes to vertebrate host. In
 this study, we try to address these issues using an array of mosquito cell
 culture models, with an additional goal being to identify a common viral
 target for pathogen blocking. Our results establish the viral RNA as a
 cellular target for Wolbachia-mediated inhibition, with the incoming viral
 RNA experiencing rapid turnover following internalization in cells. This
 early block in replication in mosquito cells initially infected by the
 virus thus consequently reduces the production of progeny viruses from
 these same cells. However, this is not the only contributor to pathogen
 blocking. We show that the presence of Wolbachia reduces the per-particle
 infectivity of progeny viruses on naïve mosquito and vertebrate cells,
 consequently limiting virus dissemination and transmission, respectively.
 Importantly, we demonstrate that this aspect of pathogen blocking is
 independent of any particular Wolbachia-host association and affects
 viruses belonging to Togaviridae and Flaviviridae families of RNA viruses.
 Finally, consistent with the idea of the viral RNA as a target, we find
 that the encapsidated virion RNA is less infectious for viruses produced
 from Wolbachia-colonized cells. Collectively, our findings present a
 common mechanism of pathogen blocking in mosquitoes that establish a link
 between virus inhibition in the cell to virus dissemination and
 transmission.
description: These are raw data from the Incucyte intstrument collected as a
 timecourse using viruses tagged with mKate.
description: There are no missing values.
DOI: 10.5281/zenodo.18395420
title: weecology/PortalData: 6.47.0

description: v6.47.0
DOI: 10.5061/dryad.x3ffbg7g3
title: Data from: Contrasting trajectories of morphological diversification on continents and islands in the Afrotropical white-eye radiation

description: Aim Morphological and lineage evolution are predicted to follow different
 patterns in island and mainland radiations. However, the extent to which
 these geographical contexts influence evolutionary trajectories remains
 poorly understood, in part because few studies have focused on
 species-rich clades colonising continents and archipelagos over comparable
 timeframes. Focusing on a diverse songbird clade radiating on the African
 continent and adjacent islands, we tested whether morphological evolution
 is best explained by adaptive or non-adaptive processes, and whether
 mainland and island lineages evolved to occupy different regions or
 volumes of morphological space (morphospace). Location Palaeotropics, with
 a particular focus on the Afrotropical region. Taxon White-eyes, Zosterops
 (Aves: Zosteropidae) Methods We generated principal component axes from
 novel trait data for 120 species and combined this information with a
 comprehensive dated phylogeny. We then analysed the dynamics of trait and
 lineage diversification using comparative evolutionary methods. Results An
 early burst and slowdown pattern of lineage accumulation is not mirrored
 by phenotypic evolution, which instead shows an apparent convergence on
 particular phenotypes. However, the overall signature of phenotypic
 convergence is strongly driven by mainland taxa, in which phenotypes
 appear to be highly constrained within elevational zones, while speciation
 events are often associated with phenotypic divergence from one body plan
 to the other after colonisation of highland from lowland habitats, or vice
 versa. By contrast, island lineages have repeatedly explored novel areas
 of morphospace with patterns of phenotypic divergence generally not
 distinguishable from a random-walk model. Main conclusions Diversification
 of Zosterops highlights contrasting evolutionary trends and dynamics for
 continental versus island species. We suggest the different trajectory of
 evolution in insular lineages arises from reduced species competition
 leading to an increase in ecological opportunity, thereby providing a
 release to phenotypic constraints experienced by continental taxa.
description: Zosteropidae biometric data
DOI: 10.5061/dryad.pk0p2ngk9
title: Data from: Quantitative genetics of temperature performance curves of Neurospora crassa

description: Earth's temperature is increasing due to anthropogenic CO2 emissions;
 and organisms need either to adapt to higher temperatures, migrate into
 colder areas, or face extinction. Temperature affects nearly all aspects
 of an organism's physiology via its influence on metabolic rate and
 protein structure, therefore genetic adaptation to increased temperature
 may be much harder to achieve compared to other abiotic stresses. There is
 still much to be learned about the evolutionary potential for adaptation
 to higher temperatures, therefore we studied the quantitative genetics of
 growth rates in different temperatures that make up the thermal
 performance curve of the fungal model system Neurospora crassa. We studied
 the amount of genetic variation for thermal performance curves and
 examined possible genetic constraints by estimating the G-matrix. We
 observed a substantial amount of genetic variation for growth in different
 temperatures, and most genetic variation was for performance curve
 elevation. Contrary to common theoretical assumptions, we did not find
 strong evidence for genetic trade-offs for growth between hotter and
 colder temperatures. We also simulated short term evolution of thermal
 performance curves of N. crassa, and suggest that they can have versatile
 responses to selection.
description: For each growth assay, the data are the distances the mycelium
 has grown over time in a linear tube. From this data growth rates can be
 calculated using the R scripts provided with the dataset. For further
 details about the methods, see the manuscript in bioarxiv: doi:
 https://doi.org/10.1101/2020.01.16.909093
description: This is the data for the manuscript: "Quantitative genetics
 of temperature performance curves of <em>Neurospora
 crassa</em>. It is the growth of 428 different <em>Neurospora
 crassa</em> genotypes in six different temperatures. The goal was to
 estimate quantitative genetic parameters of the temperature performance
 curve. Please see the manuscript at bioarxiv for more details: doi:
 https://doi.org/10.1101/2020.01.16.909093
 See the included file Readme.txt for details