cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.bzkh189cb
title: Climate and mycorrhizae mediate the relationship of tree species diversity and carbon stocks in subtropical forests

description: 1. It is increasingly being recognized that tree species diversity has
 positive effects on forest ecosystem carbon (C) stock. However, at broad
 spatial scales this relationship may depend on climate conditions and
 species mycorrhizal associations. 2. Here, observations from 667 forest
 plots in subtropical China, were used to investigate the effects of
 species diversity, mean annual precipitation (MAP), mean annual
 temperature (MAT) and mycorrhizal type (arbuscular or ectomycorrhizal) on
 the forest C stock and its components (tree C stock, shrub layer C stock,
 herb layer C stock, litter layer C stock, root C stock and soil C stock).
 3. We found positive effect of tree species diversity on total forest C
 stock. MAP had positive effects on total forest C stock and its
 components, while MAT had consistently negative effects on total forest C
 stock and most of its components. Different levels of MAP and MAT did
 modulate the strength of effect of species diversity on forest C stock and
 its components. In addition, species diversity, MAT and MAP showed a
 significant positive relationship with arbuscular mycorrhiza-associated
 tree C stock but had no or negative relationship with
 ectomycorrhiza-associated tree C stock. 4. Synthesis. Our results indicate
 that maintaining high level of species diversity may support the buffering
 of negative effects resulting from climate warming. Furthermore, under
 climate warming the specific C stock of AM trees can increase, which can
 potentially promote forest C stock. Taken together, our study suggests
 that afforestation policies should consider not only tree species
 diversity to increase forest C stock but also the effects of different
 tree mycorrhizal types.
description: In the field surveys, we randomly set
 sampling plots across the study area. The sampling size of each plot was
 30 m × 20 m. In each plot, all tree stems ≥ 3 cm in DBH (diameter at
 breast height = 1.3m) were individually recorded, measured (including DBH
 and height) and identified to species level during 2011-2013. Shrub, herb,
 litter, root and soil C stock also were measured based on the classic
 method.
DOI: 10.5281/zenodo.18245428
title: The Climate Opportunities of Risks of Contrail Avoidance - Input Aviation Data

description: This repository contains aviation data that is inputted to the Aviation Climate and Air Quality Impacts model to generate the climate outputs for the journal publication titled The Climate Opportunities and Risks of Contrail Avoidance.

The aviation_scenarios.zip file contains a series of .csv files that detail profiles of fleet wide annual flown distance, annual carbon dioxide emissions from aviation over time. The .csv files also detail profiles of performance values over time which relate to the adoption of navigational contrail avoidance and modified fuel composition. These mitigation measures alter the annual contrail formation and carbon dioxide emissions from aviation, as described in The Climate Opportunities and Risks of Contrail Avoidance.

The aviation_scenario_generator.xlsx file is used to generate the .csv files in aviation_scenarios.zip from raw literature data.
DOI: 10.5281/zenodo.18245429
title: The Climate Opportunities of Risks of Contrail Avoidance - Input Aviation Data

description: This repository contains aviation data that is inputted to the Aviation Climate and Air Quality Impacts model to generate the climate outputs for the journal publication titled The Climate Opportunities and Risks of Contrail Avoidance.

The aviation_scenarios.zip file contains a series of .csv files that detail profiles of fleet wide annual flown distance, annual carbon dioxide emissions from aviation over time. The .csv files also detail profiles of performance values over time which relate to the adoption of navigational contrail avoidance and modified fuel composition. These mitigation measures alter the annual contrail formation and carbon dioxide emissions from aviation, as described in The Climate Opportunities and Risks of Contrail Avoidance.

The aviation_scenario_generator.xlsx file is used to generate the .csv files in aviation_scenarios.zip from raw literature data.
DOI: 10.5061/dryad.79cnp5hz3
title: Insect seed and cone predation reduces reproductive potential of treeline conifers across northern Canada

description: Aim: Altitudinal and latitudinal treeline ecotones have not
 consistently responded to climate warming the in direction and/or
 magnitude as predicted by climate alone, suggesting that non-climatic
 mechanisms (e.g., biotic interactions) are also mediating treeline range
 dynamics. Through a collaborative research approach, we assessed
 environmental conditions associated with insect cone granivory and how
 this biotic interaction may govern the reproductive potential, and
 therefore range dynamics, of spruce-dominated treelines across northern
 Canada.  Location: Ten boreal forest treelines, tundra
 and alpine, from Yukon to Newfoundland and Labrador, Canada
 Taxa: White spruce (Picea glauca (Moench) Voss), Black
 spruce (Picea mariana (Mill.)
 B.S.P.), Strobilomyia spp., Megastigmus spp. Methods: Treeline sites were assessed for presence and magnitude of pre-seed dispersal granivory by insects, and viability of available seed was determined. We quantified stand density metrics, organic layer depth, and understory vegetation composition at each location and, subsequently, incorporated those variables into generalized linear mixed models to establish predictors of granivory magnitude and viability of available seed.  Results: Our findings reveal the widespread presence of insect granivory across sites, however, site-specific patterns of granivory were associated with increased moss cover and decreased shrub cover and stand density. While all black-spruce-dominated sites exhibited seed viability rates greater than 50%, the number of seeds produced per cone varied, suggesting that within-site abiotic conditions and biotic interaction pressures limit successful colonization of novel environments in advance of seed dispersal.  Main Conclusions: Results from the modelled relationships between cone granivory, seed viability, and environmental conditions represent an essential step toward generalizing how and when biotic interactions across subarctic treelines influence boreal tree range dynamics before seed dispersal. Connections between granivory magnitude and site-level stand density will help establish how treeline form (e.g., discrete or diffuse) may drive patterns of future insect outbreaks under continued climate warming.
DOI: 10.15468/dl.ejasxc
title: Occurrence Download

description: A dataset containing 34 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "and" : [
 "NetworkKey is 99d66b6c-9087-452f-a9d4-f15f2c2d0e7e",
 "TaxonKey is Chordata"
 ]
 },
 {
 "and" : [
 "Country is one of (United States of America)",
 "BasisOfRecord is one of (Specimen)",
 "StateProvince is one of (Illinois)",
 "InstitutionCode is one of (CHAS)",
 "Geometry POLYGON((-89.44353 41.42571,-89.61813 41.50333,-89.61222 41.42571,-89.60926 41.32133,-89.62701 40.87306,-89.04104 40.87753,-88.64447 41.26129,-88.96113 41.43237,-89.44353 41.42571))"
 ]
 }
 ]
}

 The dataset includes 34 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003157-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.bzkh189cc
title: COVID-related tweets in the period between January and May 2020

description: Online platforms play a relevant role in the creation and diffusion of
 false or misleading news. Concerningly, the COVID-19 pandemic is shaping a
 communication network which reflects the emergence of collective attention
 towards a topic that rapidly gained universal interest. Here, we
 characterize the dynamics of this network on Twitter, analysing how
 unreliable content distributes among its users. We find that a minority of
 accounts is responsible for the majority of the misinformation circulating
 online, and identify two categories of users: a few active ones, playing
 the role of ‘creators’, and a majority playing the role of ‘consumers’.
 The relative proportion of these groups (approx. 14% creators—86%
 consumers) appears stable over time: consumers are mostly exposed to the
 opinions of a vocal minority of creators (which are the origin of 82% of
 fake content in our data), that could be mistakenly understood as
 representative of the majority of users. The corresponding pressure from a
 perceived majority is identified as a potential driver of the ongoing
 COVID-19 infodemic.
description: The datasets that we used in this work come from the COVID-19
 Infodemics Observatory (https://covid19obs.fbk.eu/#/). Tweets associated with the COVID-19 pandemics (coronavirus, ncov, #Wuhan, covid19, COVID-19, SARSCoV2, COVID) have been automatically collected using the Twitter Filter API. It contains 7.7 million retweets in the case of USA, 300 thousand in the case of Italy and 900 thousand in the case of the UK. The time of the collection goes from the 22nd of January to the 22nd of May for the USA, while for Italy and the UK it goes from the 22nd of January to the 2nd of December. For each tweet we specified the ID code as well as the time at which it was created. In this dataset one can also find the tables necessary to reproduce exactly the figures in the paper.
DOI: 10.5061/dryad.8pk0p2nqs
title: Data for: Foster children’s perspectives on participation in child welfare processes

description: The objective of this meta-synthesis was to systematically synthesise
 qualitative research that explores foster children’s perspectives on
 participation in child welfare processes. Searches were conducted in
 Medline (OVID), Embase, PsycINFO, and Social Science Citation Index.
 Children in non-kinship foster care in any setting (high-income,
 middle-income, low-income countries) who self-reported their experiences
 of care (removal from home, foster family processes, placement breakdown)
 were eligible for inclusion. Selected studies took place in 11 high-income
 countries. A total of 8436 citations were identified and 25 articles were
 included in this meta-synthesis. Studies summarized the views of 376
 children. Children had been in foster care for between two weeks and 17
 years. Findings synthesize ‘facets’ of children’s participation (e.g.,
 being asked vs making decisions), as well as children’s perceived barriers
 and facilitators to participation. One main priority for children was the
 quality of their relationships, especially in terms of values (e.g.,
 fairness, honesty, inclusivity). No one way of participating in child
 welfare processes is better than another, as some children more clearly
 expressed a desire for passive listening roles and others indicated a
 desire for active roles in decision-making. However, meaningful adults in
 foster children’s lives have a responsibility to act in a way that
 strengthens the emphasis on children’s needs and voices.
description: For this meta-synthesis we 1) conducted a systematic search, 2)
 quality appraised included articles, and 3) inductively analyzed included
 studies. This data set contains the coding for the data analysis. Authors
 independently placed the primary data from each study and its
 corresponding code into an Excel file, and these files were compared for
 consistency. Primary data, usually found in the Results section of
 included articles, included children’s quotes and study authors’ summaries
 of children’s words when direct quotes were not available. As Dryad does
 not redistribute any data acquired from a source that is under copyright,
 and all of the articles in this data set are under copyright, the excel
 file in Dryad indicates if a theme is “present” (marked with a 1) or
 “absent” (marked with a 0) in the included articles (denoted by the
 citation of the relevant article).
description: This data set is contained in an Excel file, so Excel is required
 to open the data file.
DOI: 10.5061/dryad.2ngf1vhr5
title: Data From: Shifts in morphological covariation and evolutionary rates across multiple acquisitions of the trap-jaw mechanism in Strumigenys

description: A long-standing question in comparative biology is how the evolution of
 biomechanical systems influence morphological evolution. The need for
 functional fidelity implies that the evolution of such systems should be
 associated with tighter morphological covariation, which may promote or
 dampen rates of morphological evolution. I examine this question across
 multiple evolutionary origins of the trap-jaw mechanism in the genus
 Strumigenys. Trap-jaw ants have latch-mediated, spring actuated systems
 that amplify the power output of their mandibles. I use Bayesian estimates
 of covariation and evolutionary rates to test the hypotheses that the
 evolution of this high-performance system is associated with tighter
 morphological covariation in the head and mandibles relative to
 non-trap-jaw forms and that this leads to shifts in rates of morphological
 evolution. Contrary to these hypotheses, there is no evidence of a
 large-scale shift to higher covariation in trap-jaw forms while different
 traits show both increased and decreased evolutionary rates between forms.
 These patterns may be indicative of many-to-one mapping and/or mechanical
 sensitivity in the trap-jaw LaMSA system.  Overall, it appears
 that the evolution of trap-jaw forms in Strumigenys did not require a
 correlated increase in morphological covariation, partly explaining the
 proclivity with which the system has evolved.
description: Images of Strumigenys ant species were downloaded from
 antweb.org. The images were loaded into ImageJ where linear measurments
 were taken. Detailed methods can be found in the associated
 publication.
DOI: 10.5061/dryad.2280gb5vn
title: Data from: Trading water for carbon in the future: effects of elevated CO2 and warming on leaf hydraulic traits in a semiarid grassland

description: The effects of climate change on plants and ecosystems are mediated by
 plant hydraulic traits, including interspecific and intraspecific
 variability of trait phenotypes. Yet, integrative and realistic studies of
 hydraulic traits and climate change are rare. In a semiarid grassland, we
 assessed the response of several plant hydraulic traits to elevated CO2
 (+200 ppm) and warming (+1.5 to 3℃; day to night). For leaves of five
 dominant species (three graminoids, two forbs), and in replicated plots
 exposed to seven years of elevated CO2, warming, or ambient climate, we
 measured: stomatal density and size, xylem vessel size, turgor loss point,
 and water potential (pre-dawn). Interspecific differences in hydraulic
 traits were larger than intraspecific shifts induced by elevated CO2
 and/or warming. Effects of elevated CO2 were greater than effects of
 warming, and interactions between treatments were weak or not detected.
 The forbs showed little phenotypic plasticity. The graminoids had leaf
 water potentials and turgor loss points that were 10 to 50% less negative
 under elevated CO2; thus, climate change might cause these species to
 adjust their drought resistance strategy away from tolerance and toward
 avoidance. The C4 grass also reduced allocation of leaf area to stomata
 under elevated CO2, which helps explain observations of higher soil
 moisture. The shifts in hydraulic traits under elevated CO2 were not,
 however, simply due to higher soil moisture. Integration of our results
 with others’ indicates that common species in this grassland are more
 likely to adjust stomatal aperture in response to near-term climate
 change, rather than anatomical traits; this contrasts with apparent
 effects of changing CO2 on plant anatomy over evolutionary time. Future
 studies should assess how plant responses to drought may be constrained by
 the apparent shift from tolerance (via low turgor loss point) to avoidance
 (via stomatal regulation and/or access to deeper soil moisture).
DOI: 10.5061/dryad.4j0zpc8fc
title: Data from: eDNA-stimulated cell dispersion from Caulobacter crescentus biofilms upon oxygen limitation is dependent on a toxin-antitoxin system

description: In their natural environment, most bacteria preferentially live as complex
 surface-attached multicellular colonies called biofilms. Biofilms begin
 with a few cells adhering to a surface, where they multiply to form a
 mature colony. When conditions deteriorate, cells can leave the biofilm.
 This dispersion is thought to be an important process that modifies the
 overall biofilm architecture and that promotes colonization of new
 environments. In Caulobacter crescentus biofilms, extracellular DNA (eDNA)
 is released upon cell death and prevents newborn cells from joining the
 established biofilm. Thus, eDNA promotes the dispersal of newborn cells
 and the subsequent colonization of new environments. These observations
 suggest that eDNA is a cue for sensing detrimental environmental
 conditions in the biofilm. Here we show that the toxin-antitoxin system
 (TAS) ParDE4 stimulates cell death in areas of a biofilm with decreased O2
 availability. In conditions where O2 availability is low, eDNA
 concentration is correlated with cell death. Cell dispersal away from
 biofilms is decreased when parDE4 is deleted, probably due to the lower
 local eDNA concentration. Expression of parDE4 is positively regulated by
 O2 and the expression of this operon is decreased in biofilms where O2
 availability is low. Thus, a programmed cell death mechanism using an
 O2-regulated TAS stimulates dispersal away from areas of a biofilm with
 decreased O2 availability and favors colonization of a new, more
 hospitable environment.
description: This dataset includes all the data and microscopy images used to
 generate the figures from the manuscript "eDNA-stimulated cell
 dispersion from Caulobacter crescentus biofilms upon oxygen limitation is
 dependent on a toxin-antitoxin system" by Cecile Berne, Sebastien
 Zappa and Yves Brun. See README document for more
 information.
DOI: 10.5061/dryad.02v6wwq5z
title: Transcript- and annotation-guided genome assembly of the European starling

description: The European starling, Sturnus vulgaris, is an ecologically significant,
 globally invasive avian species that is also suffering from a major
 decline in its native range. Here, we present the genome assembly and
 long-read transcriptome of an Australian-sourced European starling (S.
 vulgaris vAU), and a second North American genome (S. vulgaris vNA), as
 complementary reference genomes for population genetic and evolutionary
 characterisation. S. vulgaris vAU combined 10x Genomics linked-reads,
 low-coverage Nanopore sequencing, and PacBio Iso-Seq full-length
 transcript scaffolding to generate a 1050 Mb assembly on 1,628 scaffolds
 (72.5 Mb scaffold N50). Species-specific transcript mapping and gene
 annotation revealed high structural and functional completeness (94.6%
 BUSCO completeness). Further scaffolding against the high-quality zebra
 finch (Taeniopygia guttata) genome assigned 98.6% of the assembly to 32
 putative nuclear chromosome scaffolds. Rapid, recent advances in
 sequencing technologies and bioinformatics software have highlighted the
 need for evidence-based assessment of assembly decisions on a case-by-case
 basis. Using S. vulgaris vAU, we demonstrate how the multifunctional use
 of PacBio Iso-Seq transcript data and complementary homology-based
 annotation of sequential assembly steps (assessed using a new tool, SAAGA)
 can be used to assess, inform, and validate assembly workflow decisions.
 We also highlight some counter-intuitive behaviour in traditional BUSCO
 metrics, and present BUSCOMP, a complementary tool for assembly comparison
 designed to be robust to differences in assembly size and base-calling
 quality. Finally, we present a second starling assembly, S. vulgaris vNA,
 to facilitate comparative analysis and global genomic research on this
 ecologically important species.
DOI: 10.5061/dryad.xd2547dkk
title: Camera trap data used for assessment of movement patterns by injured moose

description: The data were collected from camera trap recordings of animals on a remote
 trail in northern British Columbia, Canada, from 2017-2020. The data were
 used for an assessment of the general fauna composition of the area; and
 also for assessing movement patterns of moose - especially those with
 obvious leg injuries. The data set includes 4562 observations - that is,
 instances of an animal recorded on a given video. For further description
 see the paper "Performance of Wild Animals with “Broken” Traits:
 Movement Patterns in Nature of Moose That Have Leg Injuries"
 published in Ecology and Evolution.
description: Camera traps were set to record videos of animals on a remote
 trail. The videos were screened and the data were recorded manually. For
 further description see the paper "<strong style="text-align:center;">Performance of Wild Animals with “Broken”
 Traits: </strong><strong>Movement Patterns in Nature of Moose That
 Have Leg Injuries" published in Ecology and
 Evolution.</strong>
DOI: 10.5281/zenodo.18400672
title: Machine learning-based remote sensing retrieval of phytoplankton functional groups in the Yellow River Estuary
DOI: 10.5061/dryad.w9ghx3frx
title: Lichen speciation is sparked by a substrate requirement shift and reproduction mode differentiation

description: We show that obligate lignicoles in lichenized Micarea are predominately
 asexual whereas most facultative lignicoles reproduce sexually.AQ1 Our
 phylogenetic analyses (ITS, mtSSU, Mcm7) together with ancestral state
 reconstruction show that the shift in reproduction mode has evolved
 independently several times within the group and that facultative and
 obligate lignicoles are sister species. The analyses support the
 assumption that the ancestor of these species was a facultative lignicole.
 We hypothezise that a shift in substrate requirement from bark to wood
 leads to differentiation in reproduction mode and becomes a driver of
 speciation. This is the first example of lichenized fungi where
 reproduction mode is connected to substrate requirement. This is also the
 first example where such an association is demonstrated to spark lichen
 speciation. Our main hypothesis is that obligate species on dead wood need
 to colonize new suitable substrata relatively fast and asexual
 reproduction is more effective a strategy for successful colonization.
DOI: 10.5281/zenodo.18400671
title: Machine learning-based remote sensing retrieval of phytoplankton functional groups in the Yellow River Estuary