cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.x0k6djhq7
title: Trade-off between dispersal traits in a heterocarpic plant across its invasion route

description: Dispersal ability can vary across plant species or populations, such as
 among core compared to leading populations of invasive plants. However, in
 heterocarpic plants, which produce propagules with varying dispersal
 abilities, dispersal potential can also increase via investment in the
 proportion of dispersing morphs (termed dispersal rate). Nevertheless,
 very little is known about the interplay between investment in dispersing
 structures vs. dispersal rate or how each is affected by varying
 environmental pressures. Methods This study examined the interplay between
 investment in dispersing structures and dispersal rate across the invasion
 route of the heterocarpic plant Heterotheca
 subaxillaris. H. subaxillaris's capitula were collected from
 eight populations along its invasion route in the Eastern Mediterranean
 coastal plain. The dispersal ability of dispersing pappus-bearing achenes
 was measured as the ratio between their pappus width and biomass. The
 dispersal rate was calculated as the ratio between the number of
 dispersing achenes and total achenes per capitulum.  Key
 Results  The dispersal ability of the dispersing achenes and
 dispersal rate were found to be negatively correlated across H.
 subaxillaris' populations, with a greater investment in pappus length
 in populations at the leading edge of the invasion compared to a greater
 number of dispersing achenes in core populations. Conclusions 
 Our results suggest a trade-off might exist between dispersal ability and
 dispersal rate, which could change along the invasion route of
 heterocarpic plants such as H. subaxillaris and contribute to their
 invasive success. This study highlights the importance of examining both
 dispersal traits when studying the dispersal potential of heterocarpic
 species.
DOI: 10.5061/dryad.h18931zrh
title: Nitrogen fixation and gas exchange response to evaporative demand in soybean

description: Atmospheric vapor pressure deficit (VPD) is increasing in many regions and
 has a large impact on plant productivity. A VPD increase leads to raising
 transpiration rate (TR) and soil-water demand, risking productivity
 penalties. Like water, nitrogen is critical to productivity, but the
 effect of VPD on legume nitrogen fixation is undocumented. To
 address this, we developed a portable system for quantifying nitrogen
 fixation noninvasively and at a high temporal resolution by tracking the
 rate of hydrogen gas evolution by root nodules. Combining field and
 controlled-environment experiments where we measured leaf gas exchange and
 H2 production by nodules, we confirmed the ability of the system to track
 nitrogen-fixation dynamics. Raising VPD from 0.5 to 3 kPa within
 ~2.5 hrs under well-watered conditions increased nitrogen fixation by up
 to 25% in addition to TR, consistent with the hypothesis that raising VPD
 in that range might have alleviated nitrogenase feedback inhibition.
 Genotypic differences were found in this response, indicating a potential
 for breeding. Our study provides evidence for an important
 environmental effect on nitrogen fixation that is not taken into account
 in current crop and vegetation models, pointing to untapped avenues for
 better understanding climate change effects on legumes and nitrogen
 cycling.
DOI: 10.6084/m9.figshare.31169590.v1
title: Data and Script for: A computational text analysis of recent African digital health strategies and their attention to vulnerable populations

description: Final analysis script and data used for the paper " A computational text analysis of recent African digital health strategies and their attention to vulnerable populations" to enhance methodological transparency. The Zip folder includes the following:Python script for the LDA analysisPython script incl. final list of terms for the dictionary analysisPre-processed test corpus of the included digital health strategies
DOI: 10.6084/m9.figshare.31169590
title: Data and Script for: A computational text analysis of recent African digital health strategies and their attention to vulnerable populations

description: Final analysis script and data used for the paper " A computational text analysis of recent African digital health strategies and their attention to vulnerable populations" to enhance methodological transparency. The Zip folder includes the following:Python script for the LDA analysisPython script incl. final list of terms for the dictionary analysisPre-processed test corpus of the included digital health strategies
DOI: 10.5061/dryad.djh9w0w4x
title: Formica fusca: Queen fecundity, worker entourage, and cuticular chemistry in the ant Formica fusca

description: Cooperative breeding entails conflicts over reproductive shares that may
 be settled in different ways. In ants, where several queens simultaneously
 reproduce in a colony, both queens and workers may influence the
 reproductive apportionment and offspring quality. Queens may vary in their
 intrinsic fecundity, which may influence the size of the worker entourage
 attending individual queens, and this may eventually dictate the
 reproductive output of a queen. We tested whether the reproductive success
 of queens is affected by the size of their worker entourage, their
 fecundity at the onset of the reproductive season, and whether the queen
 cuticular hydrocarbon profile carries information on fecundity. We show
 that in the ant Formica fusca both queen fecundity and egg hatching
 success increase with the size of their entourage, and that initially
 highly fecund queens lay larger eggs. Furthermore, higher relatedness
 among workers increased queen fecundity. Finally, the queens that received
 a large worker entourage differed in the cuticular chemistry from those
 that received a small worker entourage. Our results thus show that workers
 play a pivotal role in determining queen fitness that high intracolony
 relatedness among workers enhances the overall reproductive output in the
 colony, and that queen fecundity is reflected in their cuticular
 hydrocarbon profile.
description: Laboratory experiments in which queens of the ant Formica fusca
 were allotted a large (50 workers) or a small (5 workers) entourage, and
 allowed to lay eggs. The reproductive output was recorded, the queens and
 10 workers were genotyped, and the cuticlar hydrocarbon profiled of the
 queens were analysed.
DOI: 10.5061/dryad.s4mw6m9bc
title: Divergent responses of grassland productivity and plant diversity to intra-annual precipitation variability across climate regions: A global synthesis

description: Global warming intensifies the hydrological cycle and may result in
 changes in the frequency and intensity of precipitation events. Although
 the effects of changes in precipitation amount and inter-annual
 precipitation variability on terrestrial plant productivity and carbon
 sequestration have been well studied, how intra-annual precipitation
 variability affects terrestrial ecosystem function remains unclear. Here,
 we synthesized field manipulative experiments from 71 publications to
 quantify the effects of intra-annual precipitation variability increases
 (IPVI) on community biomass and plant diversity in grasslands worldwide.
  At the global scale, we found that IPVI generally increased
 grassland community aboveground biomass (AGB) by 6%, and decreased grass
 biomass and soil ammonium nitrogen by 12% and 31%, respectively. IPVI
 stimulated AGB, belowground biomass, and plant species richness in arid
 regions, but not changed them in humid regions. Changes in AGB under IPVI
 were related to changes in the biomass of plant functional groups, species
 richness, and soil moisture. Structural equation modelling demonstrated
 that that climate conditions (mean annual temperature and mean annual
 precipitation) and background soil properties (soil sand content and soil
 organic carbon content) jointly regulated grassland AGB responses to IPVI
 across climate types. Synthesis: Overall, our study shows that grassland
 productivity and diversity may increase under IPVI in arid climates, and
 that humid grasslands may be highly resistant to the effects of IPVI.
 These findings have important implications for understanding ecosystem
 carbon cycling under global precipitation change scenarios.
DOI: 10.5061/dryad.cc2fqz6bc
title: Community reorganization stabilizes freshwater ecosystems in intensively managed agricultural fields

description: Sustainable intensification may depend on associating precision farming
 with the harnessing of ecological principles in crop fields and with
 integrating farms and non-farmed land in productive landscapes. Small
 wetlands could play an important role in both pursuits for having high
 per-unit-area rates of element cycling and species richness while deeply
 penetrating crop fields. However, their potential for ecosystem service
 provisioning is unlikely to be met if land management intensification
 promotes ecosystem destabilization in biomass production.  We
 tested the consequences of land use intensification on various dimensions
 of freshwater ecosystem stability by means of a large-scale field
 experiment converting extensive pastures to intensive pastures and
 sugarcane plantations in Southeastern Brazil. Nested within experimental
 plots were 4,000-L mesocosms simulating ponds and puddles commonly found
 in productive landscapes. Mesocosms were monitored for basic
 physico-chemical parameters, nutrients, pesticides, phytoplankton standing
 crop, and the spontaneously colonizing biodiversity. 3. Despite severe
 environmental change, the stability of sugarcane communities was no
 different from that of extensive and intensive pastures. This occurred
 because the local extinction of a sensitive top dragonfly predator
 following the application of vinasse and insecticide was compensated by
 colonization of a suite of more tolerant invertebrate mesopredators such
 as beetles and bugs. Community stability tended to increase with biomass
 asynchrony and species richness, evidencing a portfolio effect of
 biodiversity. Unfortunately, the species richness necessary to stabilize
 biomass production is unlikely to be available in many sugarcane fields
 and several other row crops. Synthesis and applications. Ponds and puddles
 could be effective centers of irradiation of ecosystem service
 provisioning in agricultural fields in terms of pest control; nutrient
 accumulation, cycling, and export back to fields; and habitat and stepping
 stones for freshwater biodiversity. However, the impoverished biodiversity
 that results from a combination of harsh local conditions and spatial
 isolation renders pond communities inherently unstable. Given the
 unlikely, immediate reduction in agrochemical use in much of the
 intensively managed crop area, a combination of large, protected source
 wetlands at the margin of fields and small constructed or naturally
 forming ponds and puddles in plantations could contribute to sustainable
 intensification.
DOI: 10.5061/dryad.sj3tx9691
title: Data from: Internal injuries in marine fishes caught in beam trawls using electrical versus mechanical stimulations

description: To improve the ecological and economic sustainability in the Dutch beam
 trawl fishery, tickler chains were replaced by electrical pulse
 stimulation to drive sole (Solea solea) out of the seabed. Because
 electrical stimulation may cause internal injuries, we quantified this
 risk by sampling fish species from commercial beam trawlers and recording
 spinal injuries and haemorrhages from X-radiographs and autopsy. To
 distinguish mechanically and electrical-pulse-induced injuries, we
 compared injuries in ten species sampled from pulse (PUL) and
 tickler-chain (TCK) trawlers and four species sampled from PUL trawlers
 with the stimulus switched on or off. Co-occurrence of a major spinal
 injury and major haemorrhage at the same location was only observed in PUL
 samples, and were frequently (40%) observed in cod (Gadus morhua) and in
 low numbers (0–2%) in whiting (Merlangius merlangus), grey gurnard
 (Eutrigla gurnardus), and greater sandeel (Hyperoplus lanceolatus), but
 not in flatfishes and other species. In cod, injury occurrence correlated
 with fish length, with lower probabilities for small fish. Major spinal
 injury or major haemorrhage occurrence in PUL (range: &lt;1–16%) was
 lower than in TCK (range: &lt;1–42%) in eight of the ten species
 studied. Population-level consequences of pulse-induced injuries are
 considered negligible.
description: See the manuscript mentioned at the end of this
 section for details on the creation of this data set. Description of
 column headers is provided in a separate data sheet: see "Usage
 notes". Boute,
 P.G., Rijnsdorp, A.D., van Leeuwen, J.L., Pieters, R.P.M., Lankheet, M.J.
 (2023). Internal injuries
 in marine fishes caught in beam trawls using electrical versus mechanical
 stimulations. ICES Journal of Marine Science. DOI: 10.1093/icesjms/fsad064.
description: Three files are included:
 Boute-et-al-2023_IJMS_injury-dataset_all.csv:
 contains the data used in Boute <em>et
 al. </em>(2023). Boute-et-al-2023_IJMS_injury-dataset_codebook.csv: contains description of the column headers in the file "Boute-et-al-2023_IJMS_injury-dataset_all.csv". README.md: contains information on the data set.
DOI: 10.5061/dryad.2fqz612tm
title: Supplementary materials to: Nano-Strainer: a workflow for identification of single-copy nuclear loci for plant systematic studies, using target capture kits and Oxford Nanopore long reads

description: In the paper associated with this dataset, a workflow is presented which
 enables the identification of single-/low-copy nuclear molecular markers
 for a plant group of interest, by mining data from a small representative
 target capture experiment done using a commercial probe kit and Oxford
 Nanopore long-read sequencing. The proposed pipeline first assesses
 sequence variability contained in the data from targeted loci and assigns
 reads to their respective genes, via a combined BLAST/clustering
 procedure. Cluster consensus sequences are then examined based on four
 pre-defined criteria presumably indicative for absence of paralogy. This
 is done by calculating four specialized indices; loci are ranked according
 to their performance in these indices, and top-scoring loci are considered
 putatively single- or low-copy. The approach can be applied to any probe
 set. As it relies on long reads, the contribution also provides template
 workflows for processing Nanopore-based target capture data. Identified
 loci can be used for NGS amplicon sequencing. For detection of possibly
 remaining paralogy in these data, which might occur in groups with rampant
 paralogy, the long-read assembly tool CANU is employed. The presented
 workflow can be useful for researchers dealing with reticulate or
 polyploidization phylogenetic histories in plants. The present dataset
 contains several documents supplementing the original paper. Its most
 important elements are a detailed description (alongside two graphical
 workflow figures) of all methods employed in the study, suitable for
 reproducing the steps of the workflow and also the wet-lab work. The
 workflow employs a collection of BASH, Python and R scripts which is
 available here, together with a detailed account on command line use in
 Linux. Also, reference sequences for the identified markers can be found
 as well as sequence alignments derived from the amplicon sequencing.
description: For opening of the files included with this submission, the
 following programs are required: Microsoft Office or an open-source
 alternative for viewing DOCX and XLSX files, a PDF viewer, a standard
 sequence alignment program and a file archive unpacking tool capable of
 handling ZIP files and GZIPPED tar archives.
DOI: 10.5061/dryad.dbrv15f5n
title: Genotype and genetic diversity data for: Contrasts in riverscape patterns of intraspecific genetic variation in a diverse Neotropical fish community of high conservation value

description: Spatial patterns in genetic variation compared across species provide
 information about the predictability of genetic diversity of natural
 populations and areas requiring conservation measures. Due to their
 remarkable fish diversity, rivers in Neotropical regions are ideal systems
 to confront theory with observations and would benefit greatly from such
 approaches given their increasing vulnerability to anthropogenic
 pressures. We used SNP data from 18 fish species with contrasting
 life-history traits, co-sampled across 12 sites in the Maroni – a major
 river system from the Guiana Shield – to compare patterns of intraspecific
 genetic variation and identify their underlying drivers. Analyses of
 covariance revealed a decrease in genetic diversity as distance from the
 river outlet increased for 5 of the 18 species, illustrating a pattern
 commonly observed in riverscapes for species with low-to-medium dispersal
 abilities. However, mean within-site genetic diversity was lowest in the
 two easternmost tributaries of the Upper Maroni and around an urbanized
 location downstream, indicating the need to address the potential
 influence of local pressures in these areas, such as goldmining or
 fishing. Finally, the relative influence of isolation by stream distance,
 isolation by discontinuous river flow and isolation by spatial
 heterogeneity in effective size on pairwise genetic differentiation varied
 across species. Species with similar dispersal and reproductive guilds did
 not necessarily display shared patterns of population structure.
 Increasing the knowledge of specific life history traits and ecological
 requirements of fish species in these remote areas should help further
 understand factors that influence their current patterns of genetic
 variation.
DOI: 10.5061/dryad.mcvdnck58
title: Data from: The consequences of heatwaves for animal reproduction are timing-dependent

description: In light of the increased frequency of heatwaves due to climate change, it
 is crucial to better understand their potential effects on animal
 reproduction. Heat stress can affect all aspects of reproduction,
 including gamete development, fertilisation success, parental care, and
 offspring survival. We may therefore expect these effects to be highly
 sensitive to the timing of a heatwave event relative to an organism’s
 reproductive cycle, but this remains untested. Here, we address this
 fundamental gap using an insect study system (Nicrophorus vespilloides) to
 test whether variation in the timing of a heatwave within a short
 timeframe has differential effects on reproductive success and offspring
 fitness. We show that heatwaves have little to no effect when they occur a
 few days before or after mating, but they are highly detrimental for
 fitness if they occur during mating. Individuals that experienced a
 heatwave during mating were significantly less likely to have a successful
 breeding bout, had a longer breeding bout, and their offspring were
 smaller and suffered a lower survival rate. Our study is the first to show
 that variation in the timing of a heatwave event over very short
 timescales (on the order of days) can have drastically different
 consequences for animal reproduction. This work provides novel insights
 into the vulnerability of organisms at different stages of their
 reproductive cycle and can improve our ability to make informed
 predictions about the ecological consequences of heatwaves under climate
 change.
DOI: 10.5061/dryad.tmpg4f53n
title: Data from: Costs and benefits of voluntary attention in crows

description: Behavioral signatures of voluntary, endogenous selective attention have
 been found in both mammals and birds, but the relationship between
 performance benefits at attended and costs at unattended locations remains
 unclear. We trained two carrion crows (Corvus corone) on a Posner-like
 spatial cueing task with dissociated cue and target locations, using both
 highly predictive and neutral central cues to compare reaction time and
 detection accuracy for validly, invalidly and neutrally cued targets. We
 found robust reaction time effects of predictive cueing at varying
 stimulus-onset asynchronies (SOA) that resulted from both advantages at
 cued locations and costs at un-cued locations. Both crows showed cueing
 effects around 15-25 ms with an early onset at 100 ms SOA,
 comparable to macaques. Our results provide a direct assessment of costs
 and benefits of voluntary attention in a bird species. They show that
 crows are able to guide spatial attention using associative cues, and that
 the processing advantage at attended locations impairs performance at
 unattended locations.
DOI: 10.5061/dryad.3r2280gms
title: Pollen data: Influences of sea level changes and volcanic eruptions on Holocene vegetation in Tonga

description: Aim: To investigate mid- to late-Holocene vegetation changes on low-lying
 coastal areas in Tonga and how changing sea level and recurrent volcanic
 eruptions have influenced vegetation dynamics on four islands of the
 Tongan Archipelago (South Pacific). Methods: To investigate past
 vegetation and environmental change at Ngofe Marsh (‘Uta Vava’u) we
 examined palynomorphs (pollen and spores), charcoal (fire), and sediment
 characteristics (volcanic activity) from a 6.7-m long sediment core.
 Radiocarbon dating indicated the sediments were deposited over the last
 7700 years. We integrated the Ngofe Marsh data with similar previously
 published data from Avai’o’vuna Swamp on Pangaimotu Island, Lotofoa Swamp
 on Foa Island, and Finemui Swamp on Ha’afeva Island. Plant taxa were
 categorised as littoral, mangrove, rainforest, successional/ disturbance,
 and wetland groups and linear models were used to examine relationships
 between vegetation, relative sea-level change, and volcanic eruptions
 (tephra). Results: Relative sea-level change has impacted vegetation on
 three of the four islands investigated. Volcanic eruptions were not
 identified as a driver of vegetation change. Rainforest decline does not
 appear to be driven by sea-level changes or volcanic eruptions. From all
 sites analysed, vegetation at Finemui Swamp was most sensitive to changes
 in relative sea level. Conclusions: While vegetation on low-lying Pacific
 islands is sensitive to changing sea levels, island characteristics, such
 as size and elevation, are also likely to be important factors that
 mediate specific island responses to drivers of change.
description: # Pollen data: Influences of sea level changes and volcanic eruptions on
 Holocene vegetation in Tonga
 avai_pollen.csv is pollen
 count data from Avai'o'vuna Swamp loto_pollen.csv is digitised
 pollen percentage data from Lotofoa Swamp fine_pollen.csv is digitised
 pollen percentage data from Finemui Swamp ngof_pollen.csv is pollen count
 data from Ngofe Marsh Across the datasets, **Cal_yrs_BP** refers to the
 mean calibrated year before present (before 1950 CE) taken from the rbacon
 age-depth models. **Depth_cm** refers to the core depth from the top in
 centimeters. **Site** refers to the site the core was taken from. Other
 columns, e.g. *Alphitonia* and *Alternanthera* etc. are pollen names. Note
 that **NA values** within the **Cal_yrs_BP** column are because some
 pollen samples have no accociated date. Publications: FALL, P. L. 2005.
 Vegetation change in the coastal-lowland rainforest at
 Avai'o'vuna Swamp, Vava'u, Kingdom of Tonga. Quaternary
 Research, 64, 451-459. FLENLEY, J. R., HANNAN, C. T. & FARELLY, M. J.
 1999. Final report on the stratigraphy and palynology of swamps on the
 islands of Ha'afeva and Foa, Ha'apai, Tonga. Geography Programme
 Miscellaneous Publication. Palmerston, New Zealand: Massey University.