cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.0vt4b8h18
title: Data from: Habitat isolation reduces intra- and interspecific biodiversity and stability

description: Fragmentation is predicted to reduce biodiversity and stability by
 increasing habitat isolation and impeding dispersal among patches. These
 effects may manifest at both the interspecific and intraspecific levels,
 yet few studies have simultaneously explored dispersal effects across
 levels of organization. We used field mesocosm experiments to examine how
 habitat isolation (in the form of dispersal rate) alters inter- and
 intraspecific stability and diversity in local zooplankton communities. We
 observed effects of increasing dispersal rate at both the intra- and
 interspecific levels. Increasing dispersal increased local species
 diversity and reduced mean temporal variability of populations. At the
 intraspecific level, Daphnia pulex clonal diversity was enhanced by
 dispersal and mean temporal variability of clone abundances through time
 was reduced.
DOI: 10.5061/dryad.p5hqbzkqt
title: Identification of the Oligocene to early Miocene loricariid catfish †Taubateia paraiba as a member of the Rhinelepinae: List of taxa for which comparative CT-data were examined

description: One of the earliest and most complete loricariid fossils
 is †Taubateia paraiba, which was described by Malabarba
 and Lundberg (2007) from southeastern Brazil based on a ventral impression
 of a neurocranium and some vertebrae. The fossil is from lacustrine
 habitat of the Tremembé Formation of the Taubaté Group, which is dated to
 the Oligocene to Early Miocene (~30–20 Mya). The locality (22°50’ S,
 45°52’ W) is currently part of the Paraná River basin. Based on an
 extensive database of measurements of loricariids by the authors, the 54.5
 mm long skull, equates to approximately 70 mm head length (snout to tip of
 supraoccipital), indicating a specimen that is ~175–210 mm long, which is
 fairly large for loricariids. In the original description, Malabarba and
 Lundberg described the anatomy of the fossil in detail, but they were
 unable to resolve the identity of the fish beyond its placement within
 Loricariidae.
DOI: 10.5061/dryad.69p8cz93c
title: Timing of a plant–herbivore interaction alters plant growth and reproduction

description: Phenological shifts in timing of species interactions have the potential
 to change size-structured species interactions, but relatively few studies
 have used experimental manipulations to examine the season-long effects of
 phenological mismatches in multiple development contexts. While previous
 experimental studies have examined how phenological mismatches in
 plant-herbivore interactions can affect both plants and their herbivores,
 less is known about their effects on subsequent plant-pollinator
 interactions. Here, we conducted an experiment to determine how shifts in
 the phenological timing of monarch (Danaus plexippus) larval herbivory
 affected milkweed (Asclepias fascicularis) host plant performance,
 including effects on growth and subsequent effects on flower and seed pod
 phenology and production. We found that variation in the timing of
 herbivory affected both plant growth and reproduction, with measurable
 effects several weeks to months after herbivory ended. The timing of
 herbivory had qualitatively different effects on vegetative and
 reproductive biomass: early-season herbivory had the strongest effects on
 plant size, while late-season herbivory had the strongest effects on the
 production of viable seeds. These results show that phenological shifts in
 herbivory can have persistent and qualitatively different effects on
 different life stages across the season.
description: These data were collected from an experiment conducted in an
 outdoor plot under largely natural conditions.
DOI: 10.5061/dryad.z34tmpgft
title: Data from: Elevated mutation rates underlie the evolution of the aquatic plant family Podostemaceae

description: Molecular evolutionary rates vary among lineages and influence the
 evolutionary process. Here, we report elevated genome-wide mutation rates
 in Podostemaceae, a family of aquatic plants with a unique body plan that
 allows members to live on submerged rocks in fast-flowing rivers.
 Molecular evolutionary analyses using 1,640 orthologous gene groups
 revealed two historical increases in evolutionary rates: the first at the
 emergence of the family and the second at the emergence of Podostemoideae,
 which is the most diversified subfamily. In both branches, synonymous
 substitution rates were elevated, indicating higher mutation rates. On
 early branches, mutations were biased in favour of AT content, which is
 consistent with a role for ultraviolet light-induced mutation and a
 habitat shift. In ancestors of Podostemoideae, DNA-repair genes were
 enriched in genes under positive selection, which may have responded to
 the meristem architectural changes.
DOI: 10.5061/dryad.612jm644p
title: Historical fish survey datasets from productive aquatic ecosystems in Lithuania

description: Here we present a newly digitized fish monitoring dataset for two major
 Lithuanian inland ecosystems – Curonian Lagoon and Kaunas Water reservoir.
 The data comprises fish surveys conducted during 1950s to 1980s,
 using a range of fishing gears and sampling methods. Three different
 definitions or methods describe the level of detail for each fish
 community study: Method 1 surveys include individual fish sizes and
 weights, Method 2 surveys record frequencies of fish in length or weight
 groups, whereas Method 3 only records the total catch biomass of a given
 species. 
description: Fish abundance, biomass and sizes were surveyed by national
 Lithuanian agencies using a range of gillnets and trawls during
 1950-1980s. For each survey fish abundances, sizes and biomasses were
 recorded and stored in archival journals, currently available at Nature
 Research Centre (Lithuania). In this dataset, the archival journals were
 digitized and data was standardized using available information on gear
 types and fishing effort.
description:  Gear
 information, such as mesh size and gear length or type, was collected as
 accurately as possible. When specific details were not provided in the
 original archival journals, expert opinion was used to make the best guess
 and recorded in separate columns, defining broad categories (for the mesh
 size, gear length and also soak time).
DOI: 10.5061/dryad.tb2rbp026
title: Liquid chromatography measurement obtained from the chitin extracts of insect exuviae

description: Chitin, a biopolymer present in fungi and arthropods, is a compound of
 interest for various applications, such as in the agricultural and medical
 fields. With the recently growing interest in the development of insect
 farming, the availability of chitin-containing residual streams,
 particularly the molting skins (exuviae), is expected to increase in the
 near future. For application purposes, accurate quantification of chitin
 in these insect sources is essential. Previous studies on chitin
 extraction and quantification often overlooked the purity of the extracted
 chitin, making the outcomes inconsistent and prone to overestimation. The
 present study aims to determine chitin content in the exuviae of three
 insect species mass-reared worldwide: black soldier fly (BSF), mealworm,
 and house cricket. Chitin was chemically extracted using acid and alkali
 treatments to remove minerals and proteins. The purity of extracted chitin
 was evaluated by hydrolyzing the chitin into glucosamine, followed by
 quantitative determination of the latter using two liquid chromatography
 methods: electrochemical detection (ECD) and tandem mass spectrometry
 (MS/MS). Both methods proved accurate and precise, without the need for
 labor-intensive derivatization steps. Pearson’s correlation and
 Bland-Altman plots showed that the glucosamine determination results
 obtained by the two methods were comparable, and there is no consistent
 bias of one approach vs. the other. The chitin content in extracted
 residues ranged between 7.9 and 18.5%, with the highest amount found in
 BSF puparium. In summary, the study demonstrated that (1) the residual
 streams of the insect farming industry have a great potential for
 utilization as an alternative chitin source, and (2) both LC-ECD and
 LC-MS/MS are reliable for the quantitative determination of glucosamine in
 insect chitin.
description: The amount of hydrolyzed chitin from biological samples was
 calculated according to the formulation described by D’Hondt et al. (2020)
 by taking into account the concentration of chitin constituents and the
 weight of the extracted insect chitin from each biological source.
 Chromatographic data were measured in triplicate and expressed as the mean
 ± standard deviation.
DOI: 10.5061/dryad.pg4f4qrqz
title: Ladybird beetles' life history traits

description: 1. The balance between risk and benefit of exploiting resources drives
 life history evolution in organisms. Predators are naturally recognized as
 major drivers of the life history evolution of their prey. Although prey
 may also influence the life history evolution of their predators in the
 context of an evolutionary arms race, there is far more evidence of the
 role of predators than of prey.  2. The goal of this study was to
 investigate the role of prey in life history evolution of predators using
 ladybird beetle predators of aphids and coccids. These particular
 ladybirds and their prey were chosen because literature shows that the
 pace of life of aphids is faster than that of coccids and this difference
 is reflected in the life histories of the ladybirds that specialize on
 feeding on aphids or coccids. 3. Thirty-four species of ladybird predators
 of aphids and eight of coccids belonging to five different tribes were
 collected and reared in the laboratory. The females were weighed as well
 as their eggs, and their reproductive investment estimated as the number
 of ovarioles. Phylogenetic relatedness was controlled for in the
 statistical analyses. 4. Controlling for female mass revealed that
 ladybird predators of aphids lay bigger eggs than ladybird predators of
 coccids. This difference is not influenced by phylogenetic relatedness but
 only by the type of prey eaten. We suggest that ladybird predators of
 coccids lay smaller eggs because neonate larvae do not have to search,
 catch, and subdue prey. Both types of ladybirds have a similar
 reproductive investment relative to their body mass when phylogeny is
 controlled for.  5. Recognizing the influence of prey on the life
 history evolution of predators is important for understanding food web
 dynamics. From an applied perspective, this fine evolutionary tuning of
 prey-predator relationships should be used to guide and increase the
 efficiency of biological control programmes.
DOI: 10.5061/dryad.w0vt4b8st
title: Data and scripts from: Long term analysis of social structure: evidence of age-based consistent associations in male Alpine ibex

description: The folder contains the data and scripts used to produce the manuscript:
 "Long term analysis of social structure: evidence of age-based
 consistent associations in Alpine ibex" by Alice Brambilla, Achaz von
 Hardenberg, Claudia Canedoli, Francesca Brivio, Cédric Sueur and Christina
 R Stanley.
description: Raw data were collected as described in: "Long term analysis
 of social structure: evidence of age-based consistent associations in
 Alpine ibex" by Alice Brambilla, Achaz von Hardenberg, Claudia
 Canedoli, Francesca Brivio, Cédric Sueur and Christina R
 Stanley. Association matrices were built in SOCPROG 2.9
 (Whitehead 2009).
DOI: 10.5061/dryad.hmgqnk9j7
title: Data from: Machine learning identifies ecological selectivity patterns across the end-Permian mass extinction

description: The end-Permian mass extinction occurred alongside a large swathe of
 environmental changes that are often invoked as extinction mechanisms,
 even when a direct link is lacking. One way to elucidate the cause(s) of a
 mass extinction is to investigate extinction selectivity as it can reveal
 critical information on organismic traits as key determinants of
 extinction and survival. Here we show that machine learning
 algorithms, specifically gradient boosted decision trees, can be used to
 identify determinants of extinction as well as predict extinction risk. To
 understand which factors led to the end-Permian mass extinction during an
 extreme global warming event, we quantified the ecological selectivity of
 marine extinctions in the well-studied South China region. We find that
 extinction selectivity varies between different groups of organisms and
 that a synergy of multiple environmental stressors best explains the
 overall end-Permian extinction selectivity pattern. Extinction risk was
 greater for genera that had a low species richness, had narrow bathymetric
 ranges limited to deep-water habitats, had a stationary mode of life,
 possessed a siliceous skeleton or, less critically, had calcitic
 skeletons. These selective losses directly link the extinction to the
 environmental effects of rapid injections of carbon dioxide into the
 ocean-atmosphere system, specifically the combined effects of expanded
 oxygen minimum zones, rapid warming, and potentially ocean acidification.
DOI: 10.5061/dryad.k6djh9w7g
title: Data from: Elevational distribution of birds in an Eastern African montane environment as governed by temperature, precipitation, and habitat availability

description: We conducted annual point counts of birds between 2013 and 2018 at 297
 plots across habitats and elevations (2,416-4,303 m) in Volcanoes National
 Park, Rwanda. These data were subsequently used to determine elevational
 and habitat preferences via indicator analyses, and to model abundance
 distributions as a function of temperature, precipitation, habitat
 availability, and congeneric competition. Of 35 focal species, we
 found 20 species to be particularly associated with narrow elevational
 range (&lt;300 m) and 24 species to have a strong associated with one
 to three habitat types. Abiotic conditions, estimated for each plot
 location, significantly correlated with the abundance distributions of 33
 species (temperature 33, precipitation 17), and biotic factors with
 distributions of 31 species (habitat 30, competition 7). Temperature and
 habitat availability were particularly associated with upper elevational
 limits (31 and 26 species respectively vs. 10 and 6 at lower limits),
 whereas precipitation affected both limits similarly (17 lower, 16 upper),
 and competition had a limited role at either limit (4 lower, 3 upper).
 That the elevational distribution of Afromontane birds results from a
 species-specific combination of biotic and abiotic factors is crucial
 information in our effort to predict climate change effects in this
 region.
description: Bird counts were conducted in 25-m radius circular plots twice a
 year between 2013 and 2018, June to September, across all of Volcanoes
 National Park (Rwanda). The data provided here are the sum of these bird
 counts per plot, as well as plot-specific data on elevation and climatic
 conditions.
description: The column headers relate to the following: Plot_name Plots are named using conventional names in use by researchers and staff of Volcanoes National Park. All plots are located between 1°21’–1°35’S, 29°22’–29°44’E; specific plot coordinates may be requested from the authors. Elevation In m a.s.l. MeanTemp Annual daily average in °C MinTemp Average daily minimum in °C Precipitation Annual precipitation in mm 'Bird Species' Sum of counts of a given species at a given location over the entire study period.
DOI: 10.5061/dryad.m0cfxpp52
title: Dataset from: Diversity of European habitat types is correlated with geography more than climate and human pressure

description: We generated this dataframe to model EU habitat richness
 at continental scale as a function of geographical, climate and
 anthropogenic variables (please, see Material and Method section in the
 published paper version for all the details). We found
 geographical variables were by far the most strongly correlated with
 habitat richness, followed by climate. However, anthropogenic variables
 gained importance when consindering their interactions, with important
 implications for conservation planning.
description: We used the distribution maps of 222 terrestrial habitat types as defined by the Natura 2000 network (i.e., Article 17 Habitat Directive - 2015 dataset - III report of Habitat distribution - Environmental European Agency (EEA)), to calculate habitat richness for the 10 <em>km</em> x 10 <em>km</em> EU grid map. We calculated EU habitat richness by summing-up the number of habitat type reported in each cell of the above mentioned map provided by the EEA . We then investigated how environmental variables (please, see Material and Method section in the published paper version for all the details) affect habitat richness, using generalized linear models, generalized additive models and boosted regression trees.
DOI: 10.5061/dryad.cjsxksn6p
title: Seed traits of seed within spider monkey, howler monkey feces, and dung beetles' dung balls

description: These data files contain seed traits from three sources, 1) seed traits
 from "Seeds of Amazonian Plants", 2) Royal Botanic Gardens Kew
 Seed Information Database, and 3) seeds dissected from field collections
 of primate feces and dung balls from dung beetles. The dataset was used in
 the article published in Biotropica entitled "Seed size and
 pubescence facilitate secondary dispersal by dung beetles". The data
 mostly describes seed traits of morphospecies within the feces of
 brown-headed spider monkeys (Ateles fusciceps) and mantled howler monkeys
 (Alouatta palliata). Traits included in the data set are size, surface,
 length, width, shape, color, and dispersal by mammals. 
description: 1. Description of methods used for collection/generation of data:
 
  The data file "Seed Traits.csv" was generated from
 the key in: Cornejo, F., & Janovec, J. (2010). Seeds of Amazonian
 plants. Princeton University Press. The data file
 "dispersal syndromes KEW.csv" was generated from Royal Botanic
 Gardens Kew (2020). Seed Information Database (SID). Version 7.1. https://data.kew.org/sid/. The dispersal data for each non-wind-dispersed genus included in "Seeds of Amazonaian Plants", was matched against the SID, to extract dispersal information, and then a logical variable created "YES/NO", for mammal dispersal. Data from the remaining data files was generated from monkey fecal samples, and dung beetle dung balls collected in the field.  2. Methods for processing the data: The seed traits from the "Seed Traits.csv" file are all taken from the genus identification key, using the characters defined by the book, size, shape, color, and surface. Some genera have more than one combination of characters. For the data file "dispersal syndromes KEW.csv" dispersal data for each none wind dispersed genus included in "Seeds of Amazonaian Plants", was matched against the SID, to extract dispersal information, and then a logical variable created "YES/NO", for mammal dispersal. Remaining data files are from field-collected data. In the field, the monkey species that produced the feces was identified, and if the sample was a dung ball, the beetle was collected with the ball for identification. Fecal samples and dung balls were dissected to remove the seeds. The seeds were then grouped by morphospecies and identified to genus as well as possible. Seed length and width were measured and the seed surface was characterized.
description: Please read the
 README_SeedTraitsofSeedsDispersedbyDungbeetlesandPrimates.txt
 file.
DOI: 10.5061/dryad.vx0k6djss
title: Downtown Diet: a global meta-analysis of urbanization on consumption patterns of vertebrate predators

description: This dataset contains the summary of published studies included in the
 meta-analysis along with the R code to calculate within-study variation
 for those studies where this value was not reported. The .csv
 files with the calculated effect sizes for species richeness,
 evenness, carbon, and nitrogen stable isotopes are also included.
DOI: 10.5061/dryad.fj6q573w7
title: Phylogeny, classification, and character evolution of Acalypha (Euphorbiaceae Acalyphoideae)

description: Acalypha (Euphorbiaceae Acalyphoideae) is a large, monophyletic genus
 distributed worldwide in tropical and subtropical regions, with a few
 species extending into temperate Asia and North America. We reconstructed
 phylogenetic relationships within the genus using DNA sequences from the
 plastid ndhF and trnL-F regions and the nuclear ribosomal ITS region,
 sampling 143 species to represent the geographic, morphologic, and
 taxonomic diversity with the genus, resulting in a 162 (158 in Acalypha)
 terminal and 3847 character combined dataset. Bayesian and maximum
 likelihood reconstructions based on the combined dataset yielded a tree
 with a generally well-supported backbone and several strongly supported
 clades. Our results strongly supported the monophyly of subg. Acalypha as
 currently recognized but showed that subg. Linostachys and almost all
 other infrageneric taxa recognized in the most recent comprehensive
 classification of the genus were not monophyletic. We therefore propose a
 new subgeneric classification comprising subg. Acalypha, subg.
 Androcephala, subg. Hypandrae, and subg. Linostachys (s.s.). Our results
 also shed light on relationships within some species groups, including in
 what has been treated as a broadly defined A. amentacea, in which we
 recognize A. amentacea, A. palauensis comb. nov., and A. wilkesiana as
 distinct species. Bayesian ancestral state estimations based on the
 phylogeny of Acalypha demonstrated that plant habit and inflorescence
 position and sexuality are highly homoplastic, especially within subg.
 Acalypha, and that inflorescence position and habit exhibit correlated
 evolution.
DOI: 10.5281/zenodo.18397789
title: Time-varying gravity observations and seismic velocity models associated with the 2023 Jishishan earthquake

description: Contents:



Time-varying gravity observations (5 epochs: 2020-2023).

XGM2019e gravity model data.

Seismic velocity model slices (Vs and Vp) at 2 km depth (Pre- and Post-earthquake).


For detailed file descriptions and data formats, please refer to the included README.txt file.
DOI: 10.5281/zenodo.18397790
title: Time-varying gravity observations and seismic velocity models associated with the 2023 Jishishan earthquake

description: Contents:



Time-varying gravity observations (5 epochs: 2020-2023).

XGM2019e gravity model data.

Seismic velocity model slices (Vs and Vp) at 2 km depth (Pre- and Post-earthquake).


For detailed file descriptions and data formats, please refer to the included README.txt file.
DOI: 10.26165/juelich-data/pi5o8o
title: quinex-datasets

description: Datasets for quantitative information extraction
DOI: 10.15468/dl.cfvyqz
title: Occurrence Download

description: A dataset containing 10 species occurrences available in GBIF matching the query:
{
 "and" : [
 "OccurrenceStatus is Present",
 "TaxonKey is Cyclobalanopsis neglecta"
 ]
}

 The dataset includes 10 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002993-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.