cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15468/dl.t4g4kw
title: Occurrence Download

description: A dataset containing 830 species occurrences available in GBIF matching the query:
{
 "and" : [
 "CoordinateUncertaintyInMeters 0.0-5000.0",
 "TaxonKey is Drosera indica"
 ]
}

 The dataset includes 830 records from 32 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002705-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.x95x69ph1
title: Genetic diversity of Horsfieldia tetratepala (Myristicaceae), an endangered plant species with extremely small populations to China: implications for its conservation

description: Genetic variation determines the evolutionary potential of a species and
 is vital for fully understanding the evolution of a species, as well as
 for developing optimal conservation strategies. Horsfieldia tetratepala is
 an economically important rainforest tree which has declined steadily,
 mainly though habitat destruction, and an endangered, narrow endemic in
 China where it is also classified as a Plant Species with Extremely Small
 Populations (PSESP). Effective conservation strategies for H. tetratepala
 are required urgently, but limited information about its genome is
 available. Accordingly, restriction site-associated DNA sequencing
 (RAD_seq) was used to sequence sixty-three H. tetratepala trees covering
 ten isolated populations to assess genome-level diversity and population
 structure, generating 8,103 high-quality SNPs. Low genetic diversity and
 moderate genetic differentiation was observed among populations, but
 Bayesian clustering divided the sampled H. tetratepala populations into
 two genetic clusters, though with some populations from Guangxi and Yunnan
 intermixed. Because of increasing of habitat fragmentation and human
 disturbance, conservation priority should be placed on populations with
 higher genetic variation (e.g., BB, TKH, DWS, and GLQ). Overall, our study
 provides valuable genomic resources for H. tetratepala that will
 significantly advance the formulation of effective conservation
 strategies.
description: The
 file pop.str includes 8103 SNPs is the input file for
 "Structure" software. The pop.str file can be transformed
 to others formats (.arp) by PGDspider. And the PCA input file (plink.ped
 and plink.map) is the Stacks v 2.2 output file from "Population"
 model. The IBD analyses input file (Fst
 values) is the  Stacks v 2.2 output file (populations.Fst.tsv) from
 "Population" model. The popmap.txt file refers to the
 information of  samples collection and populations code.  The
 p1r0.75populations.snps.vcf file: species level;
 the p5r0.75populations.snps.vcf :population level. catalog.tags.tsv.gz,
 catalog.snps.tsv.gz and catalog.alleles.tsv.gz is the Stacks v 2.2 output
 file from "Cstacks" model.
DOI: 10.5061/dryad.c59zw3r6c
title: Data from: Cretophengodidae, a new Cretaceous beetle family sheds light on the evolution of bioluminescence

description: Bioluminescent beetles of the superfamily Elateroidea (fireflies, fire
 beetles, glow-worms) are the most speciose group of terrestrial
 light-producing animals. The evolution of bioluminescence in elateroids is
 associated with unusual morphological modifications, such as
 soft-bodiedness and neoteny, but the fragmentary nature of the fossil
 record discloses little about the origin of these adaptations. We report
 the discovery of a new bioluminescent elateroid beetle family from the
 mid-Cretaceous of northern Myanmar (ca. 99 Ma), Cretophengodidae fam. nov.
 Cretophengodes azari gen. et sp. nov. belongs to the bioluminescent
 lampyroid clade, and would appear to represent a transitional fossil
 linking the soft-bodied Phengodidae + Rhagophthalmidae clade and
 hard-bodied elateroids. The fossil male possesses a light organ on the
 abdomen which presumably served a defensive function, documenting a
 Cretaceous radiation of bioluminescent beetles coinciding with the
 diversification of major insectivore groups such as frogs and stem-group
 birds. The discovery adds a key branch to the elateroid tree of life and
 sheds light on the evolution of soft-bodiedness and historical
 biogeography of elateroid beetles.
DOI: 10.5061/dryad.j6q573nck
title: Data and code from: Female and male plumage colour is linked to parental quality, pairing and extra-pair mating in a tropical passerine

description: Sexual selection has been proposed to drive the evolution of elaborate
 phenotypic traits in males, which often confer success in competition or
 mating. However, in many species both males and females display such
 traits, although studies investigating selection acting in both sexes are
 scarce. In this study, we investigated whether plumage ornamentation is
 sexually selected in female and male lovely fairy-wrens Malurus amabilis,
 a cooperatively breeding songbird. We found that female and male plumage
 colour was correlated with parental quality but not with individual
 quality and survival. We also found evidence of positive assortative
 mating based on plumage colour. Microsatellite analyses of paternity
 indicated that the lovely fairy-wren has high levels of extra-pair
 paternity, with 53% of offspring (in 58% of broods, of 57% of females)
 resulting from extra-pair mating. Female and male plumage colour did not
 predict reproductive success or the proportion of extra-pair offspring in
 their own nest, but less colourful males obtained higher extra-pair
 paternity when paired with more colourful females, and gained overall
 higher total paternity (own nest and other nests). We argue that plumage
 colour may be under sex-specific selection, highlighting the importance of
 looking at both sexes in studies of sexual selection and ornament
 evolution. The current findings together with previous study, suggest that
 plumage colour in female and male lovely fairy-wrens appears to be an
 honest signal relevant in both intra and inter-sexual competition
 contexts.
description: Detailed methods describing the dataset collection can be found
 in Leitão, Hall and Mulder "Female and male plumage colour is linked
 to parental quality, pairing and extra-pair mating in a tropical
 passerine".
description: Please see the readme file for detailed descriptions of all files
 and variables included in the provided data files.
DOI: 10.5061/dryad.bvq83bk7p
title: Body size, not personality, explains both male mating success and sexual cannibalism in a Widow Spider

description: Theory suggests that consistent individual variation in behavior relates
 to fitness, but few studies have empirically examined the role of
 personalities in mate choice, male-male competition and reproductive
 success. We observed the Mediterranean black widow, Latrodectus
 tredecimguttatus, in the individual and mating context, to test how body
 size measures and two functionally important aggressive behaviors, i.e.,
 male aggression towards rivals and female voracity towards prey, affect
 mating behaviors, mating success and sexual cannibalism. We specifically
 selected voracity towards prey in females to test the “aggressive
 spillover hypothesis”, suggesting that more voracious females are more
 sexually cannibalistic. Both females and males exhibit consistent
 individual differences in the examined aggressive behaviors. While larger
 males win contests more often and achieve more copulations, neither male
 nor female size measures correlate to aggression. Female voracity does not
 correlate with aggression towards mates and sexual cannibalism, rejecting
 the “spillover hypothesis”. However, occurrence of sexual cannibalism
 positively relates to longer insertion duration. Furthermore, the smaller
 the ratio between male and female body length the more likely a female
 attacked and cannibalized a mate. We show that individual variation in
 aggression levels plays no direct role in mating behavior of the
 Mediterranean black widow. Instead, body size affects male mating success
 and occurrences of sexual cannibalism in females.
DOI: 10.5061/dryad.3xsj3txfk
title: A graphical null model for scaling biodiversity-ecosystem functioning relationships

description: 1. Global biodiversity is declining at rates faster than at any other
 point in human history. Experimental manipulations at small spatial scales
 have demonstrated that communities with fewer species consistently produce
 less biomass than higher diversity communities. Understanding how the
 global extinction crisis is likely to impact global ecosystem functioning
 requires applying these local experimental results at substantially larger
 spatial and temporal scales. 2. Here we propose a null model for scaling
 biodiversity-ecosystem functioning relationships using observed
 macroecological patterns. We use species-area and biomass-area curves to
 predict species richness – biomass relationships at multiple scales and
 validate these predictions with data from a Minnesota grassland and a
 Panamanian tropical dry forest. 3. Our null model accurately predicts
 species richness-biomass relationships across scales from these
 species-area and biomass-area relationships. However, we note two
 important caveats that will increase our ability to apply experimentally
 collected data to the global scale problem of species loss. First when
 ecosystem functioning is measured as per unit area (e.g., biomass m-2), as
 is common in biodiversity-ecosystem functioning experiments, the slope of
 the biodiversity ecosystem functioning relationship should decrease with
 increasing scale. Alternatively, when ecosystem functioning is not
 measured per unit area (e.g., summed total biomass), as is common in
 scaling studies, the slope of the biodiversity-ecosystem functioning
 relationship should increase with increasing spatial scale. Second, the
 underlying macroecological patterns of biodiversity experiments are
 predictably different from some naturally assembled systems. For example,
 in non-successional naturally assembled ecosystem, biomass is unlikely to
 change directionally through time. Biodiversity-ecosystem functioning
 experiments, however, often start from bare ground and biomass increases
 through time. From these underlying patterns, we would predict that the
 slope of the biodiversity-productivity relationship in a naturally
 assembled system not undergoing succession would decrease with increasing
 time. Alternatively, in an experiment we would predict an increase over
 time. 4. This paper provides a simple but novel null hypothesis for
 scaling any relationship between biodiversity and any ecosystem function
 in space and time. These predictions provide crucial insights into how and
 when we can extend results from small scale biodiversity experiments to
 naturally assembled regional and global ecosystems.
description: I have included usage notes with the R code in an R markdown
 document.
DOI: 10.5061/dryad.w0vt4b8q4
title: Host genotype and genetic diversity shape the evolution of a novel bacterial infection

description: Pathogens continue to emerge from increased contact with novel host
 species. Whilst these hosts can represent distinct environments for
 pathogens, the impacts of host genetic background on how a pathogen
 evolves post-emergence are unclear. In a novel interaction, we
 experimentally evolved a pathogen (Staphylococcus aureus) in populations
 of wild nematodes (Caenorhabditis elegans) to test
 whether host genotype and genetic diversity affect pathogen
 evolution. After 10 rounds of selection, we found that pathogen virulence
 evolved to vary across host genotypes, with differences in host
 metal ion acquisition detected as a possible driver of
 increased host exploitation. Diverse host populations selected for the
 highest levels of pathogen virulence, but infectivity was constrained,
 unlike in host monocultures. We hypothesize that population
 heterogeneity might pool together individuals that contribute
 disproportionately to the spread of infection or to enhanced
 virulence. The genomes of evolved populations were sequenced, and
 it was revealed that pathogens selected in distantly-related host
 genotypes diverged more than those in closely-related host
 genotypes. S. aureus nevertheless maintained a broad
 host range. Our study provides unique empirical insight into the
 evolutionary dynamics that could occur in other novel infections of
 wildlife and humans.
DOI: 10.5061/dryad.wh70rxwmg
title: Tree canopy accession strategy changes along the latitudinal gradient of temperate Northeast Asia

description: Aim: Understanding how natural forest disturbances control tree
 regeneration is key to predict the consequences of globally accelerating
 forest diebacks on carbon stocks and forest biodiversity. Tropical
 cyclones (TCs) are important drivers of forest dynamics in Eastern Asia
 and it is predicted that their importance will increase. However, little
 is known about TC impact on forest regeneration. Location: Latitudinal
 gradient from south Korea (33°N) to the Russian Far East (45°N). Time
 period: Last 300 years. Major taxa studied: Quercus mongolica,
 Abies nephrolepis and Pinus koraiensis. Methods: We explore the effects of
 TC activity on canopy accession strategies derived from long-term tree
 radial growth patterns along a 1500-km latitudinal gradient of decreasing
 TC activity. We analyzed canopy accession strategies for more than 800
 trees of three widely distributed tree species by dividing them into gap
 trees (GTs) that established immediately after gap formation, and released
 trees (RTs) that accessed the upper canopy after a period of competitive
 suppression. Results: We found a substantial decrease in GTs and increase
 in RTs proportionally along the gradient of decreasing TC activity. P.
 koraiensis and A. nephrolepis exhibited high variability in the
 proportions of the individual canopy accession strategies along the
 latitudinal gradient, while it was more stable for Q. mongolica. We
 identified the gradient of TC activity as the main driver influencing
 canopy dynamics and thus changes in life history traits for P. koraiensis
 and Q. mongolica, while maximal growth rate was the main driver for A.
 nephrolepis. Main conclusions: Flexibility in growth strategies enabled
 the studied species to cover extensive areas and indicates that they will
 be able to cope with shifts in disturbance regimes induced by the poleward
 migration of TCs and increasing TC intensity. Our results highlight the
 canopy accession strategy as an ecological indicator of past disturbance
 activity.
description: We collected core samples from all stems (&gt;10 cm DBH)
 within permanent research plots at a height of 0.5-1 meter above the
 ground surface using a steel increment borer during the 2004-2016 period.
 The cores were dried and surfaces were prepared with a core microtome to
 increase visibility of the tree-ring structure. The widths of tree rings
 were measured with the TimeTable measuring device and PAST5 software, with
 a resolution of 0.01 mm. Cores were visually cross-dated and consequently
 statistically verified by the percentage of parallel variation (p &lt;
 0.05, Gleichläufigkeit) and the similarity of radial growth patterns
 between the individual series (Baillie-Pilcher’s t-value).
description: Tree-ring widths are in millimetres [mm].
DOI: 10.5061/dryad.rr4xgxd76
title: Fitness consequences of seasonally different life histories? A match-mismatch experiment

description: To survive and reproduce successfully, animals have to find the optimal
 time of breeding. Species living in non-tropical environments often adjust
 their reproduction plastically according to seasonal changes of the
 environment. Information about the prevailing season can be transmitted in
 utero, leading to adaptation of the offspring to the prevailing season.
 After birth, animals acquire additional personal information about the
 environment which allows them to adjust their reproductive investment.
 Here, we tested in a full-factorial match-mismatch experiment the
 influence of reproductive adjustments according to maternal and personal
 information. We bred wild cavies (Cavia aperea), a precocial rodent,
 either into increasing (spring) or decreasing (autumn) photoperiod and
 subsequently, after weaning, transferred female offspring to the matching
 or mismatching season. We measured growth, specific metabolic rate (sRMR)
 and reproductive events across six months. Although sRMR was elevated for
 females primed for good (spring) conditions when transferred to the
 mismatching autumn condition, we found no maternal effects on
 reproduction. Females adjusted their reproductive decisions according to
 the season they personally experienced, thereby implying a potentially
 high level of plasticity. Females reproducing in spring started
 reproduction earlier with a lower reproductive effort than females
 reproducing in autumn but ultimately, the two groups did not differ in
 survival, growth or reproduction. These data suggest important
 developmental plasticity, highlight the use of personal information
 acquired after weaning over early information provided until weaning and
 point out the potential value of multiple cues such as food abundance and
 quality and temperature besides photoperiod.
description: The dataset containes raw data supporting the article.
DOI: 10.5061/dryad.3n5tb2rg0
title: Large carnivore expansion in Europe is associated with human population density and land cover changes

description: Aim: The recent recovery of large carnivores in Europe has been explained
 as resulting from a decrease in human persecution driven by widespread
 rural land abandonment, paralleled by forest cover increase and the
 consequent increase in availability of shelter and prey. We investigated
 whether land cover and human population density changes are related to the
 relative probability of occurrence of three European large carnivores: the
 grey wolf (Canis lupus), the Eurasian lynx (Lynx lynx) and the brown bear
 (Ursus arctos). Location: Europe, west of 64° longitude. Methods: We
 fitted multi-temporal species distribution models using &gt;50,000
 occurrence points with time series of land cover, landscape configuration,
 protected areas, hunting regulations, and human population density
 covering a 24-year period (1992-2015). Within the temporal window
 considered, we then predicted changes in habitat suitability for large
 carnivores throughout Europe. Results: Between 1992 and 2015, the habitat
 suitability for the three species increased in Eastern Europe, the
 Balkans, North-West Iberian Peninsula and Northern Scandinavia, but showed
 mixed trends in Western and Southern Europe. These trends were primarily
 associated with increases in forest cover and decreases in human
 population density, and, additionally, with decreases in the cover of
 mosaics of cropland and natural vegetation. Main Conclusions: Recent land
 cover and human population changes appear to have altered the habitat
 suitability pattern for large carnivores in Europe, whereas protection
 level did not play a role. While projected changes largely match the
 observed recovery of large carnivore populations, we found mismatches with
 the recent expansion of wolves in Central and Southern Europe, where
 factors not included in our models may have played a dominant role. This
 suggests that large carnivores’ co-existence with humans in European
 landscapes is not limited by habitat availability, but other factors such
 as favorable human tolerance and policy.
description: This dataset cointains occurence points of grey wolf, Eurasian
 lynx and brown bear and the R code to reproduce the analysis . It
 comprehend occurrence data for the three species from both published (see
 Appendix S1) and unpublished datasets provided by several coauthors (HA,
 CB, FC, DC, PC, MK, MM, YM, LP, NS, JLB, IT, AZ,
 TZ-K).
description: The coordinates of the points are rounded at 10 km ( that would
 correspond to the centroid of the 10km cell), as the ones that were used
 in the model. The coordiante reference system is ETRS89-Lambert Equal
 Area.
DOI: 10.5281/zenodo.18396312
title: Experiment data

description: Experiment data of the displacement fields of Landau rainbow.
DOI: 10.5281/zenodo.18396313
title: Experiment data

description: Experiment data of the displacement fields of Landau rainbow.
DOI: 10.5061/dryad.ns1rn8prj
title: Data for: New Guinean orogenic dynamics and biota evolution revealed using a custom geospatial analysis pipeline

description: Background: The New Guinean archipelago has been shaped by millions of
 years of plate tectonic activity combined with long-term fluctuations in
 climate and sea level. These processes combined with New Guinea’s location
 at the tectonic junction between the Australian and Pacific plates are
 inherently linked to the evolution of its rich endemic biota. With the
 advent of molecular phylogenetics and an increasing amount of geological
 data, the field of New Guinean biogeography begins to be reinvigorated.
 Results: We conducted a comprehensive molecular phylogeny of endemic
 diving beetles to test historical hypotheses pertaining to the evolution
 of the New Guinean biota. We used geospatial analysis techniques to
 compare our phylogenetic results with a newly developed geological terrane
 map of New Guinea as well as the altitudinal and geographic range of
 species ( https://arcg.is/189zmz ). Our divergence time estimations
 indicate a crown age (early diversification) for New Guinea Exocelina
 beetles in the mid-Miocene ca. 17 Ma, when the New Guinean orogeny was at
 an early stage. Geographical and geological ancestral state
 reconstructions suggest an origin of Exocelina ancestors on the eastern
 part of the New Guinean central range on basement rocks (with a shared
 affinity with the Australian Plate). Our results did not support the
 hypothesis of ancestors migrating to the northern margin of the Australian
 Plate from Pacific terranes that incrementally accreted to New Guinea over
 time. However, our analyses support to some extent a scenario in which
 Exocelina ancestors would have been able to colonise back and forth
 between the amalgamated Australian and Pacific terranes from the Miocene
 onwards. Our reconstructions also did not support an origin on ultramafic
 or ophiolite rocks that have been colonised much later in the evolution of
 the radiation. Macroevolutionary analyses did not support the hypothesis
 of heterogeneous diversification rates throughout the evolution of this
 radiation, suggesting instead a continuous slowdown in speciation.
 Conclusions: Our geospatial analysis approach to investigate links between
 the location and evolution of New Guinea’s biota with the underlying
 geology has shed a new light on the patterns and processes of lineage
 diversification in this exceedingly diverse region of the planet.