cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.1s625
title: Data from: Declines in pinyon pine cone production associated with regional warming

description: Global climate change is expected to produce large shifts in vegetation
 distribution and has already increased tree mortality, altering forest
 structure. However, long-term shifts will be partly dependent on the
 ability of species to reproduce under a novel climate. Few studies have
 examined the impact of climate change on the reproductive output of
 long-lived ‘masting' species, or species characterized by episodic
 reproductive events. Here, we show that seed cone production among pinyon
 pine (Pinus edulis), a masting species, declined by 40% from the 1974
 decade (1969–1978) to the 2008 decade (2003–2012) in revisited stands
 throughout New Mexico and northwestern Oklahoma. Seed cone production was
 highly correlated with late summer temperatures at the time of cone
 initiation. Further, declines in seed cone production were greatest among
 populations that experienced the greatest increases in growing season
 temperatures, which were the populations located at the cooler, upper
 elevations. As growing season temperatures are predicted to increase
 across this region over the next century, these findings suggest seed cone
 production may be an increasingly important bottleneck for future pinyon
 pine regeneration, especially in areas with greater increases in
 temperature. Declines in seed cone production may not only affect pinyon
 pine population dynamics but also the various wildlife species that rely
 on pinyon pine seeds. Because pinyon pine has similar reproductive
 strategies as other semi-arid pine species, increasing temperature may
 negatively influence reproductive output of other conifers. Further
 investigation into the full geographic and taxonomic extent of these seed
 declines is warranted.
description: Field Data from 1978 and
 2011/2012 samplingThis dataset includes
 the cone production data and accompanying tree and site information from
 the sites sampled in New Mexico and northwestern Oklahoma in 1978 and
 2011/2012.Data_csv.zipAnnual_Whorl_and_Cone_Scar_GuideThis pdf file has pictures to help you understand how to distinguish an annual whorl and identify the corresponding year for each cone or cone scar. This file also provides a definition of a leader shoot (also referred to as a cone bearing branch) and accompanying diagram to further help you understand the methodology.
DOI: 10.82294/dvnpust5e
title: COPUS. Territorio: Cundinamarca. Sector: Cultura. Año: 2025.
title: Dato. Observación estructurada con el protocolo COPUS.

description: Información recopilada durante el año 2025 a partir de observaciones estructuradas realizadas con el protocolo COPUS, dirigidas a educadores artísticos pertenecientes a programas de formación en educación artística y cultural del sector Cultura (educación informal) en el departamento de Cundinamarca
DOI: 10.15468/dl.cfm3rh
title: Occurrence Download

description: A dataset containing 2159 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is Atlas de la Biodiversité Communale de Breuillet-ABC Breuillet"
 ]
}

 The dataset includes 2159 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001605-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.9fk1s
title: Data from: Rates of genomic divergence in humans, chimpanzees and their lice

description: The rate of DNA mutation and divergence is highly variable across the tree
 of life. However, the reasons underlying this variation are not well
 understood. Comparing the rates of genetic changes between hosts and
 parasite lineages that diverged at the same time is one way to begin to
 understand differences in genetic mutation and substitution rates. Such
 studies have indicated that the rate of genetic divergence in parasites is
 often faster than that of their hosts when comparing single genes.
 However, the variation in this relative rate of molecular evolution across
 different genes in the genome is unknown. We compared the rate of DNA
 sequence divergence between humans, chimpanzees and their ectoparasitic
 lice for 1534 protein-coding genes across their genomes. The rate of DNA
 substitution in these orthologous genes was on average 14 times faster for
 lice than for humans and chimpanzees. In addition, these rates were
 positively correlated across genes. Because this correlation only occurred
 for substitutions that changed the amino acid, this pattern is probably
 produced by similar functional constraints across the same genes in
 humans, chimpanzees and their ectoparasites.
description: ALIGNMENTS_DRYADAlignments for 1,534 1:1 orthologous genes across lice and their primate hosts. There are 4 alignment folders each with 1,534 genes in them. 1. Lice DNA alignments. 2. Lice protein alignments 3. Primate DNA alignments. 4. Primate protein alignments.
DOI: 10.5061/dryad.22412
title: Data from: Modular tagging of amplicons using a single PCR for high-throughput sequencing

description: High-throughput sequencing (HTS) of PCR amplicons is becoming the method
 of choice to sequence one or several targeted loci for phylogenetic and
 DNA barcoding studies. Although the development of HTS has allowed rapid
 generation of massive amounts of DNA sequence data, preparing amplicons
 for HTS remains a rate-limiting step. For example, HTS platforms require
 platform-specific adapter sequences to be present at the 5′ and 3′ end of
 the DNA fragment to be sequenced. In addition, short multiplex identifier
 (MID) tags are typically added to allow multiple samples to be pooled in a
 single HTS run. Existing methods to incorporate HTS adapters and MID tags
 into PCR amplicons are either inefficient, requiring multiple enzymatic
 reactions and clean-up steps, or costly when applied to multiple samples
 or loci (fusion primers). We describe a method to amplify a target locus
 and add HTS adapters and MID tags via a linker sequence using a single
 PCR. We demonstrate our approach by generating reference sequence data for
 two mitochondrial loci (COI and 16S) for a diverse suite of insect taxa.
 Our approach provides a flexible, cost-effective and efficient method to
 prepare amplicons for HTS.
description: 16S sam
 filesAlignments of 16S
 high-throughput sequencing reads to reference
 sequences.COI sam
 filesAlignments of COI
 high-throughput sequencing reads to reference
 sequences.
DOI: 10.5061/dryad.5t42r
title: Data from: Bone-to-body biometric relationships for Owens and Lahontan tui chubs and their hybrids in California

description: Regression parameters for the length of several bony structures against
 fish body length, and for body length against body weight, were determined
 for Owens tui chub (Siphateles bicolor snyderi), Lahontan tui chub (S. b.
 obesa) and hybrid swarm deriving from the two species. A total of 211
 individuals from 16 localities from the Owens River and neighboring basins
 along the border between California and Nevada were used for regression
 analyses. The coefficient of determination of linear regressions for
 scales, pharyngeal arches, dentaries, cleithra, and opercula against body
 length were consistently high (r2 埲.9). Differences between subspecies
 were mainly with reference to the intercept parameter in comparisons
 involving Lahontan tui chub. Coefficients of determination from log-linear
 length-weight regressions were also high (r2 埲.9) for individual taxa and
 for the pooled data set combining both Lahontan and hybrid species. The
 length-weight relation ship did not differ between subspecies. Estimates
 of the length-weight relationship using data pooling both Lahontan and
 hybrid tui chub suggest a weak allometric growth effect (P&lt;0.05).
 The bone-length to body-length and body-length to body-weight
 relationships presented here will be useful tools for future dietary
 studies of tui chub predators as well as for archaeological and
 paleontological studies on tui chub remains.
description: Table A1 - Length,
 weight, and bonelength measurement values of the studied Owens tui chub
 Siphateles bicolor snyderi, Lahontan tui chub S. b. obesa and hybrid
 specimens derived from the two species collected in 2001 and 2002 from the
 Owens River and neighboring basins along the border between California and
 NevadaTable
 A1 - Data.xlsReference A1. Owens Tui
 Chub (Siphateles bicolor snyderi = Gila bicolor snyderi) 5-year review:
 summary and evaluationU.S. Fish and Wildlife
 Service. 2009. Owens Tui Chub (Siphateles bicolor snyderi = Gila bicolor
 snyderi) 5-year review: summary and evaluation. 34 pp. Ventura,
 California: U.S. Fish and Wildlife Service, Ventura Fish and Wildlife
 Office.Reference A1 - USFWS
 2009.pdf
DOI: 10.5281/zenodo.7515221
title: RazanGhzouli/Behavior-Trees-dataset

description: This release contains data for Behavior Trees and State Machines in Robotics Applications (https://doi.org/10.1109/TSE.2023.3269081), published at IEEE Transaction in Software Engineering (TSE).
DOI: 10.5061/dryad.q2070
title: Data from: Night warming on hot days produces novel impacts on development, survival and reproduction in a small arthropod

description: 1. An asymmetric increase of nighttime temperatures on hot days is one of
 the main features of global climate change. But the biological effects of
 an increased nighttime temperature combined with high daytime temperature
 are unclear. 2. We used six thermal regimens to simulate nighttime
 temperatures on hot days and investigated the effects of night warming on
 life history traits of the English grain aphid Sitobion avenae.
 Experimental temperatures fluctuated in continuous diurnal cycles,
 increasing from 27 °C to a maximum 35 °C and then declining to 27 °C
 gradually before further dropping to different minima (13, 16, 19, 21, 23
 or 25 °C) representing nighttime temperatures. 3. When compared to
 expectations based on constant temperatures, night warming raised the
 optimum temperature for development by 3 °C, in contrast to results from
 experiments where temperature variability was altered symmetrically or in
 a parallel manner. Night warming also reduced aphid survival under heat
 from 75% to 37%, and depressed adult performance by up to 50%. Overall,
 night warming exacerbated the detrimental effects of hot days on the
 intrinsic rate of population increase, which was predicted to drop by 30%
 when nighttime minimum temperatures exceeded 20 °C. 4. Our novel findings
 on development challenge the ‘Kaufmann effect’, suggesting this is
 inapplicable to night warming likely to be encountered in nature. Although
 many average temperature models predict increasing pest outbreaks, our
 results suggest that outbreaks of some species might decrease due to the
 effects of night warming on population dynamics.
description: Impacts of night warming
 in hot days on aphidDevelopment time, rate
 and survival of nymph, fecundity and longevity of adult, and life table
 parametersSource data-Impacts of night
 warming in hot days on aphid.xls
DOI: 10.5061/dryad.95h1t
title: Data from: Diversity and abundance of phyllosphere bacteria are linked to insect herbivory

description: Simultaneous or sequential attack by herbivores and microbes is common in
 plants. Many seed plants exhibit a defence trade-off against chewing
 herbivorous insects and leaf-colonizing (‘phyllosphere’) bacteria, which
 arises from cross-talk between the phytohormones jasmonic acid (JA,
 induced by many herbivores) and salicylic acid (SA, induced by many
 bacteria). This cross-talk may promote reciprocal susceptibility in plants
 between phyllosphere bacteria and insect herbivores. In a population of
 native bittercress (Cardamine cordifolia, Brassicaceae), we tested whether
 simulating prior damage with JA or SA treatment induced resistance or
 susceptibility (respectively) to chewing herbivores. In parallel, we
 conducted culture-dependent surveys of phyllosphere bacteria to test the
 hypothesis that damage by chewing herbivores correlates positively with
 bacterial abundance in leaves. Finally, we tested whether bacterial
 infection induced susceptibility to herbivory by a major chewing herbivore
 of bittercress, Scaptomyza nigrita (Drosophilidae). Overall, our results
 suggest that reciprocal susceptibility to herbivory and microbial attack
 occurs in bittercress. We found that JA treatment reduced and SA treatment
 increased S. nigrita herbivory in bittercress in the field. Bacterial
 abundance was higher in herbivore-damaged vs. undamaged leaves (especially
 Pseudomonas syringae). However, Pedobacter spp. and Pseudomonas
 fluorescens infections were negatively associated with herbivory.
 Experimental Pseudomonas spp. infections increased S. nigrita herbivory in
 bittercress. Thus, plant defence signalling trade-offs can have important
 ecological consequences in nature that may be reflected in a positive
 correlation between herbivory and phyllosphere bacterial abundance and
 diversity. Importantly, the strength and direction of this association
 varies within and among prevalent bacterial groups.
description: HumphreyPT-MolEcol
DOI: 10.5061/dryad.rc5tb
title: Data from: Hybridization at an ecotone: ecological and genetic barriers between three Iberian vipers

description: The formation of stable genetic boundaries between emerging species is
 often diagnosed by reduced hybrid fitness relative to parental taxa. This
 reduced fitness can arise from endogenous and/or exogenous barriers to
 gene flow. Although detecting exogenous barriers in nature is difficult,
 we can estimate the role of ecological divergence in driving species
 boundaries by integrating molecular and ecological niche modelling tools.
 Here, we focus on a three-way secondary contact zone between three viper
 species (Vipera aspis, V. latastei and V. seoanei) to test for the
 contribution of ecological divergence to the development of reproductive
 barriers at several species traits (morphology, nuclear DNA, and
 mitochondrial DNA). Both the nuclear and mitochondrial data show that all
 taxa are genetically distinct and that the sister species V. aspis and V.
 latastei hybridize frequently and backcross over several generations. We
 find that the three taxa have diverged ecologically and meet at a hybrid
 zone coincident with a steep ecotone between the Atlantic and
 Mediterranean biogeographic provinces. Integrating landscape and genetic
 approaches, we show that hybridization is spatially restricted to habitats
 that are sub-optimal for parental taxa. Together, these results suggest
 that niche separation and adaptation to an ecological gradient confer an
 important barrier to gene flow among taxa that have not achieved complete
 reproductive isolation.
description: DatabaseSqlite database containing most information.vipers.sqliteNewHybridsInput files for NewHybridsStructureInput files for StructureSimapseInput files for SimapseSimulatedHybridlab generated data for NewHybrids and Structure
DOI: 10.57903/uj/1bx7tx
title: Temporal Dynamics of Cellular Metabolic Recovery: Prevention versus Restitution Revealed by Coherent Raman and Fluorescent Lifetime Imaging - replication data

description: Raw measurement data related to research conducted under the Maestro research project (2022/46/A/ST4/00054 to Malgorzata Baranska), OPUS (2024/53/B/ST4/02698 to Małgorzata Baranska) and Preludium22 (2023/49/N/ST4/03419 to Anna Pieczara) funded in whole or in part by the National Science Center Poland (NCN) and Polish National Agency for Academic Exchange (NAWA, BPN/BDE/2022/1/00004/U/00001 to Malgorzata Baranska) and the DAAD (German Academic Exchange Service) Project 57655743, "Nonlinear imaging techniques in biochemistry and biomedicine". For the purpose of Open Access, the author has applied a CC-BY public copyright license to any Author Accepted Manuscript (AAM) version arising from this submission. 
Based on these data, the figures presented in the above-mentioned publication were created. The research was carried out using equipment supported by grant no. 35/598515/SPUB/SP/2024 from the Ministry of Science and Higher Education in Poland.
DOI: 10.5061/dryad.nd358
title: Data from: Sensory limitations and the maintenance of color polymorphisms: viewing the ‘alba’ female polymorphism through the visual system of male Colias butterflies

description: Although color polymorphisms are a widespread and conspicuous component of
 extant biodiversity, the selective pressures that act to maintain multiple
 morphs within populations remain poorly understood in most cases. In
 particular, the role that visual system limitations may play in
 maintaining multiple color morphs is not well explored. We used a
 female-limited color polymorphism common to the butterfly genus Colias,
 called the ‘alba’ polymorphism, to investigate the hypotheses that
 mate-searching males may struggle to discriminate pale ‘alba’ females from
 co-occurring heterospecific white butterflies and/or heterospecific ‘alba’
 females, or that ‘alba’ females may be more difficult to detect than
 non-‘alba’ females in natural scenes. Such perceptual limitations may
 influence the relative mating rates of ‘alba’ versus non-‘alba’ females,
 contributing to the evolutionary persistence of both morphs. Based on
 receptor-noise-limited modeling of the male Colias visual system, we find
 that ‘alba’ females exhibit chromatic and luminance contrasts against
 background foliage that are most similar to the ‘alba’ females of other
 co-occurring Colias species and females of the co-occurring white
 butterfly Pieris rapae. When compared to other co-flying butterflies
 including non-‘alba’ females, ‘alba’ females are consistently lower in
 chromatic contrast against background, but higher in luminance contrast.
 When viewed side-by-side, we estimate that male Colias should be able to
 discriminate ‘alba’ females from other co-occurring heterospecific
 butterflies, including heterospecific ‘albas’. However, under field
 conditions that involve larger distances in space or time, males are
 likely to face challenges discriminating between conspecific ‘alba’
 females and co-occurring heterospecific white butterflies, particularly
 heterospecific ‘alba’ females. Our results suggest that constraints
 arising from male visual function may be involved in the maintenance of
 this color polymorphism, particularly in populations that co-occur with
 other ‘alba’-polymorphic Colias species. We argue that such visual system
 constraints may play a larger role in the maintenance of color
 polymorphism than has been empirically appreciated to date.
description: Chromatic and luminance
 wing-background and wing-wing contrastsContains chromatic and
 luminance wing-background and wing-wing contrasts.Raw Spectral Data
 FinalContains reflectance
 data from the wings of Colias eurytheme, C. philodice, Pieris rapae,
 leaves of alfalfa (Medicago sativa), and irradiance
 data.Raw
 Spectral Data.xlsx
DOI: 10.15468/dl.wdj3p9
title: Occurrence Download

description: A dataset containing 36515 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is Taxon occurrence data for the FungalRoot database"
 ]
}

 The dataset includes 36515 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001603-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.4kp4r
title: Data from: Diversification of mammals from the Miocene of Spain

description: The mammalian fossil record of Spain is long and taxonomically well
 resolved, offering the most complete record of faunal change for the
 Neogene of Europe. We evaluated changes in diversification, composition,
 trophic structure, and size structure of large mammals over the middle and
 late Miocene with methods applied to this record for the first time,
 including ordination of fossil localities to improve temporal resolution
 and estimation of confidence intervals on taxa temporal ranges. By
 contrast, analysis within the traditional Mammal Neogene (MN)
 biochronology obscures important aspects of diversification. We used
 inferred temporal ranges of species and evaluated per capita rates of
 origination, extinction, diversification, and turnover over 0.5-Myr time
 intervals. Three periods of significant faunal change occurred between
 12.0 and 5.5 Ma: (1) From 12.0 to 10.5 Ma, elevated origination rates led
 to an increase in diversity without significant change in ecological
 structure. Immigrants and geographic-range shifts of species to lower
 latitudes during an interval of global cooling contributed to these faunal
 changes. (2) From 9.5 to 7.5 Ma, high extinction rates followed by high
 origination rates coincided with significant changes in taxonomic
 composition and ecological structure. These changes represent the
 Vallesian Crisis, with replacement of a fauna of forest affinities (with
 frugivores and browsers) by a fauna of open woodlands (with grazers and
 mixed feeders). (3) From 6.5 to 5.5 Ma, high extinction rates reduced
 diversity without substantial changes in ecological structure, and large
 mammal faunas became highly endemic across the northern Mediterranean
 region. This interval includes the Messinian Salinity Crisis, the
 desiccation of the Mediterranean basin. Extinction may have been caused by
 geographic isolation and aridification, with evolution of endemic lineages
 giving rise to new species in the early Pliocene. These distinct
 macroevolutionary patterns of faunal change correspond to different
 geographic scales of inferred climatic and tectonic drivers.
description: Supplementary Figure 1
 (Domingo et al.)Supplementary Figure 2
 (Domingo et al.)Supplementary Figure 3
 (Domingo et al.)Supplementary Table 1
 (Domingo et al.)Supplementary Table 2
 (Domingo et al.)Supplementary Table 3
 (Domingo et al.)Supplementary Table 4
 (Domingo et al.)Supplementary Table 5
 (Domingo et al.)Supplementary Table 6
 (Domingo et al.)Supplementary Table 7
 (Domingo et al.)Supplementary Table 8
 (Domingo et al.)Supplementary Table 9
 (Domingo et al.)Supplementary Table 10
 (Domingo et al.)Supplementary Text
 (Domingo et al.)
DOI: 10.7910/dvn/hfa170
title: Replication Data for: High-Road or Low-Road? Europe’s EV Battery Rollout and the Trade-Offs of Green Industrial Policy in a Geoeconomic World

description: Replication Data for: High-Road or Low-Road? Europe’s EV Battery Rollout and the Trade-Offs of Green Industrial Policy in a Geoeconomic World