cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.vmcvdncpk
title: The mosaic distribution pattern of two sister bush-cricket species and the possible role of reproductive interference

description: Reproductive interference can shape regional distribution patterns in
 closely related species, if prezygotic isolation barriers are weak. The
 study of such interaction could be more challenging in nuptial gift-giving
 species due to the direct nutritional effects on both sexes of both
 species during copulation. We mapped the distribution of two sister
 bush-cricket species, Pholidoptera aptera and P. transsylvanica, at the
 northern margin of their overlapping ranges in Europe and, with a
 behavioural experiment, we tested the possibility of heterospecific
 mating. We found a very rare coexistence of species locally (0.5%, n = 391
 sites) with mostly mutually exclusive distribution patterns, resulting in
 a mosaic pattern of sympatry, whereas they occupied the same climate niche
 in forest-dominated mountain landscape. Over 14 days of a mating
 experiment with seven mixed groups of conspecifics and heterospecifics (n
 = 56 individuals in total), the number of received spermatophores per
 female was 3–6 in P. aptera and 1–7 in P. transsylvanica. In total, we
 found 8.1% of heterospecific copulations (n = 99 transferred
 spermatophores with genetic identification of the donor species), while we
 also confirmed successful the transfer of heterospecific sperms into a
 female’s reproductive system. Because bush-cricket females also obtain
 required nutrition from a heterospecific spermatophylax what should
 increase their fitness and fecundity, we suggest that their flexibility to
 mate with heterospecifics is beneficial and drives reproductive
 interference. This may substantially limit the reproductive success of the
 less frequent species (P. transsylvanica), coupled with eventual
 detrimental effects from hybridization, and result in the competitive
 exclusion of that species from their areas of coexistence.
description: This dataset was collected in the field.
description: This data file contains geographical coordinates of distribution
 sites of two study bush-cricket species Pholidoptera aptera and
 Pholidoptera transsylvanica in Slovakia.
DOI: 10.15468/dl.n9erk8
title: Occurrence Download

description: A dataset containing 9 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Ecuador",
 "TaxonKey is Ichthyoelephas humeralis",
 "Year 2006-2026"
 ]
}

 The dataset includes 9 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002174-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.jm63xsj6m
title: Structural evolution drives diversification of the large LRR-RLK gene family

description: Cells are continuously exposed to chemical signals that they must
 discriminate between and respond to appropriately. In embryophytes, the
 Leucine-Rich Repeat Receptor-Like Kinases (LRR-RLKs) are signal receptors
 critical in development and defense. LRR-RLKs have diversified to hundreds
 of genes in many plant genomes. Although intensively studied, a
 well-resolved LRR-RLK gene tree has remained elusive.  To resolve
 the LRR-RLK gene tree, we developed an improved gene discovery method
 based on iterative Hidden Markov Model (HMM)-searching and phylogenetic
 inference. We used this method to infer complete gene trees for each of
 the LRR-RLK subclades, and reconstructed the deepest nodes of the full
 gene family. We discovered that the LRR-RLK gene family is even larger
 than previously thought, and that protein domain gains and losses are
 prevalent. These structural modifications, some of which likely predate
 embryophyte diversification, led to misclassification of some LRR-RLK
 variants as members of other gene families. Our work corrects this
 misclassification. Our results reveal ongoing structural evolution
 generating novel LRR-RLK genes. These new genes are raw material for the
 diversification of signaling in development and defense. Our methods also
 enable phylogenetic reconstruction in any large gene family.
DOI: 10.5061/dryad.rfj6q576x
title: Multigenerational exposure to elevated temperatures leads to a reduction in standard metabolic rate in the wild

description: In light of global climate change, there is a pressing need to understand
 and predict the capacity of populations to respond to rising temperatures.
 Metabolic rate is a key trait that is likely to influence the ability to
 cope with climate change. Yet, empirical and theoretical work on metabolic
 rate responses to temperature changes has so far produced mixed results
 and conflicting predictions. Our study addresses this issue using a novel
 approach of comparing fish populations in geothermally warmed lakes and
 adjacent ambient-temperature lakes in Iceland. This unique ‘natural
 experiment’ provides repeated and independent examples of populations
 experiencing contrasting thermal environments for many generations over a
 small geographic scale, thereby avoiding the confounding factors
 associated with latitudinal or elevational comparisons. Using Icelandic
 sticklebacks from three warm and three cold habitats, we measured
 individual metabolic rates across a range of acclimation temperatures to
 obtain reaction norms for each population. We found a general pattern for
 a lower standard metabolic rate in sticklebacks from warm habitats when
 measured at a common temperature, as predicted by Krogh’s rule. Metabolic
 rate differences between warm- and cold-habitat sticklebacks were more
 pronounced at more extreme acclimation temperatures, suggesting the
 release of cryptic genetic variation upon exposure to novel conditions,
 which can reveal hidden evolutionary potential. We also found a stronger
 divergence in metabolic rate between thermal habitats in allopatry than
 sympatry, indicating that gene flow may constrain physiological adaptation
 when dispersal between warm and cold habitats is possible. In sum, our
 study suggests that fish may diverge toward a lower standard metabolic
 rate in a warming world, but this might depend on connectivity and gene
 flow between different thermal habitats.
description: This dataset includes respirometry data that were processed
 through LabChart and analysed using R.
DOI: 10.5061/dryad.0rxwdbrw4
title: Gait analysis results for different pediatric prosthetic knee prescription protocols

description: Traditionally, children who need a prosthetic knee joint are not provided
 with one in their first prosthesis. An alternative Early Knee protocol
 provides a flexing knee in the first prosthesis. The purpose of this
 multi-site study was to examine kinematic outcomes during walking in
 separate groups of young children in an Early prosthetic knee prescription
 protocol (EK) versus a traditional prosthetic knee
 protocol (TK), along with a population of children without lower limb
 amputations. Eighteen children aged 12 months to five years were recruited
 for this study at two clinical sites, six in each of the three groups.
 Children in the two prosthesis groups had unilateral limb loss and had
 been treated at one site with the TK protocol or at another with the EK
 protocol. All children walked at self-selected speed while kinematic data
 were collected using similar Vicon motion analysis systems. Data include
 joint angles, extrema, and ranges of motion used for the determination of
 temporal and spatial gait parameters and swing-phase clearance
 adaptations. 
description: Data were collected using two similar Vicon 3-D motion analysis
 systems. Subjects walked barefoot at self-selected speeds on smooth,
 level, laboratory floors. Cameras tracked markers in a standard Vicon
 Plug-In-Gait lower body model. Data were collected and processed using
 Vicon Nexus 2.0.
DOI: 10.5061/dryad.h9w0vt4f1
title: Traits and depth: what do hydroids tell us about morphology and life-history strategies in the deep sea?

description: Aim: Traits affect the survival and reproduction of individuals
 in different habitat conditions, ultimately altering their
 distributions. In the oceans, changes in environmental conditions
 with bathymetry may influence the occurrence of specific traits.
 Therefore, characterizing trait variation with depth can illuminate
 drivers related to the distribution of diversity of forms, functions, and
 life histories. We aimed to investigate patterns of variation in the
 diversified life histories and morphologies of hydroids with depth,
 integrating these patterns with the natural history of the group and
 ecological principles of the deep sea. Location: Atlantic Ocean
 and adjacent polar seas, from 50 m to 5,330 m deep. Time
 period: Present day. Major taxa studied: Hydrozoa.
 Methods: Analyses were based on 14 traits collected for a total
 of 4,668 specimens of hydroids, belonging to 438 species. Records were
 divided into 12 depth strata for comparisons. We evaluated: how each trait
 varies with depth; whether variation in some traits is affected by the
 presence of other traits; how traits covary; and similarities in trait
 compositions among depth strata. Results: Traits of hydroids vary
 with depth, with more pronounced differences for regions deeper than 1,000
 m. Hydroids are generally smaller, infertile, solitary, meroplanktonic,
 and devoid of protective structures with increasing depth. The
 relationship, however, is not always linear. Also, some covariation and
 correlation between traits was evident. For example, depth may affect size
 differently according to the presence of specific traits such as
 structures protecting against predation. The lower proportion of fertile
 specimens recorded in the deep sea suggests that chances for genetic
 recombination are reduced in deep-sea populations, ultimately leading to a
 slower rate of evolution. Main conclusions: We identified novel
 trends in hydroid trait variation with depth by combining observations on
 morphology, ecology, and life history, clarifying selection pressures on
 hydroids in the deep sea.
DOI: 10.5061/dryad.73n5tb2t9
title: Development of whole-genome prediction models to increase the rate of genetic gain in intermediate wheatgrass (Thinopyrum intermedium) breeding

description: The development of perennial grain crops is driven by the vision of
 simultaneous food production and enhanced ecosystem services. Typically,
 perennial crops like intermediate wheatgrass (IWG, Thinopyrum intermedium)
 have low seed yield and other detrimental agronomic traits. Next
 generation sequencing has made genomic selection (GS) a tractable and
 viable breeding method. To investigate how an IWG breeding program may
 utilize GS, we evaluated 3,658 plants over two years for 46 traits to
 build a training population. Six statistical models were used to evaluate
 the non-replicated data, and a model using autoregressive order 1 (AR1)
 spatial correction for rows and columns combined with the genomic
 relationship matrix provided the highest estimates of heritability.
 Genomic selection models were built using 18,357 single nucleotide
 polymorphism (SNP) markers from genotyping-by-sequencing, and a 20-fold
 cross-validation showed high predictive ability for all traits (r &gt;
 0.80). Prediction accuracies improved with increasing training population
 size and higher marker numbers, even with larger amounts of missing data
 per marker. Based on these results, we propose a GS breeding method that
 is capable of completing one cycle per year compared to a minimum of two
 years per cycle with phenotypic selection. We estimate this breeding
 approach can increase the rate of genetic gain up to 2.6 times above
 phenotypic selection for spike yield, allowing GS to enable rapid
 domestication and improvement of IWG and other novel species.
description: See article for details and README.pdf for code and documentation
 of methods.
DOI: 10.15468/dl.dktxgp
title: Occurrence Download

description: A dataset containing 15 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Vanilla penicillata"
 ]
}

 The dataset includes 15 records from 11 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002172-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.18394677
title: FUTURE PROSPECTS OF ELECTRIC-HYBRID VEHICLES

description: Electric-hybrid vehicles (EHV) combine internal combustion and electric propulsion to balance performance, efficiency, and sustainability. This paper examines the technological evolution, challenges, and future prospects of EHVs within the global automotive industry.
DOI: 10.5281/zenodo.18394678
title: FUTURE PROSPECTS OF ELECTRIC-HYBRID VEHICLES

description: Electric-hybrid vehicles (EHV) combine internal combustion and electric propulsion to balance performance, efficiency, and sustainability. This paper examines the technological evolution, challenges, and future prospects of EHVs within the global automotive industry.
DOI: 10.15468/dl.x7awra
title: Occurrence Download

description: A dataset containing 224 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Acacia argyrophylla",
 "HasCoordinate is true",
 "BasisOfRecord is one of (Specimen)"
 ]
}

 The dataset includes 224 records from 13 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002175-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5068/d1dw95
title: Data from: eDNA metabarcoding bioassessment of endangered fairy shrimp (Branchinecta spp.) - Part B

description: Fairy shrimp are integral components of vernal pool ecosystems, providing
 key food resources for migratory birds and amphibians. However, habitat
 degradation and land use change severely threaten the health of both
 vernal pools and the survival of fairy shrimp species. Branchinecta
 sandiegonensis  Fugate, 1993 has been particularly affected by
 urban and agricultural development in its small native range within San
 Diego County, California, USA. It is listed as an endangered species under
 federal laws and is actively managed for its conservation. However,
 despite its legal protections, current methods of population assessment
 require the capture and sacrifice of individuals of B. sandiegonensis in
 order to identify specimens to species level through microscopy.
 Furthermore, accurate species-level identification is especially important
 given the overlap of B. sandiegonensis with a common (non-threatened)
 sister species, B. lindahli Packard, 1883. Thus non-invasive methods to
 definitively distinguish these species are desirable. Here we demonstrate
 that eDNA metabarcoding methods are an effective non-invasive technique
 for monitoring fairy shrimp. We sampled a series of vernal pools with both
 eDNA and traditional dip net methods, finding that eDNA metabarcoding with
 16S rDNA provides species-level resolution. eDNA metabarcoding for B.
 sandiegonensis had a sensitivity of 99% and a specificity of 99% while dip
 net sampling had a sensitivity of 98.8% and a specificity of 89.2%. We
 found that the two methods were concordant within the early hydroperiod of
 pools. Additionally, the eDNA method detected fairy shrimp in vernal pools
 up to 2 months after dip nets detected any adult individuals, suggesting
 eDNA methods detect fairy shrimp eggs, newly hatched larvae, or decaying
 individuals. Together these results provide resource managers a simple,
 cost effective, and non-invasive method for biomonitoring endangered fairy
 shrimp species.
description: eDNA metabarcoding data of <em>16S</em> invertebrate
 reads were collected from 11 vernal pools is 2017. Samples were sequenced
 twice on MiSeq PE 2x300. Raw sequences were processed using the
 <em>Anacapa Toolkit </em>with standard parameters.  Taxonomy
 was assigned using CRUX-generated <em>16S </em>rDNA
 metabarcode reference database. The CRUX reference database was generated
 from EMBL and NCBI repositories downloaded in May 2019.
 Please see Gold et al. 2020 for detailed description of
 the methods.
description: VP_meta_data has a list of all sample names and associated
 metadata needed to process and analyze the raw sequencing files. Raw
 sequence data includes two demultiplexed MiSeq PE 2x300 zipped
 fastq files. CRUX-generated <i>16S</i> reference database has
 a bowtie-2 formatted reference database as well as a corresponding fasta
 file of all sequences and matching taxonomy text file.
 Metabarcode generated sequencing data are in the two
 parts, attached and at https://doi.org/10.5068/D1QD5M.
DOI: 10.5061/dryad.zkh18936p
title: An experimental study on the separation of lanthanides from phosphate ore by organic and inorganic acids

description: In this study, the separation of Lanthanides from phosphate ore using
 C2H2O4, C4H6O6, C3H6O3, H2SO4, and HCl was investigated. The ore was
 characterized before and after leaching processes by XRF, SEM, XRD, and
 IR. The different parameters affect the leaching rate such as leaching
 time, acid concentration, liquid/solid ratios, temperature, and leaching
 kinetics were studied. The optimal leaching conditions were determined as
 0.4M H2C2O4, 2.5M C4H6O6, 1.8M C3H6O3, 2.0M H2SO4, and 3.0M HCl,
  with a L/S ratio of 6/1 H2C2O4, 8/1 for both C4H6O6 and C3H6O3,
 5/1 for both H2SO4 and HCl at 30 °C, agitation rate ≈ 350 rpm and particle
 size ≈ 144.8 μm. Under these optimum conditions, (%R) were 42.8% (for
 C2H2O4), 93.2% (for C4H6O6), 89.1% (for C3H6O3), 89.3% (for H2SO4), and
 94.6% (for HCl). SEM and FTIR characterization for the residue was
 investigated. Experimental data reveals that, the leaching processes are
 fitted by chemical reaction models for C2H2O4 and C3H6O3, and by
 diffusion-reaction model for C4H6O6, H2SO4, and HCl. The activation
 energies for these models were estimated to be 43.3, 30.33, 45.8, 31.3,
 and 38.6 kJ/mol for C2H2O4, C4H6O6, C3H6O3, H2SO4 and HCl, respectively.
 All data were confirmed and explained by XRD, FTIR and SEM studies.
description: The mineralogical analysis
 of the phosphate sample and the residues was carried out by XRD-7000S High
 Resolution X-Ray Diffractometer Instrument. Fourier transform infrared (FTIR)
 spectroscopy was performed Shimadzu IR Tracer and the scan was performed
 from 400 to 4000 cm<sup>-1</sup>.
DOI: 10.5061/dryad.6t1g1jwvp
title: Patterns of fluctuating asymmetry in the limbs of freshwater turtles: are more functionally important limbs more symmetrical?

description: Understanding how selective forces influence patterns of symmetry remains
 an active area of research in evolutionary biology. One hypothesis, which
 has received relatively little attention, suggests that the functional
 importance of morphological characters may influence patterns of symmetry.
 Specifically, it posits that for structures that display bilateral
 symmetry, those with greater functional importance should display lower
 levels of asymmetry. The aim of this study was to examine the patterns of
 fluctuating asymmetry (FA) present in the limb bones of freshwater turtles
 in the family Emydidae. Aquatic emydid turtles of the subfamily
 Deirochelyinae employ a hindlimb-dominant swimming style, suggesting that
 hindlimbs should display lower levels of FA. Consistent with the
 morpho-functional hypothesis of symmetry, we found a strong, clade-wise
 pattern of humeral-biased FA in aquatic Deirochelyinae. In contrast, some
 emydids of the subfamily Emydinae possess more terrestrial tendencies. As
 terrestrial locomotion places more equal importance on fore- and
 hindlimbs, we predicted that such behaviors may minimize differences in
 FA. No clade-wise pattern was detected in the subfamily Emydinae. We also
 detected a phylogenetic signal in FA within the femur and discovered that
 FA has evolved at vastly different rates between the fore- and hindlimbs.
description: We collected limb bone measurements from 522 disarticulated
 skeletal specimens representing 11 emydid species. The length of each bone
 (humerus and femora), defined as the maximum distance between the distal
 and proximal bony articular surfaces, was measured to the nearest 0.01 mm.
 Values presented here represent the average of three measurements from
 each bone of each specimen rounded to the nearest 0.01 mm.
DOI: 10.5061/dryad.79cnp5hrt
title: Local adaptation across a complex bioclimatic landscape in two montane bumble bee species

description: Understanding evolutionary responses to variation in temperature and
 precipitation across species ranges is of fundamental interest given
 ongoing climate change. The importance of temperature and precipitation
 for multiple aspects of bumble bee (Bombus) biology, combined with large
 geographic ranges that expose populations to diverse environmental
 pressures, make these insects well-suited for studying local adaptation.
 We analyzed genome-wide sequence data from two widespread bumble bees,
 Bombus vosnesenskii and Bombus vancouverensis, using multiple
 Environmental Association Analysis methods to investigate climate
 adaptation across latitude and altitude. The strongest signatures of
 selection were observed in B. vancouverensis, but despite unique responses
 between species for most loci, we detected several shared responses. Genes
 relating to neural and neuromuscular function and ion transport are
 especially evident with respect to temperature variables, while genes
 relating to cuticle formation, tracheal and respiratory system
 development, and homeostasis were associated with precipitation variables.
 Our data thus suggest that adaptive responses for tolerating abiotic
 variation are likely to be complex, but that several parallels among
 species can emerge even for these complex traits and landscapes. Results
 provide the framework for future work into mechanisms of thermal and
 desiccation tolerance in bumble bees and a set of genomic targets that
 might be monitored for future conservation efforts.
description: This data set contains data derived from RAD-tag sequencing of
 wild caught bumble bees. 
description: Dryad data two sets of "vos" and "bif" data
 for Jackson et al. "<b>Local adaptation across a complex
 bioclimatic landscape in two montane bumble bee
 species"</b> Two files
 "bif_metadata_58.txt" and "vos_metadata_58.txt" have
 detailed descriptions of all the data files contained within. 
 ####Please note that "bif" is now renamed to B.
 vancouverensis. All files in this folder referred to as "bif" or
 "bifarius" relate to B. vancouverensis in the associated
 Molecular Ecology manuscript.####