cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.6m905qg10
title: Fire recurrence and time since last fire interact to determine the supply of multiple ecosystem services by Mediterranean forests

description: Wildfires shape the composition and functioning of Mediterranean
 ecosystems, but we do not know how these ecosystems respond to both the
 higher fire recurrence and shorter recovery times expected for future
 climatic scenarios.  We sampled 29 plots with different fire
 recurrences (from 0 to  4 fires over the past decades) and time
 since the last fire (up to 35 years; hereafter TSLF) in Southeast Spain,
 to assess the effect of fire recurrence and TSLF on 25 ecosystem
 attributes, five related ecosystem services (biodiversity conservation,
 carbon sequestration, disturbance regulation, food production, 
 and supporting services), plus the synergies and trade-offs between them.
 High fire recurrence (number of fires) and TSLF interacted to determine
 ecosystem services but did not affect the synergies and trade-offs between
 them. Fire recurrence reduced many ecosystem functions and ecosystem
 multifunctionality. However, this effect dampened, and even became
 positive, for biodiversity conservation and food production services
 provided enough (&gt; 20 years) time to recover. The combined effects
 of fire recurrence and TSLF, however, reduced carbon sequestration and had
 no overall effects on supporting services. Disturbance regulation, in
 turn, diminished drastically with the first fire, with no effect of
 further fires or their interaction with TSLF. Our results show which
 ecosystem services will suffer more from an increase in fire recurrence,
 and where restoration and management efforts should focus to maximize the
 provision of those services more demanded by stakeholders.
description: See methods in the
 associated manuscript.
DOI: 10.5061/dryad.xwdbrv1f5
title: Strong population genetic structure and cryptic diversity in the Florida bonneted bat (Eumops floridanus)

description: Knowledge of genetic structure is essential for the long-term management
 and conservation of endangered species. We report the results from a
 genetic examination of the federally endangered Florida bonneted bat
 (Eumops floridanus) sampled from its range in southern Florida, USA.
 Bonneted bats are primarily found in four regions separated by
 approximately 100 to 250 kms, including three western natural areas (BW,
 PC, and CC) and one urban population on the east coast [Miami-Dade County
 (MD)]. We used 22 microsatellite loci and cytochrome b sequences to assess
 the extent of connectivity and levels of genetic diversity. Regional
 populations were highly differentiated (FST = 0.178) and model-based and
 multivariate analyses showed that MD was the most distinct among pairwise
 comparisons. Regional populations are small (i.e., Ne &lt; 100) but
 demographically stable. Estimates of contemporary migration and historic
 gene flow suggest that regional populations do not frequently exchange
 migrants, but simulations suggest that the divergence among western
 regions is likely a result of recent genetic drift rather than long-term
 isolation. Significantly, mitochondrial DNA revealed that haplotypes from
 MD were similar or shared with those recognized as Eumops ferox from Cuba
 and Jamaica, and divergent (1.5%) from the remainder of bonneted bats in
 Florida. Our data support the management of each of the four populations
 as distinct population segments, and that BW, PC and CC combined are on an
 independent evolutionary trajectory from bats in MD. Critically, bonneted
 bats in Florida appear to harbor cryptic diversity that will require a
 reassessment of their taxonomy.
description: Genotypes were generated from 22 loci, 21 of which were designed
 specifically from <em>Eumops floridanus</em>. We used PacBio
 sequences on size selected fragments then search for repeat motifs with
 sufficient flanking regions to design primers. Methods followed those in
 Saaranin and Austin 2010 (J Hered 101:784–788
 https://doi.org/10.1093/jhered/esq080).
description: Multilocus genotypes are provided in a simple text file in
 Genepop format. Populations are in order of names in
 heading line, and correspond to the abbreviations given in the manuscript.
 Missing genotypes are presented as 000000.
DOI: 10.5061/dryad.931zcrjm2
title: Genetic architecture of adaptive radiation across two trophic levels

description: Evolution of trophic diversity is a hallmark of adaptive radiation. Yet,
 transitions between carnivory and herbivory are rare in young adaptive
 radiations. Haplochromine cichlid fish of the African Great Lakes are
 exceptional in this regard. Lake Victoria was colonized by an
 insectivorous generalist and in less than 20,000 years, several clades of
 specialized herbivores evolved. Carnivorous versus herbivorous lifestyles
 in cichlids require many different adaptations in functional morphology,
 physiology, and behaviour. Ecological transitions in either direction thus
 require many traits to change in a concerted fashion, which could be
 facilitated if genomic regions underlying these traits were physically
 linked or pleiotropic. However, linkage/pleiotropy could also constrain
 evolvability. To investigate components of the genetic architecture of a
 suite of traits that distinguish invertivores from algae scrapers, we
 performed Quantitative Trait Locus (QTL) mapping using a second-generation
 hybrid cross. While we found indications of linkage/pleiotropy within
 trait complexes, QTLs for distinct traits were distributed across several
 unlinked genomic regions. Thus, a mixture of independently segregating
 variation and some pleiotropy may underpin the rapid trophic transitions.
 We argue that the emergence and maintenance of associations between the
 different genomic regions underpinning co-adapted traits that evolved and
 persist against some gene flow required reproductive isolation.
description: Usage notes can be found in "README.txt"
DOI: 10.7941/d1n33q
title: A three-year building operational performance dataset for informing energy efficiency

description: This dataset was curated from an office building constructed in 2015 in
 Berkeley, California, which includes whole-building and end-use energy
 consumption, HVAC system operating conditions, indoor and outdoor
 environmental parameters, and occupant counts. The data was collected in
 three years from more than 300 sensors and meters for two office floors
 (each 2,325 m2) of the building. A three-step data curation strategy is
 applied to transform the raw data into the research-grade data: (1)
 cleaning the raw data to detect and adjust the outlier values and fill the
 data gaps; (2) creating the metadata model of the building systems and
 data points using the Brick schema; (3) describing the metadata of the
 dataset using a semantic JSON schema. This dataset can be used for various
 types of applications, including building energy benchmarking, load shape
 analysis, energy prediction, occupancy prediction and analytics, and HVAC
 controls to improve understanding and efficiency of building operations
 for reducing energy use, energy costs, and carbon emissions.
description: This dataset includes data of whole-building and end-use energy
 consumption, HVAC system operating conditions, indoor and outdoor
 environmental parameters, and occupant counts. The data was collected in
 three years from more than 300 sensors and meters for two office floors of
 the building. A three-step data curation strategy is applied to transform
 the raw data into the research-grade data: (1) cleaning the raw data to
 detect and adjust the outlier values and fill the data gaps; (2) creating
 the metadata model of the building systems and data points using the Brick
 schema; (3) describing the metadata of the dataset using a semantic JSON
 schema.
description: The time-series data is in CSV format and has a size of 2.38 GB.
 A more detailed note about the data cleaning strategy is available at the
 dataset’s GitHub page - https://github.com/LBNL-ETA/Data-Cleaning. We
 recommend users to explore the metadata of equipment and sensors in the
 Brick model by using the Brick TTL viewer. Users can obtain the high-level
 metadata about the building and dataset in the metadata JSON
 file.
DOI: 10.5061/dryad.34tmpg4m6
title: Movement, translocation and MRR data for Heliconius butterflies

description: Site fidelity plays an important role in increasing foraging efficiency,
 particularly when food resources are reliable. In insects, site fidelity
 has largely been studied in Hymenopteran species, which consistently
 return to their nest site after foraging bouts. In butterflies, evidence
 of foraging site fidelity are limited but may be present in species with
 specific foraging specialisations, such as Heliconius, which have a
 derived foraging behaviour centred around active pollen feeding. Unlike
 many Hymenoptera, Heliconius are neither eusocial nor nesting species,
 positioning them as a peculiar case where foraging site fidelity may occur
 in the absence of any central nest-like structure. However, to date,
 existing studies do not consider low dispersal as an alternative to site
 fidelity. In this study, we use a mark-release-recapture experiment to
 test whether individuals of two Heliconius species exhibit true site
 fidelity. We further test this fidelity by measuring flight orientation
 during a translocation experiment, and by recapturing translocated
 butterflies to identify whether individuals return to their site of
 origin. We found that non-translocated butterflies display extreme
 stability in site choice, and translocated butterflies consistently return
 to their site of origin, rapidly orientating towards their home site upon
 release. This suggests site fidelity in Heliconius is not solely explained
 by low dispersal, but is a response to the distribution and stability in
 ecological resources. We further note that the ability to return to home
 sites when artificially dispersed suggests a sophisticated ability to
 navigate to specific spatial goals. Our study provides insights into the
 ecological drivers of site fidelity, a novel example distinct from nest
 building or group living, and opens an avenue of new research on
 navigational mechanisms in insects.
DOI: 10.5061/dryad.73n5tb2xx
title: A statistical method to optimize the chemical etching process of Zinc Oxide thin films

description: Zinc Oxide (ZnO) is an attractive material for micro and nanoscale
 devices. Its desirable semiconductor, piezoelectric, and optical
 properties make it useful in applications ranging from microphones to
 missile warning systems to biometric sensors. This work introduces a
 demonstration of blending statistics and chemical etching of thin films to
 identify the dominant factors, and interaction between factors, and
 develop statistically enhanced models on etch rate and selectivity of ZnO
 thin films. Over other mineral acids, ammonium chloride (NH4Cl) solutions
 have commonly been used to wet etch microscale ZnO devices because of
 their controllable etch rate and near-linear behavior. Etchant
 concentration and temperature were found to have a significant effect on
 etch rate. Moreover, this is the first demonstration that has identified
 multifactor interactions between temperature and concentration and between
 temperature and agitation. A linear model was developed relating etch rate
 and its variance against these significant factors and multifactor
 interactions. An average selectivity of 73:1 was measured with none of the
 experimental factors having a significant effect on the selectivity. This
 statistical study captures the significant variance observed by other
 researchers. Furthermore, it enables statistically enhanced
 microfabrication processes for other materials.
DOI: 10.5061/dryad.gmsbcc2p6
title: Estimated values of boreal caribou demographic rates (R, S, lambda) generated from SpaDES landscape simulations in the Northwest Territories

description: Most research on boreal populations of Woodland caribou (Rangifer tarandus
 caribou) has been conducted in areas of high anthropogenic disturbance.
 However, a large portion of the species’ range overlaps relatively
 pristine areas primarily disturbed by natural disturbances, such as
 wildfire. Climate-driven habitat change is a key concern for the
 conservation of boreal-dependent species, where management decisions have
 yet to consider knowledge from multiple ecological domains integrated into
 a cohesive and spatially explicit forecast of species-specific habitat and
 demography. We used a novel ecological forecasting framework to provide
 climate-sensitive projections of habitat and demography for five boreal
 caribou monitoring areas within the Northwest Territories (NWT), Canada,
 over 90 years. Importantly, we quantify uncertainty around forecasted mean
 values. Our results suggest habitat suitability may increase in central
 and southwest regions of the NWT’s Taiga Plains ecozone but decrease in
 southern and northwestern regions driven by conversion of coniferous to
 deciduous forests. We do not project boreal caribou population growth
 rates to change despite forecasted changes to habitat suitability. Our
 results emphasize the importance of efforts to protect and restore
 northern boreal caribou habitat despite climate uncertainty while
 highlighting expected spatial variations that are important considerations
 for local people who rely on them. An ability to reproduce previous work,
 and critical thought when incorporating sources of uncertainty, will be
 important to refine forecasts, derive management decisions, and improve
 conservation efficacy for northern species at risk.
description: Please see the README document ("README.md") and the
 accompanying published article: Stewart, Micheletti et al. 2023.
 Climatepinformed forecasts reveal dramatic local habitat shifts and
 population uncertainty for nothern boreal caribou. Ecological
 Applications.
DOI: 10.5061/dryad.w9ghx3fqn
title: Data from: The phylogeographic history of Megistostegium (Malvaceae) in the dry, spiny thickets of southwestern Madagascar using RAD-seq data and ecological niche modeling.

description: The spiny thicket of southwestern Madagascar represents an extreme and
 ancient landscape with extraordinary levels of biodiversity and endemism.
 Few hypotheses exist for explaining speciation in the region and few plant
 studies have explored hypotheses for species diversification. Here we
 investigate three species in the endemic genus Megistostegium (Malvaceae)
 to evaluate phylogeographic structure and explore the roles of climate,
 soil and paleoclimate oscillations on population divergence and speciation
 throughout the region. We combine phylogenetic and phylogeographic
 inference of RADseq data with ecological niche modeling across space and
 time. Population structure is concurrent with major rivers in the region
 and we identify a new, potentially important biogeographic break
 coincident with several landscape features. Our data further suggests that
 niches occupied by species and populations differ substantially across
 their distribution. Paleodistribution modelling provide evidence that past
 climatic change could be responsible for the current distribution,
 population structure and maintenance of species in Megistostegium.
description: <strong>RAD-sequencing derived SNP variants called in 40
 samples of </strong><em><strong>Megistostegium
 microphyllum</strong> </em>
 MM30.snps.hdf5.zip
 <strong>RAD-sequencing derived SNP variants called in 33
 samples of <em>Megistostegium
 nodulosum</em></strong>
 MN30.snps.hdf5.zip
DOI: 10.15468/dl.bk88y4
title: Occurrence Download

description: A dataset containing 759 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Gangara thyrsis"
 ]
}

 The dataset includes 759 records from 15 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002951-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.q83bk3jjm
title: A supergene underlies linked variation in color and morphology in a Holarctic songbird

description: The genetic architecture of a phenotype can have considerable effects on
 the evolution of a trait or species. Characterizing genetic architecture
 provides insight into the complexity of a given phenotype and,
 potentially, the role of the phenotype in evolutionary processes like
 speciation. We use genome sequences to investigate the genetic basis of
 phenotypic variation in redpoll finches (Acanthis spp.). We demonstrate
 that variation in redpoll phenotype is broadly controlled by a ~55-Mb
 chromosomal inversion. Within this inversion, we find multiple candidate
 genes related to melanogenesis, carotenoid coloration, and bill shape,
 suggesting the inversion acts as a supergene controlling multiple linked
 traits. A latitudinal gradient in ecotype distribution suggests supergene
 driven variation in color and bill morphology are likely under
 environmental selection, maintaining supergene haplotypes as a balanced
 polymorphism. Our results provide a mechanism for the maintenance of
 ecotype variation in redpolls despite a genome largely homogenized by gene
 flow.
description: Whole genome sequence data was sequenced from extracted DNA on
 two lanes of an S4 flow cell on an Illumina NovaSeq. Raw reads were
 trimmed using Timmomatic PE and aligned to a brown-capped rosy-finch
 (<em>Leucosticte australis</em>) reference genome using BWA
 mem with default settings. Variants were called using bcftools
 "mpileup" and filtered to keep only single nucleotide
 polymorphisms with a quality score greater than 80. Potentially paralogous
 loci were removed by filtering SNPs with a depth lower than 2x and higher
 than 12x. SNPs with a minor allele frequency less than 5% were removed and
 two data sets were generated based on allowed missing data, with a 100p
 dataset that did not allow for any missing data, and a 75p dataset that
 allowed for up to 25% missing data. Data are presented in Variant Call
 Format. One individual was dropped from the original sequencing effort due
 to sibling status with another individual.
DOI: 10.5061/dryad.c866t1g7p
title: Data from: Spring and autumn phenology in an understorey herb are uncorrelated and driven by different factors

description: Premise: Climate warming has altered the start and end of growing seasons
 in temperate regions. Ultimately, these changes occur at the individual
 level, but little is known about how previous seasonal life history
 events, temperature, and plant resource state simultaneously influence the
 spring and autumn phenology of plant individuals. Methods: We studied the
 relationships between the timing of leaf-out and shoot senescence over
 three years in a natural population of the long-lived understory herb
 Lathyrus vernus and investigated the effects of spring temperature, plant
 size, reproductive status and grazing on spring and autumn phenology. Key
 results: The timing of leaf-out and senescence were consistent within
 individuals among years. Leaf-out and senescence were not correlated with
 each other within years. Larger plants both leafed out and senesced later,
 and there was no effect of size on growing season length. Reproductive
 plants leafed out earlier and had longer growing seasons than
 non-reproductive plants. Grazing had no detectable effects on phenology.
 Colder spring temperatures delayed senescence in two of three study years.
 Conclusion: The timing of seasonal events, such as leaf-out and senescence
 in plants can be expressed largely independently within and among seasons
 and are influenced by different factors. Growing season start and length
 can often be condition-dependent and dependent on plant reproductive
 status. To more accurately predict species and community responses to
 environmental variation, knowledge about the drivers of growing season
 length of individuals is essential.
description: This dataset contains the variables used for analyses in the
 article "Spring and autumn phenology in an understorey herb are
 uncorrelated and driven by different factors". It contains data on
 plant phenology and size estimated from data collected in the field in
 southern Sweden in the years 2013-2015. It also contains information on
 plant reproductive status and incidence of grazing based on field
 observations.
DOI: 10.5061/dryad.v15dv41wt
title: Data from: Testing potential mechanisms of conspecific sperm precedence in Drosophila pseudoobscura

description: Drosophila pseudoobscura females that co-occur with sister species D.
 persimilis show elevated fertilization by conspecific sperm when they mate
 with both a heterospecific and a conspecific male. This phenomenon, known
 as conspecific sperm precedence (CSP), has evolved as a mechanism to avoid
 maladaptive hybridization with D. persimilis. In this study, we assessed
 pericopulatory (during mating) and postcopulatory (after mating) traits in
 crosses with sympatric or allopatric D. pseudoobscura females and
 conspecific or heterospecific males to evaluate potential mechanisms of
 CSP in this system. We observed shorter copulation duration in crosses
 with sympatric females, but found no difference in quantity of sperm
 transferred or female reproductive tract toxicity between sympatry and
 allopatry. Our data show some support for the hypothesis that parasperm, a
 short, sterile sperm morph, can protect fertile eusperm from the D.
 pseudoobscura female reproductive tract, though it is unclear how this
 might affect patterns of sperm use in sympatry vs. allopatry. Overall,
 these results suggest that copulation duration could potentially
 contribute to the elevated CSP observed in sympatry.
description: CSP_mechanisms_data.csv: 2 hour exposure data, 30 minute exposure
 data, and controls testes_2hr.csv: viability of sperm
 from testes, and 2 hour controls (taken from
 CSP_mechanisms_data.csv) aftermating_2hr.csv: viability
 of sperm immediately after mating, and 2 hour controls (taken from
 CSP_mechanisms_data.csv) CSP_mechanisms_analysis.R: R
 script for figures and statistical analysis