cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.m63xsj44c
title: Community science reveals links between migration arrival timing advance, migration distance, and wing shape

description: Substantial global data show that many taxa are shifting their phenologies
 in response to climate change. For birds, migration arrival dates in
 breeding regions have been shifting earlier, and there is evidence that
 both evolutionary adaptation and behavioural flexibility influence these
 shifts. As more efficient flyers may be able to demonstrate more
 flexibility to respond to changing conditions during migratory flight, we
 hypothesize that differences among passerine species in flight efficiency,
 as reflected by morphology, may be associated with the magnitude of shifts
 in arrival date in response to climate warming. We applied a logistic
 model to eighteen years of eBird data to estimate mean arrival date for 44
 common passerines migrating to northeast North America. We then used
 linear mixed-effects models to estimate changes in mean arrival date and
 compared these changes to morphological proxies for flight efficiency and
 migratory distance using phylogenetic generalized least squares models. On
 average, passerine species shifted their arrival dates 0.120 days earlier
 each year, with 27 of the 44 species shifting to significantly earlier
 arrival times, and two shifting to significantly later ones. Of the 15
 species with non-significant shifts, 13 trended toward earlier arrivals.
 Longer migration distances and higher wing aspect ratios were associated
 with greater shifts towards earlier arrivals. Migration distance and
 aspect ratio were also significantly correlated to each other. This
 suggests that changes in arrival date are affected by factors pertaining
 to migratory flight over long distances namely, flight efficiency and
 migration distance. These traits may be able predict the magnitude of
 arrival date shift, and by extension identify species that are most at
 risk to climate change due to inflexible arrival timing.
DOI: 10.5061/dryad.zs7h44jc9
title: New xyleborine (Coleoptera: Curculionidae: Scolytinae) genus with an Afrotropical-Neotropical distribution

description: Plant-associated arthropods have been shown to cross large oceanic
 distances on floating plant material and to establish themselves on
 distant landmasses. Xyleborini (Coleoptera: Curculionidae: Scolytinae)
 ambrosia beetles occur in forests worldwide and are likely capable of
  long range dispersal. In less than 20 million years, this group
 dispersed from Asia to tropical regions of Africa and South America. The
 phylogeny, taxonomy, and biogeography of one Xyleborus species group which
 occurs on both continents are reviewed for this study. Based on a
 well-resolved molecular phylogeny resulting from parsimony, likelihood,
 and Bayesian analyses of four gene loci, we describe a new monophyletic
 genus, Xenoxylebora Osborn, Smith & Cognato, gen. nov., for this
 bicontinental Xyleborus species group with seven Afrotropical and six
 Neotropical species. Six new species are described: Xenoxylebora pilosa
 Osborn, Smith & Cognato, sp. nov. from Africa, and Xenoxylebora
 addenda Osborn, Smith & Cognato, sp. nov., Xenoxylebora calculosa
 Osborn, Smith & Cognato, sp. nov., Xenoxylebora hystricosa Osborn,
 Smith & Cognato, sp. nov., Xenoxylebora serrata Osborn, Smith
 & Cognato, sp. nov., and Xenoxylebora sulcata Osborn, Smith
 & Cognato, sp. nov., from South America. Seven new combinations
 from Xyleborus are proposed: Xenoxylebora caudata (Schedl, 1957) comb.
 nov., Xenoxylebora collarti (Eggers, 1932) comb. nov., Xenoxylebora
 perdiligens (Schedl, 1937) comb. nov., Xenoxylebora sphenos (Sampson,
 1912) comb. nov., Xenoxylebora subcrenulata (Eggers, 1932) comb. nov., and
 Xenoxylebora syzygii (Nunberg, 1959) comb. nov. from Africa, and
 Xenoxylebora neosphenos (Schedl, 1976) comb. nov. from South America. One
 new synonym is proposed: Xenoxylebora sphenos (Sampson, 1912) =Xyleborus
 tenellus Schedl, 1957 syn. nov. Descriptions, diagnoses, images, and a key
 to the identification of all 13 species are provided. The sequence of
 colonization between Africa and South America is uncertain for
 Xenoxylebora. Prevailing ocean currents and predominant locality patterns
 observed for other organisms suggests an African Xenoxylebora
 origin.  However, the phylogeny, biogeographical analyses, and a
 calibrated divergence time suggests a possible South American origin for
 African Xenoxylebora (2.3 Ma, 95% HDP 4.5 – 0.6 Ma) which is supported by
 the occurrence of ocean counter currents between the continents and
 evidence of dispersal from South America to Africa among some plant and
 arthropod taxa.   
description: See associated published study for
 details.
DOI: 10.5061/dryad.pc866t1rf
title: Pea aphid winged and wingless males exhibit reproductive, gene expression, and lipid metabolism differences

description: Alternative, intraspecific phenotypes offer an opportunity to identify the
 mechanistic basis of differences associated with distinctive life-history
 strategies. Wing dimorphic insects, in which both flight-capable and
 flight-incapable individuals occur in the same population, are
 particularly well-studied in terms of why and how the morphs trade-off
 flight for reproduction. Yet despite a wealth of studies examining the
 differences between female morphs, little is known about male differences,
 which could arise from different causes than those acting on females. Here
 we examined reproductive, gene expression, and biochemical differences
 between pea aphid (Acyrthosiphon pisum) winged and wingless males. We find
 that winged males are competitively superior in one-on-one mating
 circumstances, but wingless males reach reproductive maturity faster and
 have larger testes. We suggest that males tradeoff increased local matings
 with concurrent possible inbreeding for outbreeding and increased ability
 to find mates. At the mechanistic level, differential gene expression
 between the morphs revealed a possible role for activin and insulin
 signaling in morph differences; it also highlighted genes not previously
 identified as being functionally important in wing polymorphism, such as
 genes likely involved in sperm production. Further, we find that winged
 males have higher lipid levels, consistent with their use as flight fuel,
 but we find no consistent patterns of different levels of activity among
 five enzymes associated with lipid biosynthesis. Overall, our analyses
 provide evidence that winged versus wingless males exhibit differences at
 the reproductive, biochemical, and gene expression levels, expanding the
 field’s understanding of the functional aspects of morph differences.
description: There are three sections of these data relating to each figure of
 the manuscript. The first section (figure 1) includes developmental
 timing, testes area, and mating success data. The second section (figure
 2) comes from a 2014 RNAseq experiment and all the sequence data is on
 NCBI (list of SRA accessions included here), and the pipeline and DEseq
 data are present. Lastly, the final section (figure 3) includes lipid and
 enzyme assays.
DOI: 10.5061/dryad.zkh1893cd
title: Genotyping-by-sequencing of Canada’s Apple Biodiversity Collection

description: Canada’s Apple Biodiversity Collection (ABC) is one of the most diverse
 collections of apples in the world, which was designed to enable genetic
 mapping. The ABC is located at the Agriculture and Agri-Food Canada (AAFC)
 Kentville Research and Development Centre in Nova Scotia, Canada. In
 addition to phenotypic descriptions of the ABC, sequencing the accessions
 in the collection provides a valuable resource not only for researchers
 working on the collection, but for those studying apples more broadly.
 With this in mind, we report and make publicly available
 genotyping-by-sequencing (GBS) data for over 1,000 apple accessions from
 the ABC. By using three SNP callers and imputation, we were able to
 genotype 278,231 SNPs from 1,175 diverse apple accessions from the ABC.
description: Full details are available in Migicovsky et al.
 (Submitted). Briefly, young leaf tissue was collected
 from all accessions in the ABC and DNA was extracted using commercial
 kits. DNA was sequenced using GBS (Elshire et
 al., 2011) with ApeKI and PstI-EcoT22I restriction enzymes. GBS
 libraries were sequenced using Illumina Hi-Seq 2000 technology. Single
 nucleotide polymorphisms (SNPs) were called using three different SNP
 calling pipelines: GATK (v3.7) (McKenna et
 al., 2010), SAMtools (v1.3) (Li et al.,
 2009), and TASSEL (V5.2.32) (Bradbury
 et al., 2007), using reference genome GDDH13 Version 1.1 (Daccord et
 al., 2017). SNPs were imputed for each caller separately using LinkImputeR (Money et al., 2017) at a maximum position/sample missingness of 70% and a minimum depth of four reads, resulting in imputation accuracies/correlation values of 0.9558/0.8761 (GATK), 0.9526/0.8696 (SAMtools), and 0.9556/0.8347 (TASSEL). Following imputation, SNP counts for each caller were 165,418 (GATK), 195,667 (SAMtools), and 226,821 (TASSEL). SNPs were pooled by merging the three VCF files and when SNPs overlapped across callers, one SNP was randomly chosen resulting in a final SNP set with 22.64% of SNPs from GATK, 30.23% from SAMtools, and 47.14% from TASSEL. The resulting SNP set consisted of 278,224 SNPs across 1,175 unique accessions.
DOI: 10.5061/dryad.pk0p2ngqq
title: Predicting harvest impact and establishment success when translocating highly mobile and endangered species

description: Harvesting individuals for translocations can negatively impact source
 populations, a critical challenge for species reduced to small
 populations. Consequently, translocation cohorts often remain small,
 reducing the establishment probability at the destination. Balancing the
 potential benefits and risks of such translocations is further complicated
 by philopatry and natural metapopulation dynamics if the target species is
 highly mobile. These challenges highlight the importance of translocation
 feasibility assessments, but such assessments often remain qualitative to
 date. The critically endangered Kuaka (Whenua Hou Diving Petrel;
 Pelecanoides whenuahouensis) is a philopatric, highly mobile seabird that
 could benefit from conservation translocations, but only one small
 population remains. Through expert elicitations with a user-friendly Shiny
 app, we developed a novel metapopulation extension to an integrated
 population model fitted to long-term data, allowing us to simultaneously
 project harvest impact on the source and establishment of destination
 populations under alternative translocation scenarios, while accounting
 for philopatry and metapopulation dynamics. Establishment of a destination
 population without excessive impact on the source was possible, but
 subject to uncertainty about philopatry and metapopulation dynamics.
 Accounting for juveniles returning to the source post-translocations
 reduced impact on the source, but also decreased establishment at the
 destination. Natural movements of adults and juveniles between source and
 destination populations were predicted to modulate effects of different
 harvest intensities. Synthesis and application: Using state-of-the art
 integrated population models and expert elicitations, we illustrate how
 translocation feasibility can be evaluated transparently and
 quantitatively, even when targeting endangered, philopatric, and highly
 mobile species. Our approach is a considerable improvement on current
 qualitative feasibility assessments. However, we also illustrate that,
 ultimately, the favoured translocation strategy depends on balancing
 biological and other fundamental objectives inherent to translocations.
 Therefore, the ideal strategy cannot be determined solely mathematically,
 and feasibility assessments should incorporate explicit value statements.
 Our methodology is applicable to any future translocation scenario.
description: This dataset contains the OpenBUGS code for the integrated
 population model (IPM), the necessary initial values to start IPM, and a
 data summary. The full data (particularly, the capture histories) can be
 accessed through https://birdbanding.doc.govt.nz/
DOI: 10.5061/dryad.k98sf7m81
title: Data from: Why does the complexity of functionally equivalent signals vary across closely related species?

description: Animal signals are observed to vary widely in complexity among species,
 but why this should be the case—especially among closely related taxa—is
 unclear. Identifying the selective forces that drive these differences is
 important for understanding signal evolution, as well as the origins of
 communication more generally. We used a measure derived from information
 theory to quantify the complexity of visual territorial advertisement
 displays performed by males of closely related taxa of Puerto
 Rican Anolis lizard. In general, the information
 potential of visual displays appeared to be high compared to signals of
 other taxonomic groups (e.g., other lizards, birds). Nevertheless, there
 was still considerable variation in signal complexity among
 the Anolis taxa studied. We found a strong relationship
 between signal complexity and phylogeny for some aspects of the
 advertisement display traditionally thought to be important in species
 recognition. Other aspects of the display tended to vary independently of
 phylogeny, with differences in signal complexity among taxa reflecting the
 distance over which displays were typically viewed by territorial
 neighbours, and to some extent the number of sympatric congeners present
 in the environment. More generally, we highlight a little used, but
 tractable means of quantifying complexity in different species—and in
 different aspects of the same signal (the number, timing and type of
 components)—that can reveal the evolutionary processes generating
 increases (or decreases) in communicative complexity.
description: Details are provided in full in the published paper associated
 with this data set
description: Please see the associated read me file for this data set for full
 description of data provided
DOI: 10.6076/d12g6n
title: Blainville’s beaked whale (Mesoplodon densirostris) echolocation clicks from autonomous passive acoustic recordings

description: Understanding the distribution of cetacean species and their populations
 over space and time is relevant to conservation, management, and
 mitigation goals. Geographic differences in acoustic signals may provide a
 line of evidence for population-level discrimination in some cetacean
 species. This data set of acoustic recordings collected over broad spatial
 and temporal scales was used to investigate whether global variability in
 echolocation click peak frequency could elucidate population structure in
 Blainville’s beaked whale (Mesoplodon densirostris). It consists
 of ~4.1M event detections from over 70 instrument deployments at 23 sites.
description: Passive acoustic data was collected with High-frequency Acoustic
 Recordig Packages (HARPs, Scripps Institution of Oceanography, University
 of California, San Diego, La Jolla, CA, USA), sampling at 200 kHz, 16 bit.
 They were analyzed to extract Blainville's beaked whale echolocation
 clicks. Files are named according to the acoustic
 dataset from which they were derived with the following file name
 structure:<em>&lt;Project&gt;_&lt;Site&gt;_&lt;DeploymentNumber&gt;_&lt;SpeciesAbbreviation&gt;.mat</em> These files contain impulsive event detections from 70 deployments of HARPs. Only detections with signal-to-noise levels &gt;10 dB were retained. Each file includes false detections which are subsequently cleaned out through clustering as described in the associated manuscript. Variables in all files include MTT, MPP, MSN, MSP; each row represents 1 event:<br>- MTT: Start time of event as ISO-8601 date (format YYYY-MM-DDThh:mm:ss.sssZ; e.g., 2013-06-16T13:05:55.577Z).<br>- MPP: Peak to peak amplitude of event in dB re 1µPa.<br>- MSN: Event waveforms, sampled at 200 kHz, padded with zeros as needed to reach 202 samples, with maximum energy located around the 100th sample.<br>- MSP: Spectra of each event, in 1 kHz frequency bins.<br>- f: Frequency vector in kHz associated with the spectra in MSP.
description: Data files are saved as –v7.3 in Matlab 2021a. This file type can
 be opened via NetCDF routines.  Matlab-based software
 used with the dataset and associated manuscript can be found at: https://github.com/MarineBioAcousticsRC/Triton, including plugins: Click Detector:<br>https://github.com/MarineBioAcousticsRC/Triton/tree/master/Remoras/Detector Cluster Tool:<br>https://github.com/MarineBioAcousticsRC/Triton/tree/master/Remoras/ClusterTool DetEdit:<br>https://github.com/MarineBioAcousticsRC/DetEdit
DOI: 10.5061/dryad.bnzs7h4d3
title: Data from: Iridescence untwined - Honey bees can separate hue variations in space and time

description: Iridescence is a phenomenon whereby the hue of a surface changes with
 viewing or illumination angle. Many animals display iridescence but it
 currently remains unclear whether relevant observers process iridescent
 color signals as a complex collection of colors (spatial variation), or as
 moving patterns of colors and shapes (temporal variation). This is
 important as animals may use only the spatial or temporal component of the
 signal, although this possibility has rarely been considered or tested.
 Here, we investigated whether honey bees could separate the temporal and
 spatial components of iridescence by training them to discriminate between
 iridescent disks and photographic images of the iridescent patterns
 presented by the disks. Both stimuli therefore contained spatial color
 variation, but the photographic stimuli do not change in hue with varying
 angle (no temporal variation). We found that individual bee observers
 could discriminate the variable patterns of iridescent disks from static
 photographs during unrewarded tests. Control experiments showed that bees
 reliably discriminated iridescent disks from control silver disks, showing
 that bees were processing chromatic cues. These results suggest that honey
 bees could selectively choose to attend to the temporal component of
 iridescence signals to make accurate decisions.
description: Refer to the readme file within the Data
 folder to access general information about the included data
 files. <br><br>Raw data and code is also available on Github thor visit the HTML interactive version of the code. The HTML link may take a couple of minutes to load. If there is any other issue, please contact the authors directly.
DOI: 10.15468/dl.jpfh7d
title: Occurrence Download

description: A dataset containing 6835 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Calligonum"
 ]
}

 The dataset includes 6835 records from 152 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003117-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.p5hqbzkrh
title: Density dependence of clutch size and offspring sex ratio in starling colonies

description: Optimal life-history theory predicts that individuals should adjust both
 the number and the sex of their offspring to maximize fitness in response
 to environmental and social factors such as breeding density. While
 reductions in optimal clutch size are well-studied in birds, the evidence
 for sex ratio adjustments is still equivocal and, so far, we lack a
 thorough understanding of how these strategies interact to maximize
 fitness. Here, we investigate how breeding density simultaneously affects
 brood sex ratio and clutch size in a sexually dimorphic and polygynous
 bird. We tested the prediction that mothers breeding at a higher density
 lay smaller clutches and overproduce daughters, the sex with less variable
 fitness returns and that disperses further away from their natal
 territory. We distributed nest boxes at either a high (HD) or a low
 density (LD) and monitored clutch sizes and sex ratios during five years
 in a wild breeding colony of spotless starlings. While mothers breeding in
 HD nests produced more daughters than those breeding in LD nests, the
 density dependence of clutch size varied among years, with a tendency to
 lay smaller clutches in HD nests. Our results suggest that mothers
 consistently adjust offspring sex ratio in response to breeding density,
 whereas adjustments in clutch size varied in a more complex way. These
 results support the role of sex allocation strategies in response to
 density and show that further theoretical and empirical research is
 required to understand the interaction between clutch size and sex ratio
 adjustments in animals.
DOI: 10.5061/dryad.q2bvq83n7
title: Data from: UV radiation doubles microbial degradation of standing litter in a subtropical forest

description: UV radiation has been recognized as a direct driver of litter
 decomposition by photodegrading organic matter in dryland ecosystems.
 However, the importance and mechanism of UV radiation on litter
 decomposition, especially on standing litter, in humid forest ecosystems
 remain unclear. We conducted a factorial experiment in a humid subtropical
 forest gap, manipulating the effects of UV radiation on the decomposition
 of standing litter under different microbial conditions. After 366 days of
 standing incubation, under normal conditions (UV pass with
 microorganisms), up to 40.63% of the litter mass was lost. However, under
 a UV pass without microorganisms, litter mass loss was only 16.30%. Under
 a UV block, the mass loss of litter with microorganisms was 27.68% and
 that of litter without microorganisms was 15.54%. Without microorganisms,
 UV radiation had no significant effect on the mass loss of litter carbon.
 However, UV radiation increased the DOC concentration of litter. And in
 the presence of microorganisms, UV radiation contributed to an increased
 mass loss of lignin by 16.72% and of cellulose by 14.75%. No negative
 effects of UV radiation on microorganisms were observed. These results
 suggest that UV radiation increased the net mass loss of litter by
 106.67%, and this doubling promotion was achieved through microbial
 degradation. Synthesis. The increase in microbial degradation under UV
 radiation may be linked to the increased degradability of lignin and
 cellulose caused by photodegradation. Our study indicates that direct
 photodegradation by UV radiation could be weak in subtropical forests, but
 UV photofacilitation generates rapid turnover of carbon in this system.