cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.z8w9ghxgp
title: Information theoretic evidence for layer- and frequency-specific changes in cortical information processing under anesthesia

description: Nature relies on highly distributed computation for the processing of
 information in nervous systems across the entire animal kingdom. Such
 distributed computation can be more easily understood if decomposed into
 the three elementary components of information processing, i.e., storage,
 transfer and modification, and rigorous information theoretic measures for
 these components exist. However, the distributed computation is often also
 linked to neural dynamics exhibiting distinct rhythms. Thus, it would be
 beneficial to associate the above components of information processing
 with distinct rhythmic processes where possible. Here we focus on the
 storage of information in neural dynamics and introduce a novel
 spectrally-resolved measure of active information storage (AIS). Drawing
 on intracortical recordings of neural activity in ferrets under anesthesia
 before and after loss of consciousness (LOC), we show that
 anesthesia-related modulation of AIS is highly specific to different
 frequency bands and that these frequency-specific effects differ across
 cortical layers and brain regions. We found that in the high/low gamma
 band, the effects of anesthesia result in AIS modulation only in the
 supergranular layers, while in the alpha/beta band, the strongest decrease
 in AIS can be seen at infragranular layers. Finally, we show that the
 increase of spectral power at multiple frequencies, in particular at alpha
 and delta bands in frontal areas, that is often observed during LOC
 ('anteriorization') also impacts local information processing –
 but in a frequency-specific way: Increases in isoflurane concentration
 induced a decrease in AIS in the alpha frequencies, while they increased
 AIS in the delta frequency range $&lt;2$Hz. Thus, the analysis of
 spectrally-resolved AIS provides valuable additional insights into changes
 in cortical information processing under anaesthesia.
description: Data were recorded by K. Sellers from F. Fröhlich lab. 
description: Local field potential recordings in prefrontal and primary
 visual areas of the ferrets' cortex (at Supragranular, Granular and
 Infragranular layer) in the awake state and after administration of
 isoflurane in concentrations of 0.5%, 0.75% and 1.0 %.
DOI: 10.15468/dl.5ezteq
title: Occurrence Download

description: A dataset containing 162 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Croatia",
 "OccurrenceStatus is Present",
 "TaxonKey is one of (Aquila pomarina, Clanga pomarina)"
 ]
}

 The dataset includes 162 records from 5 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003397-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.xwdbrv1hm
title: Data from a test of female defense in male collared lizards

description: A widely held principle in behavioral ecological research is that
 polygynous social systems evolve either by direct male defense of females
 or male defense of resources, although which of these mechanisms applies
 in particular species is rarely examined experimentally. We tested the
 relative importance of female versus resource defense in polygynous
 territorial male collared lizards (Crotaphytus collaris). Using a novel
 experimental design, we temporarily removed some of the resident females
 from male territories to create a female-free removal  zone,
 whereas resident females were left intact within a non-removal zone. We
 then compared activity of males within each zone during three experimental
 phases: before we removed females, for two days when females were absent,
 and the day following return of females. If males defend females directly,
 we expected them to adjust the location of their patrol and display within
 removal and non-removal zones depending on the presence/absence of
 females, whereas we expected no such change if males defend resources.
 Male activity in the removal zone generally decreased when females were
 removed but then increased when females were replaced, whereas we observed
 the opposite pattern in the non-removal zone. The observed shifts in the
 location of patrol and display in response to the presence/absence of
 females, while resources remained constant, indicate that polygynous male
 collared lizards defend females directly. Our results suggest that male
 collared lizards take advantage of strong female philopatry to relatively
 small areas by focusing their patrol and display activities where
 potential mates reside.
description: Data were recorded during direct field observations of uniquely
 marked individual lizards. Data values were derived by summarizing records
 of observations of subject males during the four experimental
 phases.
description: Microsoft Excel
DOI: 10.5061/dryad.dr7sqvb2m
title: Dataset for: Ace and ace-like genes of invasive redlegged earth mite: Copy number variation, target-site mutations, and their associations with organophosphate insensitivity

description: This repository contains the scripts and data required to replicate the
 analyses in Thia et al.’s, “Evolution of an acetylcholinesterase gene
 complex and its contribution toward organophosphate insensitivity in an
 invasive mite pest”, submitted to Pest Management Science. In this work,
 Thia et al. use a combination of experimental selection and pool-seq
 genomic analyses to understand the genetic mechanisms underpinning
 organophosphate insensitivity in the redlegged earth mite, Halotydeus
 destructor. There is a special emphasis on disentangling the roles of copy
 number variation and target-site mutations in the acetylcholinesterase
 genes, ace, and radiated ace-like genes. There are three major analyses:
 (1) an FST genome scan to identify outlier loci between alive
 (insensitive) and dead (sensitive) mites; (2) an analysis of ace copy
 number variation between alive and dead mites; and (3) an analysis of
 candidate target-site mutations in the ace gene.
description: Pools of <em>H. destructor</em> were sequenced using
 a pool-seq approach. Whole genome libraries were sequences for pools of
 alive and dead mites, mapped to the reference genome, and used to derive
 pooled allele frequency estimates.
 F<sub>ST</sub> genome scans were performed using a
 combination of the <em>OutFlank</em> method (Whitlock
 & Lotterhos 2015 <em>Am. Nat.</em>: modified for
 pool-seq data) and the <em>poolfstat </em>R package (Hivert et
 al. 2018 <em>Genetics</em>). Significant outlier
 F<sub>ST</sub> values were used to identify genomic regions
 that were divergent between alive and dead mites, which may represent
 genomic regions responding to organophosphate selection.
 Copy number variation was estimated as the read depth ratios
 between <em>H. destructor</em> <em>ace </em>genes
 and a set of single copy BUSCO genes. An analysis of copy number variation
 was used to test whether alive mites had greater <em>ace</em>
 copy number than dead mites. Target-site mutation
 analyses were used to assess whether alive mites had higher frequencies of
 candidate alleles known to confer resistance in other
 arthropods. 
description: There are two ZIP files associated with this repository:
 Dryad_Data.zip and Dryad_Scripts.zip. Unzip these files
 and place all the contents in the same directory. An R project file,
 Hdes_OP_insensitivity_2023.Rproj, in the Dryad_Scripts.zip file can be
 used to run all the analyses presented in this research.
 The README.md file provides a summary of this repository, and the
 PROJECT_DETAILS.pdf contains descriptions of the implementation, the data,
 and the scripts.
DOI: 10.5061/dryad.ht76hdrkj
title: Community attachment as a factor in the subjective well-being of older adults in urban and rural areas: A case study in Tokyo, Osaka, and Shikoku region in Japan

description: This study explored the relationship between community
 participation/community attachment and subjective well-being (SWB) among
 Japanese older adults. The study was conducted in Japanese urban (Tokyo
 and Osaka) and rural (Shikoku region) areas. Structural equation modelling
 was performed to assess the potential relationship between community
 participation, community attachment and SWB. Results showed that community
 participation and community attachment were positively associated in both
 areas. However, community attachment had a significant impact on SWB only
 in rural areas with little impact on increasing SWB in urban areas. We
 conclude that the role of community attachment varies according to regions
 with different socioeconomic properties. These findings contribute to the
 design of detailed region-specific initiatives to improve SWB of older
 adults.
DOI: 10.5061/dryad.kkwh70s7r
title: Evidence for personality development: juvenile red knots vary more in diet and exploratory behaviour than adults

description: Evidence is accumulating that foraging behaviour and diet link to
 personality traits, yet little is known about how these associations
 emerge during development. It is expected that behaviour becomes more
 consistent with age, and thus experience. We compared exploratory
 behaviour and diet variances of juvenile and adult red knots shortly after
 migration to intertidal mudflats from tundra breeding grounds. By
 identifying the timing of the switch from tundra to marine isotopic
 signatures, we were also able to ask whether juveniles that arrived
 earlier were more consistent in exploration behaviour. We found that
 juveniles had a more diverse diet than adults, and that juveniles were
 less repeatable in exploration than adults. While juveniles had larger
 within-individual variance, among-individual variance was similar between
 age groups. Juveniles that arrived earlier did not vary more in
 exploratory behaviour compared to those that arrived later, suggesting
 that consistency in exploration was developed over a longer period than
 the four weeks of our study. Our findings suggests that after initial
 exploration of a novel habitat, juveniles likely try-out foraging
 techniques which later develop into consistent behaviours that differ
 among individuals. This study illuminates how personality can develop with
 experience in a free-living animal.
description: Isotope data: Red blood cell and plasma d13C and d15N isotopes
 collected from the blood samples of red knots.
 Exploration speed: Movement tracjectories were collected from the
 recordings of the top camera during experiments in the mobile arena. We
 used the distance between estimated positions to calculate speed. Errors
 in the positioning algorithm were filtered by excluding speeds higher than
 200 cm/s. An individual’s exploration speed was calculated as the average
 speed during each 20 min trial. The dataset includes four repeats of
 exploration speed.
DOI: 10.5061/dryad.7h44j0zz4
title: Interaction between mutation type and gene pleiotropy drives parallel evolution in the laboratory

description: What causes evolution to be repeatable is a fundamental question in
 evolutionary biology.  Pleiotropy, i.e. the effect of an allele
 on multiple traits, is thought to enhance repeatability by constraining
 the number of available beneficial mutations. Additionally, pleiotropy may
 promote repeatability by allowing large fitness benefits of single
 mutations via adaptive combinations of phenotypic effects. Yet, this
 latter evolutionary potential may be reaped solely by specific types of
 mutations able to realize optimal combinations of phenotypic effects while
 avoiding the costs of pleiotropy. Here, we address the interaction of gene
 pleiotropy and mutation type on evolutionary repeatability in a
 meta-analysis of experimental evolution studies with Escherichia coli. We
 hypothesize that single-nucleotide polymorphisms are principally able to
 yield large fitness benefits by targeting highly pleiotropic genes,
 whereas indels and structural variants provide smaller benefits and are
 restricted to genes with lower pleiotropy. By using gene connectivity as
 proxy for pleiotropy, we show that nondisruptive single-nucleotide
 polymorphisms (SNPs) in highly pleiotropic genes yield the largest fitness
 benefits, since they contribute more to parallel evolution, especially in
 large populations, than inactivating SNPs, indels and structural variants.
 Our findings underscore the importance of considering genetic architecture
 together with mutation type for understanding evolutionary repeatability.
DOI: 10.5061/dryad.hx3ffbgj5
title: The presence of territorial damselfish predicts choosy client species richness at cleaning stations

description: Mutualisms are driven by partners deciding to interact with one another to
 gain specific services or rewards. As predicted by biological market
 theory, partners should be selected based on the likelihood, quality,
 reward level, and or services each partner can offer. Third-party species
 that are not directly involved in the interaction, however, may indirectly
 affect the occurrence and or quality of the services provided, thereby
 affecting which partners are selected or avoided. We investigated how
 different clients of the sharknose goby (Elacatinus evelynae) cleaner fish
 were distributed across cleaning stations, and asked what characteristics,
 relating to biological market theory, affected this distribution. Through
 quantifying the visitation and cleaning patterns of client fish that can
 choose which cleaning station(s) to visit, we found that the relative
 species richness of visiting clients at stations was negatively associated
 with the presence of disruptive territorial damselfish at the station. Our
 study highlights, therefore, the need to consider the indirect effects of
 third-party species and their interactions (e.g. agonistic interactions)
 when attempting to understand mutualistic interactions between species.
 Moreover, we highlight how cooperative interactions may be indirectly
 governed by external partners.
DOI: 10.5061/dryad.4tmpg4ff7
title: Genome-scale angiosperm phylogenies based on nuclear, plastome, and mitochondrial datasets

description: Angiosperms dominate the Earth’s ecosystems and provide most of the basic
 necessities for human life. The major angiosperm clades comprise 64
 orders, as recognized by the APG IV classification. However, the
 phylogenetic relationships of angiosperms remain unclear, as phylogenetic
 trees with different topologies have been reconstructed depending on the
 sequence datasets utilized, from targeted genes to transcriptomes. Here,
 we used currently available de novo genome data to
 reconstruct the phylogenies of 366 angiosperm species from 241
 genera belonging to 97 families across 43 of the 64 orders based on
 orthologous genes from the nuclear, plastid, and mitochondrial genomes of
 the same species with compatible datasets. The phylogenetic relationships
 were largely consistent with previously constructed phylogenies based on
 sequence variations in each genome type. However, there were major
 inconsistencies in the phylogenetic relationships of the five
 Mesangiospermae lineages when different genomes were examined. We
 discuss ways to address these inconsistencies, which could ultimately lead
 to the reconstruction of a comprehensive angiosperm tree of life. The
 angiosperm phylogenies presented here provide a basic framework for
 further updates and comparisons. These phylogenies can also be used as
 guides to examine the evolutionary trajectories among the three genome
 types during lineage radiation.
DOI: 10.5061/dryad.63xsj3v62
title: Data from: Female preference for males with lower pattern contrast follows Weber’s law of proportional processing in an ornate jumping spider

description: According to Weber’s law of proportional processing, perceptual
 discrimination between stimuli of different magnitudes is based on their
 proportional differences in magnitude (not absolute differences).
 Proportional processing operates in various sensory modalities and
 behavioural contexts. However, whether female mate preference for colour
 patterns in animals follows Weber’s law of proportional processing remains
 untested.  We addressed this research gap using the jade jumping
 spider, Siler semiglaucus, whose males exhibit remarkable
 sexually selected colour patterns and whose females show preferences for
 males with low abdomen pattern contrast (pattern contrast is defined as
 the spatial feature of the relative abundance of two adjacent colour
 patches). By manipulating the dorsal abdomen colour patterns of S.
 semiglaucus males, we created males with varying abdomen pattern
 contrasts. We then assessed female preference for males that varied in
 both absolute and proportional differences in pattern contrast. We found
 that females preferred males with lower abdomen pattern contrasts and
 discriminated between males based on both absolute and proportional
 differences in pattern contrast. While proportional difference alone was
 not a significant predictor of female mate choice, discrimination based on
 proportional difference, coupled with absolute difference had a greater
 influence on female mate preference than absolute difference
 alone.  Hence, our findings suggest that S. semiglaucus female
 preference for males with lower pattern contrast follows Weber’s law, and
 female discrimination may have the potential to limit the exaggeration of
 sexually selected colour patterns.
DOI: 10.5061/dryad.9ghx3ffmz
title: Exploring links between climatic predictability and the evolution of within- and transgenerational plasticity

description: In variable environments, phenotypic plasticity can increase fitness by
 providing tight environment-phenotype matching. However, adaptive
 plasticity is expected to evolve only when the future selective
 environment can be predicted based on the prevailing conditions. That is,
 the juvenile environment should be predictive of the adult environment
 (within-generation plasticity) or the parental environment should be
 predictive of the offspring environment (transgenerational plasticity).
 Moreover, environmental predictability can also shape transient responses
 such as stress responses in an adaptive direction. Here, we test links
 between environmental predictability and the evolution of adaptive
 plasticity by combining time series analyses and a common garden
 experiment using temperature as a stressor in a temperate butterfly
 (Melitaea cinxia). Time series analyses revealed that across-season
 fluctuations in temperature over 48 years are overall predictable.
 However, within the growing season, temperature fluctuations showed high
 heterogeneity across years with low autocorrelations and the timing of
 temperature peaks was asynchronous. Most life-history traits showed strong
 within-generation plasticity for temperature and traits such as body size
 and growth rate broke the temperature-size rule. Evidence for
 transgenerational plasticity, however, was weak and detected for only two
 traits each in an adaptive and non-adaptive direction. We suggest that the
 low predictability of temperature fluctuations within the growing season
 likely disfavours the evolution of adaptive transgenerational plasticity
 but instead favours strong within-generation plasticity.
description: Two approaches were used for data collection: (1) we used freely
 available time series data for temperature from 1974 to 2020 (https://en.ilmatieteenlaitos.fi/download-observations#!/) for carrying out time series analyses, and (2) we carried out a common garden experiment to quantify the extent of within- and transgenerational in life-history traits using the Glanville Fritillary butterfly (Melitaea cinxia) as the model system. All the raw data is provided here in .csv format and statistical analyses was performed using the R programming language.  
description: All provided datasets are in .csv format and do not need any
 special programs for opening the files.
DOI: 10.15468/dl.p3v458
title: Occurrence Download

description: A dataset containing 453206 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Human Observation",
 "CoordinateUncertaintyInMeters 0.0-120.0",
 "HasCoordinate is True",
 "HasGeospatialIssue is False",
 "OccurrenceStatus is Present",
 "TaxonKey is Plantae",
 "GadmGid is USA.39_1",
 "Year 2015-2025"
 ]
}

 The dataset includes 453206 records from 5 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002803-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.nnywq9
title: Occurrence Download

description: A dataset containing 8 species occurrences available in GBIF matching the query:
{
 "and" : [
 "OccurrenceStatus is Present",
 "TaxonKey is Etmopterus pycnolepis"
 ]
}

 The dataset includes 8 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003400-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.72g388
title: Occurrence Download

description: A dataset containing 1108 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Gleditsia sinensis",
 "HasCoordinate is true",
 "BasisOfRecord is one of (Specimen)"
 ]
}

 The dataset includes 1108 records from 35 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003398-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.ncjsxkszn
title: Feeding on a Bartonella henselae infected host triggers temporary changes in the Ctenocephalides felis microbiome

description: The effect of Bartonella henselae on the microbiome of its vector,
 Ctenocephalides felis (the cat flea) is largely unknown, as a majority of
 C. felis microbiome studies have utilized wild-caught pooled fleas.
 Therefore, we surveyed the microbiome of laboratory-origin C. felis fed on
 B. henselae-infected cats to identify changes to microbiome diversity and
 microbe prevalence compared to unfed fleas, and fleas fed on uninfected
 cats. To evaluate changes over time, fleas were fed on cats for 24 hours
 or 9 days. Utilizing Next Generation Sequencing (NGS) on the Illumina
 platform, we documented an increase in microbial diversity, richness, and
 evenness in C. felis fed on Bartonella-infected cats for 24 hours, changes
 that returned to baseline (unfed fleas or fleas fed on uninfected cats)
 after 9 days on the host. The increased diversity in the C. felis
 microbiome when fed on B. henselae-infected cats may be related to the
 mammalian, flea, or endosymbiont response, factors that remain to be
 explored and potentially exploited for pathogen control. In addition, poor
 B. henselae acquisition was documented in these laboratory-maintained C.
 felis. Potential hypotheses to account for this finding include poor
 acquisition by adult fleas, the influence of flea genetic variation on B.
 henselae acquisition, and lack of co-feeding with B. henselae-infected C.
 felis. This study provides an investigation of the C. felis microbiome
 response to blood feeding and blood-feeding on B. henselae-infected cats;
 however, future studies are necessary to fully characterize the effect of
 endosymbionts and C. felis diversity on B. henselae acquisition.