cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.tf556
title: Data from: Connecting genomic patterns of local adaptation and niche suitability in teosintes

description: The central-abundance hypothesis predicts that local adaptation is a
 function of the distance to the center of a species’ geographic range. To
 test this hypothesis, we gathered genomic diversity data from 49
 populations, 646 individuals and 33,464 SNPs of two wild relatives of
 maize, the teosintes Zea mays ssp. parviglumis and Zea. mays. ssp.
 mexicana. We examined the association between the distance to their
 climatic and geographic centroids and the enrichment of SNPs bearing
 signals of adaptation. We identified candidate adaptive SNPs in each
 population by combining neutrality tests and cline analyzes. By applying
 linear regression models, we found that the number of candidate SNPs is
 positively associated with niche suitability, while genetic diversity is
 reduced at the limits of the geographic distribution. Our results suggest
 that overall, populations located at the limit of the species’ niches are
 adapting locally. We argue that local adaptation to this limit could
 initiate ecological speciation processes and facilitate adaptation to
 global change.
description: SNPdata_Aguirre_Liguori_etal_SNPdataThe SNPdata_Aguirre_Liguori_etal.txt file contains the genotypes exported from GenomeStudio. SNPs were genotyped using the Illumina MaizeSNP50 Genotyping BeadChip. Loci are in rows and individuals are in columns. Each column is named as the population and individual separated by “_”. For example “Mochitlan_Mochitlan_9” indicates that the individual comes from the site Mochitlan in the Mochitlan “Municipio” and corresponds to the 9th individual. Sample information (Population, coordinates and the subspecies) is found in the sample_information_Aguirre_Liguori_etal.txt file and in the manuscript. Genotypes downloaded from Pyhäjärvi et al. (2013) can be found in the following link http://datadryad.org/resource/doi:10.5061/dryad.8m648/1SNPdata_Aguirre_Liguori_etal.txtSample information of teosintesThe sample_information_Aguirre_Liguori_etal.txt file contains the geographic coordinates and the subspecies information of each of the populations sampled.sample_information_Aguirre_Liguori_etal.txt
DOI: 10.5061/dryad.7ds14
title: Data from: Month of birth and risk of autism spectrum disorder, a retrospective cohort of male children born in Israel

description: Background: Increased incidence and prevalence of autism spectrum disorder
 (ASD) over the last two decades have prompted considerable
 efforts to investigate its etiological factors. We examined an association
 between month of birth and ASD incidence. Methods: In a retrospective
 cohort of male children born from January 1999 to December 2008 in a large
 health organization in Israel (Maccabi Healthcare Services), ASD was
 followed from birth through December 2015. Results: Of 108,548 boys, 975
 cases of ASD were identified. The highest rates (10.3 and 10.2 per 1000
 male live births) were recorded for children born in May and August, and
 the lowest rates for February (7.6 per 1000 male live births). Among lower
 socioeconomic status households, boys born in August were more likely
 (OR=1.71; 95% confidence interval: 1.06 – 2.74) of being diagnosed with
 ASD than children born in January. Significantly higher rates were not
 observed for other months. Conclusions: In line with several previous
 studies, we found modestly higher likelihood of autism occurrence among
 male children of lower socioeconomic levels born in August.
description: male children born from
 January 1999 to December 2008 in a large health organization in Israel,
 ASD was followed from birth through December 2015.File with data of male
 children born from January 1999 to December 2008 in a large health
 organization in Israel (Maccabi Healthcare Services), ASD was followed
 from birth through December 2015. It includes 108,548 boys, 975 cases of
 ASD were identified. The data variables are Children's Month of
 birth, if the child has autism or not, age of father and mother,
 Socioeconomic rate (1 to 10), Gestational Age when there was birth, Birth
 number of the mother and District CD (geographic area at
 birth).data
 dryad.xlsx
DOI: 10.5061/dryad.jq7p0
title: Data from: Genetic and individual assignment of tetraploid green sturgeon with SNP assay data

description: Polyploid organisms pose substantial obstacles to genetic analysis, as
 molecular assay data are usually difficult to evaluate in a Mendelian
 framework. Green sturgeon (Acipenser medirostris) is a tetraploid species
 and is facing significant conservation challenges, including bycatch in
 ocean fisheries. We present here novel molecular genetic assays and
 analytical methodology for green sturgeon that allow discrimination of
 fish from the two visually indistinguishable distinct population segments
 (DPSs), and also provide individual-specific genetic tags. We show how the
 relative fluorescence intensity data from a standard quantitative PCR
 assay, designed for a biallelic single nucleotide polymorphism, can be
 grouped into “genotype categories” using standard analytical software and
 post-processing manipulation. We then show how these genotype category
 data can be used to discriminate green sturgeon from the southern DPS,
 which is protected under the US Endangered Species Act, and the northern
 DPS, which is not. We also show how these data can be used to reliably
 identify individual green sturgeon, and can therefore be used in
 capture/recapture analyses. Both types of identification are extremely
 accurate even when fewer than half of the assays are successfully called.
 We then apply these new techniques to show that proportions of the two
 green sturgeon DPSs are extremely different in the two major fishery areas
 where they are encountered as bycatch. While these assays and methods do
 not provide data that can be used in pedigree-based analyses, they are an
 important advance in the application of genetic analysis to conservation
 and management of polyploid organisms.
description: sturgeon_fluidigm-for-dryadData and scripts to reproduce all results.
DOI: 10.6084/m9.figshare.31157608.v1
title: Sekiguchi and Kakui 2026 - <b>Supplementary data S1.</b>

description: 18S dataset for 37 rhabdocoel taxa in fasta format, before removing alignment-ambiguous sites and shortening.
DOI: 10.5061/dryad.1j4f2
title: Data from: Relaxation of herbivore-mediated selection drives the evolution of genetic covariances between plant competitive and defense traits

description: Insect herbivores are important mediators of selection on traits that
 impact plant defense against herbivory and competitive ability. Although
 recent experiments demonstrate a central role for herbivory in driving
 rapid evolution of defense and competition-mediating traits, whether and
 how herbivory shapes heritable variation in these traits remains poorly
 understood. Here, we evaluate the structure and evolutionary stability of
 the G matrix for plant metabolites that are involved in defense and
 allelopathy in the tall goldenrod, Solidago altissima. We show that G has
 evolutionarily diverged between experimentally-replicated populations that
 evolved in the presence versus the absence of ambient herbivory, providing
 direct evidence for the evolution of G by natural selection. Specifically,
 evolution in an herbivore-free habitat altered the orientation of G,
 revealing a negative genetic covariation between defense- and
 competition-related metabolites that is typically masked in
 herbivore-exposed populations. Our results may be explained by predictions
 of classical quantitative genetic theory, as well as the theory of
 acquisition-allocation trade-offs. The study provides compelling evidence
 that herbivory drives the evolution of plant genetic architecture.
description: chemical
 dataRaw data for chemical
 compound concentration in leaves and roots. Columns titled
 "total_Lph" etc., show total concentration of each compound
 class. "Lph", etc., are standardised values (a mean of 0 and
 variance of 1) to place them on similar scale for
 analysis.data.csvnoplotc_MCMCBayesian posterior distribution of G matrix.Ped_ctrlPedigree information for control (herbivore) populations.Ped_sprayPedigree information for spray (no-herbivore) populations.microsatelite genotyping dataMicrosatelite data for genotyping plants in the clone library from field selection experiment.microsatelite data.xlsx
DOI: 10.5061/dryad.t5k6f
title: Data from: Tracing the origin of the early wet-season Anopheles coluzzii in the Sahel

description: In arid environments the source of the malaria mosquito populations that
 re-establish soon after first rains remains a puzzle and alternative
 explanations have been proposed. Using genetic data, we evaluated whether
 the early Rainy Season (RS) population of Anopheles coluzzii is descended
 from the preceding late-RS generation at the same locality, consistent
 with dry season (DS) dormancy (aestivation), or from migrants from distant
 locations. Distinct predictions derived from these two hypotheses were
 assessed, based on variation in 738 SNPs in eleven A. coluzzii samples,
 including seven samples spanning two years in a Sahelian village. As
 predicted by the ‘local origin under aestivation hypothesis’, temporal
 samples from the late RS and those collected after the first rain of the
 following RS were clustered together, whilst larger genetic distances were
 found among samples spanning the RS. Likewise, multi-locus genotype
 composition of samples from the end of the RS were similar across samples
 until the following RS, unlike samples that spanned the RS. Consistent
 with reproductive arrest during the DS, no genetic drift was detected
 between samples taken over that period, despite encompassing extreme
 population minima, whereas it was detected between samples spanning the
 RS. Accordingly, the variance in allele frequency increased with time over
 the RS, but not over the DS. However, not all the results agreed with
 aestivation. Large genetic distances separated samples taken a year apart,
 and during the first year, within-sample genetic diversity declined and
 increased back during the late RS, suggesting a bottleneck followed by
 migration. The decline of genetic diversity followed a mass distribution
 of insecticide treated nets was accompanied by a reduced mosquito density
 and a rise in the mutation conferring resistance to pyrethroids,
 indicating a bottleneck due to insecticidal selection. Overall, our
 results support aestivation in A. coluzzii during the DS that is
 accompanied by long distance migration in the late-RS.
description: SNPs of Sahelian
 mosquito populationsThe dataset used in the
 above publication contain genotypes at 738 SNPs loci in a total of 505
 mosquitoes representing 13 samples. The variable PoD denotes locality,
 followed by year (the last two digits of years spanning 2008 to 2011), and
 month, each in 2 letter code (see paper for complete locality names, GPS
 coordinates and descriptions). MosID is the variable containing the
 mosquito unique identifier, followed by the variables listing the mosquito
 sex (Sex) and collection date (CollDate). The locus variable is defined by
 the chromosome arm e.g., '2R' and followed by the unique
 position of this SNP in the conventional genome sequence of Anopheles
 gambiae. The genotype of this mosquito at this locus is provided in the
 variable Geno. Undetermined genotypes are denoted by
 zeros.LehmannSNPdryad.xlsx
DOI: 10.5061/dryad.h4rs2
title: Data from: Electrospinning preparation of oxygen-deficient nano TiO2-x/carbon fibre membrane as a self-standing high performance anode for Li-ion batteries

description: Improving the specific capacity and electronic conductivity of TiO2 can
 boost its practical application as a promising anode material for lithium
 ion batteries. In this work, a three-dimensional networking
 oxygen-deficient nano TiO2-x/carbon fibre membrane was achieved by
 combining the electrospinning process with a hot-press sintering method
 and directly used as a self-standing anode. With the synergistic effects
 of three-dimensional conductive networks, surface oxygen deficiency, high
 specific surface area and high porosity, binder-free and self-standing
 structure, etc., the nano TiO2-x/carbon fibre membrane electrode displays
 a high electrochemical reaction kinetics and a high specific capacity. The
 reversible capacity could be jointly generated from porous carbon,
 full-lithiation of TiO2 and interfacial lithium storage. At a current
 density of 100 mA g−1, the reversible discharge capacity can reach
 464 mA h g−1. Even at 500 mA g−1, the discharge capacity still remains at
 312 mA h g−1. Compared with pure carbon fibre and TiO2 powder, the
 TiO2-x/C fibre membrane electrode also exhibits an excellent cycle
 performance with a discharge capacity of 209 mA h g−1 after 700 cycles at
 the current density of 300 mA g−1, and the coulombic efficiency always
 remains at approximately 100%.
description: The original data for
 figures in the manuscriptThe file includes the
 original data for figures in the manuscriptData.zip
DOI: 10.5061/dryad.77k64
title: Data from: Geographically structured genetic variation in the Medicago lupulina – Ensifer mutualism

description: Gene flow between genetically differentiated populations can maintain
 variation in species interactions, especially when population structure is
 congruent between interacting species. However, large-scale empirical
 comparisons of the population structure of interacting species are rare,
 particularly in positive interspecific interactions (mutualisms). One
 agriculturally and ecologically important mutualism is the partnership
 between legume plants and rhizobia. Through characterizing and comparing
 the population genomic structure of the legume Medicago lupulina and two
 rhizobial species (Ensifer medicae and E. meliloti), we explored the
 spatial scale of population differentiation between interacting partners
 in their introduced range in North America. We found high proportions of
 E. meliloti in southeastern populations and high proportions of E. medicae
 in northwestern populations. Medicago lupulina and the Ensifer genus
 showed similar patterns of spatial genetic structure (isolation by
 distance). However, we detected no evidence of isolation by distance or
 population structure within either species of bacteria. Genome-wide
 nucleotide diversity within each of the two Ensifer species was low,
 suggesting limited introduction of strains, founder events, or severe
 bottlenecks. Our results suggest that there is potential for
 geographically structured coevolution between M. lupulina and the Ensifer
 genus, but not between M. lupulina and either Ensifer species.
description: Emedicae_snpsVCF file containing SNPs for the species Ensifer medicae.Emeliloti_snpsVCF file containing SNPs of the species Ensifer melilotiEnsifer_genus_snpsVCF file containing common SNPs of species Ensifer meliloti and Ensifer medicaeMlupulina_snpsVCF file containing SNPs from the species Medicago lupulinaNucleotide_diversityPython script for calculating nucleotide diversity values from a VCF file
DOI: 10.5061/dryad.1r2b0
title: Data from: Diurnal body temperature patterns in free-ranging populations of two southern African arid-zone nightjars

description: Endotherms allocate large amounts of energy and water to the regulation of
 a precise body temperature (Tb), but can potentially reduce
 thermoregulatory costs by allowing Tb to deviate from normothermic levels.
 Many data on heterothermy at low air temperatures (Ta) exist for
 caprimulgids, whereas data on thermoregulation at high Ta are largely
 absent, despite members of this taxon frequently roosting and nesting in
 sites exposed to high operative temperatures. We investigated
 thermoregulation in free-ranging Rufous-cheeked Nightjars (Caprimulgus
 rufigena) and Freckled Nightjars (Caprimulgus tristigma) in the southern
 African arid zone. Individuals of both species showed labile Tb
 fluctuating around a single modal Tb (Tb-mod). Average Tb-mod was 39.7 °C
 for Rufous-cheeked Nightjars and 39.0 °C for Freckled Nightjars. In both
 species, diurnal Tb increased with increasing Ta. At Ta ≥ 38 °C,
 Rufous-cheeked Nightjar mean Tb increased to 42 °C, equivalent to 2.3 °C
 above Tb-mod. Under similar conditions, Freckled Nightjar Tb was on
 average only 1.1 °C above Tb-mod, with a mean Tb of 40.0 °C. Freckled
 Nightjars are one of the most heterothermic caprimulgids investigated to
 date, but our data suggest that during hot conditions this species
 maintains Tb within a narrow range above Tb-mod, possibly reflecting an
 evolutionary tradeoff between decreased thermal sensitivity to lower Tb
 but increased sensitivity to high Tb. These findings reveal how general
 thermoregulatory patterns at similar Ta can vary even among closely
 related species.
description: O'Connor_et_al_2017_DataTb data from free-ranging rufous-cheeked and freckled nightjars
DOI: 10.5061/dryad.g3j04
title: Data from: Contextualizing macroecological laws: A big data analysis on electrofishing and allometric scalings in Ohio, USA

description: We investigated the influence of different electrofishing methods on
 allometric scaling features of fish assemblages in lotic environments. The
 ultimate aim was to elucidate to which extent the structure of fish
 assemblages is predictable by the three-quarter power law theory. Water
 bodies across the state of Ohio, USA, provided a suitable data set to
 analyze the size–biomass spectra of 2051 fish assemblages. For the first
 time, 41,070 allometric field observations were screened according to
 sampling methods (i.e., longline, tote barge, boat) adopted for sampling
 collection. Allometric patterns varied considerably in relation with the
 sampling method, in turn imposed by the local hydrology and morphology of
 the investigated water courses, as shown by the lowering of scalings from
 boatable to wadeable systems. There are several lines of evidence
 indicating that the chosen type of electrofishing acts as a pitfall for
 size spectra. Using individually weighted body-mass values as independent
 predictor of spectra we show that the specific sampling methodology
 required by the physical characteristics of different lotic habitats
 influence the allometric outcomes, a novel result that makes universality
 of community power laws not as straightforward as supposed until now.
description: Scaling Fish Assemblages
 and Sampling Methods - Better Data, Better RulesFull description of
 aims, research history and metadata in the hereby provided ReadMe PDF file
 (4 pages)Fish sampling shapes allometric
 scaling.txt
DOI: 10.5061/dryad.s8t8p
title: Data from: Evolutionary online behaviour learning and adaptation in real robots

description: Online evolution of behavioural control on real robots is an open-ended
 approach to autonomous learning and adaptation: robots have the potential
 to automatically learn new tasks and to adapt to changes in environmental
 conditions, or to failures in sensors and/or actuators. However, studies
 have so far almost exclusively been carried out in simulation because
 evolution in real hardware has required several days or weeks to produce
 capable robots. In this article, we successfully evolve neural
 network-based controllers in real robotic hardware to solve two
 single-robot tasks and one collective robotics task. Controllers are
 evolved either from random solutions or from solutions pre-evolved in
 simulation. In all cases, capable solutions are found in a timely manner
 (1 h or less). Results show that more accurate simulations may lead to
 higher-performing controllers, and that completing the optimization
 process in real robots is meaningful, even if solutions found in
 simulation differ from solutions in reality. We furthermore demonstrate
 for the first time the adaptive capabilities of online evolution in real
 robotic hardware, including robots able to overcome faults injected in the
 motors of multiple units simultaneously, and to modify their behaviour in
 response to changes in the task requirements. We conclude by assessing the
 contribution of each algorithmic component on the performance of the
 underlying evolutionary algorithm.
description: Source code of the
 experimentsSource code for both the
 simulation-based experiments and the real-robot
 experiments.Video with samples of
 evolved behavioursexperiments.mp4raw_logs.tar
DOI: 10.5061/dryad.7d80n
title: Data from: Social associations between California sea lions influence the use of a novel foraging ground

description: Social relationships define an individual's position in its social
 network, which can influence the acquisition and spread of information and
 behavioural variants through the population. Thus, when nuisance
 behaviours spread through wildlife populations, identifying central
 individuals may provide valuable insights for problem-species management.
 We studied the effects of network position on California sea lion
 (Zalophus californianus) discovery and foraging success at a novel
 foraging ground—the salmonids that aggregate at the Bonneville Dam
 tail-race, 235 km up the Columbia River. We found that an
 individual's centrality in their social network influenced discovery
 of the Bonneville Dam and whether they returned the next year. Foraging
 success once at the dam was independent of network position. Extensive
 lethal and non-lethal removal efforts have been implemented at Bonneville
 Dam and focused on reducing the number of individual sea lions at the dam.
 Since social relationships forged at the opening of the Columbia River
 influence both the discovery and return to the Bonneville Dam, efforts to
 increase salmon recovery may be enhanced by breaking apart social networks
 at the opening of the river.
description: sealiondatafinal1newSNAIndividual foraging information for California Sea lions at Bonnevillenetwork10Association Matrix for Sea lions hauled out in Astoria, Oregon
DOI: 10.5061/dryad.61668
title: Data from: Pre-linguistic infants employ complex communicative loops to engage mothers in social exchanges and repair interaction ruptures

description: Language has long been identified as a powerful communicative tool among
 humans. Yet, pre-linguistic communication, which is common in many
 species, is also used by human infants prior to the acquisition of
 language. The potential communicational value of prelinguistic vocal
 interactions between human infants and mothers has been studied in the
 past decades. With 120 dyads (mothers and 3 or 6-month-old infants), we
 used the classical Still-Face Paradigm (SFP) in which mothers interact
 freely with their infants, then refrain from communication (Still Face,
 SF), and finally resume play. We employed innovative automated techniques
 to measure infant and maternal vocalization and pause, and dyadic
 parameters (infant response to mother, joint silence and overlap) and the
 emotional component of Infant Directed Speech (e-IDS) throughout the
 interaction. We showed that : (1) during the initial free play mothers use
 longer vocalizations and more e-IDS when they interact with older infants
 and (2) infant boys exhibit longer vocalizations and shorter pauses than
 girls. (3) During the SF and reunion phases, infants show marked and
 sustained changes in vocalizations but their mothers do not and (4)
 mother-infant dyadic parameters increase in the reunion phase. Our
 quantitative results show that infants, from the age of 3 months, actively
 participate to restore the interactive loop after communicative ruptures
 long before vocalizations show clear linguistic meaning. Thus, auditory
 signals provide from early in life a channel by which infants co-create
 interactions, enhancing the mother-infant bond.
description: Full Data Extracted-
 STTThis file colligates all
 data and parameters extracted from the analysis of the experimental movies
 after segmentation.