Find research datasets worth reusing
Search datasets from major research repositories and use ShareScore to quickly assess how well each record supports discovery, access, and reuse.
154
datasets available to search
ShareScore release 0.9.0
Dataset results
154 results for “sex-biased”
Data to support Whitney JL, Coleman RR, Deakos MH "Genomic evidence indicates small island-resident populations and sex-biased behaviors of Hawaiian Reef Manta Rays"
<p>Datasets supporting the manuscript: Whitney JL, Coleman RR, Deakos MH "Genomic evidence indicates small island-resident populations and sex-biased behaviors of Hawaiian Reef Manta Rays". <em>BMC Ecology and Evolution </em><strong>23</strong>, 31 (2023). https://doi.org/10.1186/s12862-023-02130-0</p> <p>Nuclear data:</p> <p>"Mobula-alfredi_nuclear_reference_RAD_contigs.fasta" is a fasta of 359,751 contigs that serve as the reference for nuclear alignment of genotypes to RAD loci. Contigs begin and end with GATC cut site.</p> <p>Mobula-alfredi_nuclear_all_2048snps_38genotypes.vcf is a VCF file with all 2048 nuclear SNPs in final filtered SNP dataset. 38 genotypes are included from Maui Nui and Hawaii Island. This 2048 SNPs includes both 2038 neutral and 10 outlier SNPs. </p> <p>Mobula-alfredi_nuclear_neutral_2038snps_38genotypes.vcf is a VCF file with 2038 neutral nuclear SNPs genotyped in 38 individuals from Maui Nui and Hawaii Island. </p> <p>Mobula-alfredi_nuclear_outliers_10snps_38genotypes.vcf is a VCF file with 10 outlier SNPs genotyped in 38 individuals from Maui Nui and Hawaii Island. </p> <p>Structure (.str) files are also provided in addition to VCFs. In all files Population prefixes M=Maui Nui and K=Hawaii Island. </p> <p>Mitochondrial data:</p> <p>Mobula-alfredi_mitogenome_34haplotypes_9sites_min4x.vcf is a VCF file with 9 variant sites across the mitogenome haplotyped in 34 individuals from Maui Nui and Hawaii Island. </p> <p>Mobula-alfredi_mitogenome_34haplotypes_allsites_min4x.fasta is a FASTA file with whole mitogenomes aligned to OP562409 [https://www.ncbi.nlm.nih.gov/nuccore/OP562409]. Sites with less than 4x coverage were masked with Ns. </p> <p>Mobula-alfredi_mitogenome_reference_OP562409.fasta is a FASTA file containing the <em>Mobula alfredi</em> reference mitogenome OP562409 [https://www.ncbi.nlm.nih.gov/nuccore/OP562409].</p> <p> </p>
Seasonal but not sex-biased gene expression of the carotenoid ketolase, CYP2J19, in the sexually dichromatic southern red bishop (Euplectes orix)
<p>Intense red colors in birds are often due to ketocarotenoids (KCs). In many land birds, KCs are oxidized from dietary yellow precursors, presumably by the avian carotenoid ketolase CYP2J19, the regulation and constraints of which have important implications for condition-dependence and honest signaling of carotenoid color displays. Here we investigate hepatic CYP2J19 gene expression in the seasonally and sexually dichromatic southern red bishop (Euplectes orix) in relation to season, sex, progression of the prenuptial moult, testis size, body condition, reflectance-based redness (hue), and circulating sex steroids. A coloration function of CYP2J19 is supported by seasonal upregulation prior to and during the carotenoid-depositing stage of the male prenuptial moult. However, upregulation was similar in females (which do not moult prenuptially), and remained high in males after moult, suggesting additional or alternative functions of hepatic CYP2J19 or its products, such as detoxification or antioxidants, respectively. In males, the CYP2J19 upregulation preceded and was unrelated to the rise in plasma testosterone, but was correlated with androstenedione, likely of adrenal origin and compatible with luteinizing hormone-induced and (in females) estrogen-suppressed moult. Finally, contrary to ideas that carotenoid ketolation rate mediates honest signaling, CYP2J19 expression was not related to male body condition or plumage redness.</p>
Data from: Sex-biased cooperation among immature peers: It matters who helps whom
Open the record for dataset details and reuse information.
Cryptic species can be phylogenetically old despite strong sex-biased dispersal
Open the record for dataset details and reuse information.
Seasonal but not sex-biased gene expression of the carotenoid ketolase, CYP2J19, in the sexually dichromatic southern red bishop (Euplectes orix)
Open the record for dataset details and reuse information.
Short-Tandem-Repeat (STR) marker set for Eurasian lynx for article: Genetic analysis indicates spatial-dependent patterns of sex-biased dispersal in Eurasian lynx in Finland
<p>Conservation and management of large carnivores requires knowledge of female and male dispersal. Such information is crucial to evaluate the population's status and thus management actions. This knowledge is challenging to obtain, often incomplete and contradictory at times. The size of the target population and the methods applied can bias the results. Also, population history and biological or environmental influences can affect dispersal on different scales within a study area. We have genotyped Eurasian lynx (180 males and 102 females, collected 2003-2017) continuously distributed in southern Finland (~23,000 km<sup>2</sup>) using 21 short tandem repeats (STR) loci and compared statistical genetic tests to infer local and sex-specific dispersal patterns within and across genetic clusters as well as geographic regions. We tested for sex-specific substructure with individual-based Bayesian assignment tests and spatial autocorrelation analyses. Differences between the sexes in genetic differentiation, relatedness, inbreeding, and diversity were analysed using population-based AMOVA, F-statistics, and assignment indices. Our results showed two different genetic clusters that were spatially structured for females but admixed for males. Similarly, spatial autocorrelation and relatedness was significantly higher in females than males. However, we found weaker sex-specific patterns for the Eurasian lynx when the data were separated in three geographical regions than when divided in the two genetic clusters. Overall, our results suggest male-biased dispersal and female philopatry for the Eurasian lynx in Southern Finland. The female genetic structuring increased from west to east within our study area. In addition, detection of male-biased dispersal was dependent on analytical methods utilized, on whether subtle underlying genetic structuring was considered or not, and the choice of population delineation. Conclusively, we suggest using multiple genetic approaches to study sex-biased dispersal in a continuously distributed species in which population delineation is difficult.</p>
Data from: Does sex-biased dispersal account for the lack of geographic and host-associated differentiation in introduced populations of an aphid parasitoid?
Host recognition and use in female parasitoids strongly relies on host fidelity, a plastic behavior which can significantly restrict the host preferences of parasitoids, thus reducing the gene flow between parasitoid populations attacking different insect hosts. However, the effect of migrant males on the genetic differentiation of populations has been frequently ignored in parasitoids, despite its known impact on gene flow between populations. Hence, we studied the extent of gene flow mediated by female and male parasitoids by assessing sibship relationships among parasitoids within and between populations, and its impact on geographic and host-associated differentiation in the aphid parasitoid Aphidius ervi. We report evidences of a high gene flow among parasitoid populations on different aphid hosts and geographic locations. The high gene flow among parasitoid populations was found to be largely male mediated, suggested by significant differences in the distribution of full-sib and paternal half-sib dyads of parasitoid populations.
Data from: Multi-generation genetic contributions of immigrants reveal cryptic elevated and sex-biased effective gene flow within a natural meta-population
<p>Impacts of immigration on micro-evolution and population dynamics fundamentally depend on net rates and forms of resulting gene flow into recipient populations. Yet, the degrees to which observed rates and sex ratios of physical immigration translate into multi-generational genetic legacies have not been explicitly quantified in natural meta-populations, precluding inference on how movements translate into effective gene flow and eco-evolutionary outcomes. Our analyses of three decades of complete song sparrow (<em>Melospiza melodia</em>) pedigree data show that multi-generational genetic contributions from regular natural immigrants substantially exceeded those from contemporary natives, consistent with heterosis-enhanced introgression. Further, while contributions from female immigrants exceeded those from female natives by up to three-fold, male immigrants' lineages typically went locally extinct soon after arriving. Both the overall magnitude, and the degree of female bias, of effective gene flow therefore greatly exceeded those which would be inferred from observed physical arrivals, reshaping the eco-evolutionary implications of immigration.</p>
Sex-biased gene content associates with sex chromosome turnover in Danaini butterflies
<p>Sex chromosomes play an outsized role in adaptation and speciation, and thus deserve particular attention in evolutionary genomics. In particular, fusions between sex chromosomes and autosomes can produce neo-sex chromosomes, which offer important insights into the evolutionary dynamics of sex chromosomes. Here we investigate the evolutionary origin of the previously reported <em>Danaus</em> neo-sex chromosome within the tribe Danaini. We assembled and annotated genomes of <em>Tirumala septentrionis</em> (subtribe Danaina), <em>Ideopsis similis</em> (Amaurina), <em>Idea leuconoe</em> (Euploeina), and <em>Lycorea halia</em> (Itunina) and identified their Z-linked scaffolds. We found that the <em>Danaus </em>neo-sex chromosome resulting from the fusion between a Z chromosome and an autosome corresponding to the <em>Melitaea cinxia</em> chromosome (McChr) 21 arose in a common ancestor of Danaina, Amaurina, and Euploina. We also identified two additional fusions as the W chromosome further fused with the synteny block McChr31 in <em>I. similis</em> and independent fusion occurred between the ancestral Z chromosome and McChr12 in <em>L. halia</em>. We further tested a possible role of sexually antagonistic selection in sex chromosome turnover by analyzing the genomic distribution of sex-biased genes in <em>I. leuconoe</em> and <em>L. halia</em>. The autosomes corresponding to McChr21 and McChr31 involved in the fusions are significantly enriched in female- and male-biased genes, respectively, which could have hypothetically facilitated fixation of the neo-sex chromosomes. This suggests a role of sexual antagonism in sex chromosome turnover in Lepidoptera. The neo-Z chromosomes of both <em>I. leuconoe</em> and <em>L. halia</em> appear fully compensated in somatic tissues, but the extent of dosage compensation for the ancestral Z is variable across tissues and species.</p>
High rates of evolution preceded shifts to sex-biased gene expression in Leucadendron, the most sexually dimorphic angiosperms
<p>Differences between males and females are usually more subtle in dioecious plants than animals, but strong sexual dimorphism has evolved convergently in the South African Cape plant genus <i>Leucadendron</i>. Such sexual dimorphism in leaf size is expected largely to be due to differential gene expression between the sexes. We compared patterns of gene expression in leaves among ten <i>Leucadendron </i>species across the genus. Surprisingly, we found no positive association between sexual dimorphism in morphology and the number or the percentage of sex-biased genes. Sex bias in most sex-biased genes evolved recently and was species-specific. We compared rates of evolutionary change in expression for genes that were sex-biased in one species but unbiased in others and found that sex-biased genes evolved faster in expression than un-biased genes. This greater rate of expression evolution of sex-biased genes, also documented in animals, might suggest the possible role of sexual selection in the evolution of gene expression. However, our comparative analysis clearly indicates that the more rapid rate of expression evolution of sex-biased genes predated the origin of bias, and shifts towards bias were depleted in signatures of adaptation. Our results are thus more consistent with the view that sex bias is simply freer to evolve in genes less subject to constraints in expression level.</p>
Sex-biased admixture and assortative mating shape genetic variation and influence demographic inference in admixed Cabo Verdeans
<p>Inferred ROH and IBD calls from Korunes et al (2022). bioRxiv DOI: https://doi.org/10.1101/2020.12.14.422766</p> <p>Samples originally collected and analyzed in Beleza et al. 2013, PLoS Genetics. Inferred local ancestry information can be found at <a href="https://doi.org/10.5281/zenodo.4021277">https://doi.org/10.5281/zenodo.4021277</a></p> <p>See README.txt in upload for more detailed information.</p>
Data from: Sex-biased habitat selection by American marten in the Acadian forest
<p>Differences in spatial ecology between the sexes are generally expected for mammalian carnivores because of physiological (e.g., sexual dimorphism) or behavioral (e.g., uniparental care of offspring) differences, but sex is rarely included in studies of occurrence or occupancy. We evaluated differences in landscape-scale occurrence, as a function of habitat amount and configuration, between male and female American martens in the heterogeneous, commercially-managed forests of northern Maine. Our analysis focused on resident adults; individuals that had survived to >1 year old, dispersed, and successfully established their home range.</p>
Data for: Sex-biased infections scale to population impacts for an emerging wildlife disease
<p>Demographic factors are fundamental in shaping infectious disease dynamics. Aspects of populations that create structure, like age and sex, can affect patterns of transmission, infection intensity and population outcomes. However, studies rarely link these processes from individual to population-scale effects. Moreover, the mechanisms underlying demographic differences in disease are frequently unclear. Here, we explore sex-biased infections for a multi-host fungal disease of bats, white-nose syndrome, and link disease-associated mortality between sexes, the distortion of sex ratios, and the potential mechanisms underlying sex differences in infection. We collected data on host traits, infection intensity, and survival of five bat species at 42 sites across seven years. We found females were more infected than males for all five species. Females also had lower apparent survival over winter and accounted for a smaller proportion of populations over time. Notably, female-biased infections were evident by early hibernation and likely driven by sex-based differences in autumn mating behavior. Male bats were more active during autumn which likely reduced replication of the cool-growing fungus. Higher disease impacts in female bats may have cascading effects on bat populations beyond the hibernation season by limiting recruitment and increasing the risk of Allee effects.</p>
Data for: Sex-biased infections scale to population impacts for an emerging wildlife disease
Open the record for dataset details and reuse information.
Data from: Does sex-biased dispersal account for the lack of geographic and host-associated differentiation in introduced populations of an aphid parasitoid?
Open the record for dataset details and reuse information.
Data from: Ecological and behavioral determinants of sex-biased predation of katydid prey by a bat predator
Open the record for dataset details and reuse information.
Young children exhibit sex-biased strategies to obtain resources
Open the record for dataset details and reuse information.
Sex-biased gene content associates with sex chromosome turnover in Danaini butterflies
Open the record for dataset details and reuse information.
High rates of evolution preceded shifts to sex-biased gene expression in Leucadendron, the most sexually dimorphic angiosperms
Open the record for dataset details and reuse information.
Data from: Multi-generation genetic contributions of immigrants reveal cryptic elevated and sex-biased effective gene flow within a natural meta-population
Open the record for dataset details and reuse information.
ScienceDex guides
Understand access before you commit
These curated guides explain access requirements, typical timelines, costs, and reuse considerations for widely used research datasets.
Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.