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.
2,331
datasets available to search
ShareScore release 0.9.0
Dataset results
2,331 results for “Polymorphic”
Data from: Evidence for morph-specific substrate choice in a green-brown polymorphic grasshopper
<p>Orthopteran insects are characterized by high variability in body coloration, in particular featuring a widespread green-brown color polymorphism. The mechanisms that contribute to the maintenance of this apparently balanced polymorphism are not yet understood. To investigate whether morph-dependent microhabitat choice might contribute to the continued coexistence of multiple morphs, we studied substrate choice in the meadow grasshopper <i>Pseudochorthippus parallelus.</i> The meadow grasshopper occurs in multiple discrete, genetically determined color morphs that range from uniform brown to uniform green. We tested whether three common morphs preferentially choose differently colored backgrounds in an experimental arena. We found that a preference for green backgrounds was most pronounced in uniform green morphs. If differential choices improve morph-specific performance in natural habitats via crypsis and/or thermoregulatory benefits, they could help to equalize fitness differences among color morphs and potentially produce frequency-dependent microhabitat competition, though difference appear too small to serve as the only explanation. We also measured the reflectance of the grasshoppers and backgrounds and used visual modelling to quantify the detectability of the different morphs to a range of potential predators. Multiple potential predators, including birds and spiders, are predicted to distinguish between morphs chromatically, while other species, possibly including grasshoppers themselves, will perceive only differences in brightness. Our study provides the first evidence that morph-specific microhabitat choice might be relevant to the maintenance of the green-brown polymorphisms in grasshoppers and shows that visual distinctness of color morphs varies between perceivers.</p>
Supplementary material for: "Assessment of linkage disequilibrium patterns between structural variants and single nucleotide polymorphisms in three commercial chicken populations"
<p>Supplementary material for the publication "Assessment of linkage disequilibrium patterns between structural variants and single nucleotide polymorphisms in three commercial chicken populations"</p> <p>The realated preprint can be found at Research Square (<a href="https://doi.org/10.21203/rs.3.rs-861830/v1">https://doi.org/10.21203/rs.3.rs-861830/v1</a>)</p> <p>Supplementary file 1: Supplementary results, tables and figures.</p> <p>Supplementary file 2: MultiQC report.</p> <p>Supplementary file 3: Observer concordance of the visual filtering step.</p> <p>Supplementary file 4: Snakemake workflow and scripts.</p> <p> </p>
Data for: The interaction between metabolic rate, habitat choice, and resource use in a polymorphic freshwater species
<p>Raw respirometry data and respirometry code</p> <p>Data.xlsx is the data about each fish that was used for all analyses including Stable Isotope values, length, weight, sex, and habitat. This is the data that is used in the R code. </p> <p>Example code of the models used in our analyses</p> <p>TEF_metabolism.xlsx is data on the fish that were kept in the lab for almost a year. </p> <p> </p>
Data accompanying Polyphenisms and polymorphisms: genetic variation in plasticity and color variation within and among bluefin killifish populations
<p>The presence of stable color polymorphisms within populations begs the question of how genetic variation is maintained. Consistent variation among populations in coloration, especially when correlated with environmental variation, raises questions about whether environmental conditions affect either the fulcrum of those balanced polymorphisms, the plastic expression of coloration, or both. Color patterns in male bluefin killifish provoke both types of questions. Red and yellow morphs are common in all populations. Blue males are more common in tannin-stained swamps relative to clear springs. Here we combined crosses with a manipulation of light to explore how genetic variation and phenotypic plasticity shape these patterns. We found that the variation in coloration is attributable mainly to two axes of variation: (1) a red-yellow axis with yellow being dominant to red, and (2) a blue axis that can override red-yellow and is controlled by genetics, phenotypic plasticity, and genetic variation for phenotypic plasticity. The variation among populations in plasticity suggests it is adaptive in some populations but not others. The variation among sires in plasticity within the swamp population suggests balancing selection may be acting not only on the red-yellow polymorphism but also on plasticity for blue coloration.</p>
Fig. 1 in Molecular Characterization Of Lates Niloticus (Perciformes, Latidae) Populations From Three Nigerian Waterbodies Using Random Amplified Polymorphic Dna And Microsatellite Markers
Fig. 1. Map showing the sample locations of L. niloticus (Linnaeus, 1758). Population 1 — Kainji lake, Population 2 — River Benue, Makurdi and Population 3 — Ikere-Gorge reservoir, Iseyin, Oyo state.
An allozyme polymorphism is associated with a large chromosomal inversion in the marine snail Littorina fabalis
<p>This Zenodo archive contains the dataset analysed in the paper "An allozyme polymorphism is associated with a large chromosomal inversion in the marine snail Littorina fabalis" published in Evolutionary Application in 2022:</p> <ul> <li><a href="https://zenodo.org/api/files/cd560cff-56d4-4f72-95be-e70939f2b85f/FAB_LG3_maf1_SNP_Hexcess_depth10.vcf">FAB_LG3_maf1_SNP_Hexcess_depth10.vcf </a>: vcf for LG3 unpruned for LD containing 295 individuals genotyped at 58,246 filtered SNPs</li> <li><a href="https://zenodo.org/api/files/cd560cff-56d4-4f72-95be-e70939f2b85f/FAB_LG3_maf1_SNP_Hexcess_depth10_thin.vcf">FAB_LG3_maf1_SNP_Hexcess_depth10_thin.vcf </a>: vcf for LG3 pruned for LD containing 295 individuals genotyped at 9,905 filtered SNPs</li> <li><a href="https://zenodo.org/api/files/cd560cff-56d4-4f72-95be-e70939f2b85f/FAB_AK_maf1_SNP_Hexcess_depth10.vcf">FAB_AK_maf1_SNP_Hexcess_depth10.vcf</a> : vcf for contig265 containing the arginine kinase gene: 295 individuals genotyped at 70 filtered SNPs</li> </ul> <p>The archive also include some of the R script used to performed the analyses of the manuscrit:</p> <ul> <li> </li> <li><a href="https://zenodo.org/api/files/cd560cff-56d4-4f72-95be-e70939f2b85f/Population_genetic_Ark_analyses.R">Population_genetic_Ark_analyses.R </a>: Script to perform PCA +phenotypic cline + FST + Hobs + FIS</li> <li><a href="https://zenodo.org/api/files/cd560cff-56d4-4f72-95be-e70939f2b85f/Suspension_bridge_fit.R">Suspension_bridge_fit.R </a>: Script to perform the suspension bridge fit used to found evidence of gene flux inside the inversion.</li> <li><a href="https://zenodo.org/api/files/cd560cff-56d4-4f72-95be-e70939f2b85f/Cline_function.R">Cline_function.R </a>: function used to fit the allelic frequency variation (cline) along the transect</li> </ul> <p>The raw sequences are available in NCBI.</p> <p>Abstract of the study: Understanding the genetic targets of natural selection is one of the most challenging goalsof population genetics. Some of the earliest candidate genes were identified from associations between allozyme allele frequencies and environmental variation. One such example is the clinal polymorphism in the arginine kinase (<em>Ak</em>) gene in the marine snail <em>Littorina fabalis</em>. While other enzyme loci do not show differences in allozyme frequencies among populations, the <em>Ak</em> alleles are near differential fixation across repeated wave exposure gradients in Europe. Here, we use this case to illustrate how a new sequencing toolbox can be employed to characterize the genomic architecture associated with historical candidate genes. We found that the <em>Ak</em> alleles differ by 9 non-synonymous substitutions, which perfectly explain the different migration patterns of the allozymes during electrophoresis. Moreover, by exploring the genomic context of the <em>Ak</em> gene, we found that the three main <em>Ak</em> alleles are located on different arrangements of a putative chromosomal inversion that reaches near fixation at the opposing ends of two transects covering a wave exposure gradient. This shows <em>Ak</em> is part of a large (3/4 of the chromosome) genomic block of differentiation, in which <em>Ak</em> is unlikely to be the only target of divergent selection. Nevertheless, the non-synonymous substitutions among <em>Ak</em> alleles and the complete association of one allele with one inversion arrangement suggest that the <em>Ak</em> gene is a strong candidate to contribute to the adaptive significance of the inversion.</p> <p> </p> <p> </p>
Density-dependent selection and the maintenance of colour polymorphism in barn owls
<p>The capacity of natural selection to generate adaptive changes is according to the Fundamental Theorem of Natural Selection proportional to the additive genetic variance in fitness. In spite of its importance for development of new adaptations to a changing environment, processes affecting the magnitude of the genetic variance in fitness-related traits are poorly understood. Here we show that the red-white colour polymorphism in female barn owls is subject to density-dependent selection at the phenotypic and genotypic level. The diallelic melanocortin-1 receptor (MC1R) gene explained a large amount of the phenotypic variance in reddish colouration in the females (R^2 = 59.8 %). Red individuals (RR genotype) were selected for at low densities, while white individuals (WW genotype) were favoured at high densities and were less sensitive to changes in density. We show that this density-dependent selection favours white individuals and predicts fixation of the white allele in this population at longer time scales without immigration or other selective forces. Still, fluctuating population density will cause selection to fluctuate and periodically favour red individuals. These results suggest how balancing selection caused by fluctuations in population density can be a general mechanism affecting the level of additive genetic variance in natural populations.</p>
Polymorphism-aware estimation of species trees and evolutionary forces from genomic sequences with RevBayes
<p>Supplementary files of Polymorphism-aware estimation of species trees and evolutionary forces from genomic sequences with RevBayes by Borges, Boussau, Höhna, Pereira and Kosiol<br> </p>
Figure 3 in Genome-wide characterization of microsatellites and development of polymorphic markers shared between two weevils of Eucryptorrhynchus (Coleoptera: Curculionidae)
Figure 3. Genetic structure of Eucryptorrhynchus brandti (a) and E. scrobiculatus (b) populations based on 14 microsatellite markers inferred using the software STRUCTURE. Each bin indicates an individual. Different colors show the identified clusters. The best number of clusters (K) is 3. Abbreviations: BJHD—Haidian District, Beijing; NXZW—Zhongwei, Ningxia; SDTA—Tai'an, Shandong; SXYL—Yangling, Shaanxi.
Figure 2 in Genome-wide characterization of microsatellites and development of polymorphic markers shared between two weevils of Eucryptorrhynchus (Coleoptera: Curculionidae)
Figure 2. Frequency distribution of microsatellites among different motifs in the Eucryptorrhynchus brandti and E. scrobiculatus. The "others" category represents summed motifs with counts below 100.
Figure 1 in Genome-wide characterization of microsatellites and development of polymorphic markers shared between two weevils of Eucryptorrhynchus (Coleoptera: Curculionidae)
Figure 1. Collection sites for specimens of Eucryptorrhynchus brandti (red) and E. scrobiculatus (green). Abbreviations: BJHD— Haidian District, Beijing (116.22°E, 40.04°N); NXZW—Zhongwei, Ningxia (105.12°E, 37.50°N); SDTA—Tai'an, Shandong (116.72°E, 36.27°N); SXYL—Yangling, Shaanxi (108.07°E, 34.26°N).
Figure 2 in Dermacentor (Acari: Ixodidae) species that we deal with in Iran: Polymorphic D. Marginatus or more distinct species
Figure 2. Phylogenetic relationships among Dermacentor taxa derived from Bayesian inference (BI) analysis of ITS2 sequence data; numbers below each node show posterior probability value in BI analysis (1,000 replicates). Taxon labels give the species name followed by (in turn) GenBank accession numbers in parentheses; taxa of Iran are highlighted in bold. The main clade of the tree is shown on the right side. Posterior probability values are inserted in the place of nodes. Branch lengths are proportional to the evolutionary changes. The phylogeny is rooted with
Figure 1 in Dermacentor (Acari: Ixodidae) species that we deal with in Iran: Polymorphic D. Marginatus or more distinct species
Figure 1. Morphological variability in scutal pattern of Dermacentor specimens collected from different parts of Iran.
Text-fig. 15. a–c: Tilia sp. a: Oriolo MSF 679. b: Oriolo MSF n.n., fruiting bract. c: Oriolo MSF 908. d: Fraxinus aff. angustifolia subsp. oxycarpa Oriolo MSF 782. e–i: Hedera aff. helix. Polymorphic leaves. e: Oriolo MSF 628. f: Oriolo MSF 650. g: Oriolo MSF 797. h: Oriolo MSF 799. i: Oriolo MSF 796. Scale bars 50 mm (a, c–e), 10 mm (b, f–i). in The Late Early Pleistocene Flora Of Oriolo, Faenza (Italy): Assembly Of The Modern Forest Biome
Text-fig. 15. a–c: Tilia sp. a: Oriolo MSF 679. b: Oriolo MSF n.n., fruiting bract. c: Oriolo MSF 908. d: Fraxinus aff. angustifolia subsp. oxycarpa Oriolo MSF 782. e–i: Hedera aff. helix. Polymorphic leaves. e: Oriolo MSF 628. f: Oriolo MSF 650. g: Oriolo MSF 797. h: Oriolo MSF 799. i: Oriolo MSF 796. Scale bars 50 mm (a, c–e), 10 mm (b, f–i).
The Relationship between LRP5 (rs556442 and rs638051) Polymorphisms and Mutation with Bone Metabolism in Xinjiang women with Type 2 Diabetes after Menopause(Table 1 and Table 2 Statistical Values of Analysis Process)
<p>The Relationship between LRP5 (rs556442 and rs638051) Polymorphisms and Mutation with Bone Metabolism in Xinjiang women with Type 2 Diabetes after Menopause(Table 1 and Table 2 Statistical Values of Analysis Process)</p>
13 STR polymorphic loci for Aulactinia stella and Cribrinopsis albopunctata
<p>Here is a dataset of *.fsa files (the Prism Genetic Analyzer 3100, Applied Biosystems) of pool DNA PCR product of 13 STR polymorphic loci for Aulactinia stella and Cribrinopsis albopunctata.</p>
Figure 2 in Variations in heterochromatin content reveal important polymorphisms for studies of genetic improvement in garlic (Allium sativum L.)
Figure 2. Idiograms of the accessions "Sussuapara - PI" (A), "Santo Antônio de Lisboa - PI" (B), "Catetinho do Paraná 1254" (C), "Branco Mineiro - PI" (D), "Cateto Roxo 99" (E), "Roxo de Minas" (F), and "Sergipe" (G). Yellow dash and circle represent the CMA+/DAPI- band. Chromosomal order (CO), chromosome morphology (CM), metacentric (M), submetacentric (SM), short arm (p), and long arm (q). Vertical bar in karyogram and ideogram = 10 µm.
Figure 1. Allium sativum L in Variations in heterochromatin content reveal important polymorphisms for studies of genetic improvement in garlic (Allium sativum L.)
Figure 1. Allium sativum L.cytological data obtained by conventional Giemsa staining.Prophase and interphase nucleus (A), prometaphase (B), and metaphase (C) obtained with the use of antimitotic. Mitotic cycle is shown in d-f: anaphase (D), end of anaphase (E), and telophase (F). Dots and red arrow indicate the distended nucleolar organiser region (NOR). Bar = 10 µm.
Figure 1 in The association between ClaI polymorphism and hygienic behavior in Apis mellifera
Figure 1. Left image; hygienic colony sample (100% cleaned cells-Carniolan hybrid) and Right image; unhygienic colony sample (71% cleaned cells-Anatolian hybrid).
Fig. 2 in Population Genetics Of Philaenus Spumarius On The Istranca Mountains: Ii. Polymorphism And Phenotype Frequency
Fig. 2. The chart for the combined four major phenotype categories of Philaenus spumarius showing the frequency distributions on the Istranca Mountains, Turkey. From left to right, three groups of bars blank, dotted hatched, and dark coloured bars of the diagrams indicate POP, TYP, TRI+VIT, and melanic (MAR+LAT+FLA+LCE). The height of the bar indicates the percentage (numbers are given at
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.