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.
6
datasets available to search
ShareScore release 0.9.0
Dataset results
6 results for “supertype”
Trans-specific polymorphism and the convergent evolution of supertypes in MHC class II genes in Darters (Etheostoma)
<p>Major Histocompatibility Complex (MHC) genes are one of the most polymorphic gene groups known in vertebrates. MHC genes also exhibit allelic variants that are shared among taxa, referred to as trans-specific polymorphism (TSP). The role that selection plays in maintaining such high diversity within species, as well as TSP, is an ongoing discussion in biology. In this study we used deep-sequencing techniques to characterize MHC class IIb gene diversity in three sympatric species of darters. We found at least 5 copies of the MHC gene in darters, with 126 genetic variants encoding 122 unique amino acid sequences. We identified four supertypes based on the binding properties of proteins encoded by the sequences. Although each species had a unique pool of variants, many variants were shared between species pairs and across all three species. Phylogenetic analysis showed that the variants did not group together monophyletically based on species identity or on supertype. An expanded phylogenetic analysis showed that some darter alleles grouped together with alleles from other percid fishes. Our findings show that TSP occurs in darters, which suggests that balancing selection is acting at the genotype level. Supertypes, however, are most likely evolving convergently, as evidenced by the fact that alleles do not form monophyletic groups based on supertype. Our research demonstrates that selection may be acting differently on MHC genes at the genotype and supertype levels, selecting for the maintenance of high genotypic diversity while driving the convergent evolution of similar MHC phenotypes across different species.</p>
Data from: MHC class II supertypes affect survival and lifetime reproductive success in a migratory songbird
Open the record for dataset details and reuse information.
Trans-specific polymorphism and the convergent evolution of supertypes in MHC class II genes in Darters (Etheostoma)
Open the record for dataset details and reuse information.
Data from: Specific MHC class I supertype associated with parasite infection and colour morph in a wild lizard population
The major histocompatibility complex (MHC) is a large gene family that plays a central role in the immune system of all jawed vertebrates. Non-avian reptiles are under-represented within the MHC literature and little is understood regarding the mechanisms maintaining MHC diversity in this vertebrate group. Here, we examined the relative roles of parasite-mediated selection and sexual selection in maintaining MHC class I diversity of a colour polymorphic lizard. We discovered evidence for parasite-mediated selection acting via rare-allele advantage or fluctuating selection as ectoparasite load was significantly lower in the presence of a specific MHC supertype (functional clustering of alleles); supertype four. Based on comparisons between ectoparasite prevalence and load, and assessment of the impact of ectoparasite load on host fitness, we suggest that supertype four confers quantitative resistance to ticks or an intracellular tick-borne parasite. We found no evidence for MHC-associated mating in terms of pair genetic distance, number of alleles or specific supertypes . An association was uncovered between supertype four and male throat colour morph. However, it is unlikely that male throat colouration acts as a signal of MHC genotype to conspecifics because we found no evidence to suggest that male throat colouration predicts male mating status. Overall, our results suggest that parasite-mediated selection plays a role in maintaining MHC diversity in this population via rare allele advantage and/or fluctuating selection. Further work is required to determine whether sexual selection also plays a role in maintaining MHC diversity in agamid lizards.
Data from: Specific MHC class I supertype associated with parasite infection and colour morph in a wild lizard population
Open the record for dataset details and reuse information.
Supplementary data --The mutational landscape of SARS-CoV-2 variants diversifies T cell targets in an HLA supertype-dependent manner
<p>Supplementary data for the Cell Systems manuscript 'The mutational landscape of SARS-CoV-2 variants diversifies T cell targets in an HLA supertype-dependent manner', by Hamelin <em>et al.</em></p> <p><strong>GISAID_Authors_Recognition_2021-01-19. </strong>Metadata concerning the SARS-CoV-2 viral sequences analysed, and generously provided by GISAID. </p> <p><strong>Table S1. </strong>SARS-CoV-2 mutations identified from 330,246 GISAID entries (December 31<sup>st</sup> 2020), Related to Figure 1 and Figure 2. SARS-CoV-2 mutations at the nucleic and amino acid level are indicated. Number of genomes carrying mutation show the frequency of individual mutations among all SARS-CoV-2 variants. </p> <p><strong>Table S2. </strong>SARS-CoV-2 prevalent mutations identified from 330,246 GISAID entries (December 31<sup>st</sup> 2020) and detected in at least 100 individuals, Related to Figure 2.</p> <p><strong>Table S3.</strong> Previously validated SARS-CoV-2 CD8+ T cell epitopes and their matching mutated forms identified in this study, Related to Figure 1 and Figure 2.</p> <p><strong>Table S4.</strong> List of previously validated SARS-CoV-2 CD8+ T cell epitopes. Epitopes were downloaded from https://www.mckayspcb.com/SARS2TcellEpitopes/ (as of January 2021). This database has effectively catalogued all SARS-CoV-2 CD8+ epitopes validated by 18 separate studies. See Quadeer et al. 2021 for details, Related to Figure 1 and Figure 2. </p>
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.