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Dataset results
194 results for “host adaptation”
Data from: Loss of adaptation following reversion suggests trade-offs in host use by a seed beetle
Open the record for dataset details and reuse information.
Host plant adaptation of a polyphagous herbivore shapes transcriptome of both herbivore and host
GEO Series GSE68708. Tetranychus urticae. 12 samples. Type: Expression profiling by array.
Host and genetic viral adaptations enable development of an immunocompetent mouse model of Zika virus infection
GEO Series GSE112711. Mus musculus. 5 samples. Type: Expression profiling by high throughput sequencing.
Donor regulatory T cells rapidly adapt to recipient tissues to control acute graft-versus-host disease [scRNA-seq & scTCR-seq]
GEO Series GSE223798. Mus musculus. 21 samples. Type: Expression profiling by high throughput sequencing; Other.
Adaptive upregulation of Clumping Factor A (ClfA) by S. aureus in the obese, type 2 diabetic host mediates increased virulence
GEO Series GSE96040. Staphylococcus aureus. 6 samples. Type: Expression profiling by high throughput sequencing.
Discovery of a "White-Gray-Opaque" Tristable Phenotypic Switching System in Candida Albicans: Roles of Non-Genetic Diversity in Host Adaption
GEO Series GSE53671. Candida albicans. 3 samples. Type: Expression profiling by high throughput sequencing.
An essential mycolate remodeling program for mycobacterial adaptation in host cells
GEO Series GSE116085. Mycolicibacterium smegmatis. 8 samples. Type: Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing.
Host Transcriptomic responses to pneumonic plague reveal that Yersinia pestis inhibits both the initial adaptive and innate immune responses in mice
GEO Series GSE84341. Mus musculus. 21 samples. Type: Expression profiling by high throughput sequencing.
Mutual adaptation of C. albicans and the host in the stably colonized murine tongue tissue
GEO Series GSE280210. Mus musculus; Candida albicans. 24 samples. Type: Expression profiling by high throughput sequencing.
Inhibition of histone acetyltransferase GCN5 by a transcription factor FgPacC controls fungal adaption to host-derived iron stress
GEO Series GSE203093. Fusarium graminearum PH-1. 32 samples. Type: Genome binding/occupancy profiling by high throughput sequencing; Expression profiling by high throughput sequencing.
Path-seq identifies an essential mycolate remodeling program for mycobacterial adaptation in host cells [ChIP-seq]
GEO Series GSE116084. Mycolicibacterium smegmatis. 2 samples. Type: Genome binding/occupancy profiling by high throughput sequencing.
Data from: Can maternally inherited endosymbionts adapt to a novel host? Direct costs of Spiroplasma infection, but not vertical transmission efficiency, evolve rapidly after horizontal transfer into D. melanogaster
Maternally inherited symbionts are common in arthropods and many have important roles in host adaptation. The observation that specific symbiont lineages infect distantly related host species implies new interactions are commonly established by lateral transfer events. However, studies have shown that symbionts often perform poorly in novel hosts. We hypothesized selection on the symbiont may be sufficiently rapid that poor performance in a novel host environment is rapidly ameliorated, permitting symbiont maintenance. Here, we test this prediction for a Spiroplasma strain transinfected into the novel host Drosophila melanogaster. In the generations immediately following transinfection, the symbiont had low transmission efficiency to offspring and imposed severe fitness costs on its host. We observed that effects on host fitness evolved rapidly, being undetectable after 17 generations in the novel host, whereas vertical transmission efficiency was poorly responsive over this period. Our results suggest that long-term symbiosis may more readily be established in cases where symbionts perform poorly in just one aspect of symbiosis.
Data from: Adaptation to resistant hosts increases fitness on susceptible hosts in the plant parasitic nematode Globodera pallida
Trade-offs between virulence (defined as the ability to infect a resistant host) and life-history traits are of particular interest in plant pathogens for durable management of plant resistances. Adaptation to plant resistances (i.e., virulence acquisition) is indeed expected to be associated with a fitness cost on susceptible hosts. Here, we investigated whether life-history traits involved in the fitness of the potato cyst nematode Globodera pallida are affected in a virulent lineage compared to an avirulent one. Both lineages were obtained from the same natural population through experimental evolution on resistant and susceptible hosts, respectively. Unexpectedly, we found that virulent lineages were more fit than avirulent lineages on susceptible hosts: they produced bigger cysts, containing more larvae and hatching faster. We thus discuss possible reasons explaining why virulence did not spread into natural G. pallida populations.
Data from: The impact of bottlenecks on microbial survival, adaptation and phenotypic switching in host-pathogen interactions
Microbial pathogens and viruses can often maintain sufficient population diversity to evade a wide range of host immune responses. However, when populations experience bottlenecks, as occurs frequently during initiation of new infections, pathogens require specialized mechanisms to regenerate diversity. We address the evolution of such mechanisms, known as stochastic phenotype switches, which are prevalent in pathogenic bacteria. We analyze a model of pathogen diversification in a changing host environment that accounts for selective bottlenecks, wherein different phenotypes have distinct transmission probabilities between hosts. We show that under stringent bottlenecks, such that only one phenotype can initiate new infections, there exists a threshold stochastic switching rate below which all pathogen lineages go extinct, and above which survival is a near certainty. We determine how quickly stochastic switching rates can evolve by computing a fitness landscape for the evolutionary dynamics of switching rates, and analyzing its dependence on both the stringency of bottlenecks and the duration of within-host growth periods. We show that increasing the stringency of bottlenecks or decreasing the period of growth results in faster adaptation of switching rates. Our model provides strong theoretical evidence that bottlenecks play a critical role in accelerating the evolutionary dynamics of pathogens.
Source data: Transmission of SARS-CoV-2 from humans to animals and potential host adaptation
<p>All source data required for reproducing the results of the associated manuscript. Contains data inputs for all associated custom code hosted on Zenodo (https://doi.org/10.5281/zenodo.6528187).</p>
Metaproteogenomics resolution of a high-CO2 aquifer community reveals a complex cellular adaptation of groundwater Gracilibacteria to a host-dependent lifestyle
<p>This dataset contains the Supplementary files S1 and S2 of the publication "Metaproteogenomics resolution of a high-CO2 aquifer community reveals a complex cellular adaptation of groundwater Gracilibacteria to a host-dependent lifestyle". The first of the datasets is a protein sequence database used as a reference for metaproteomics in the study (with simplified unique headers compatible with the software). The metadata file contains reference names to convert ProteinIDs from the fasta file to their original GeneID as well as further Metadata (such as the functional and taxonomic annotation of the protein identifiers). For more information, please read the publication, currently available as a preprint at https://www.biorxiv.org/content/10.1101/2023.12.18.572140v2 .</p>
White-Opaque Switching in Natural MTLa/alpha Isolates of Candida albicans: Evolutionary Implications for Roles in Host Adaptation, Pathogenesis and Sex
GEO Series GSE43938. Candida albicans. 2 samples. Type: Expression profiling by high throughput sequencing.
ATF3 links host adaptive-response to breast cancer metastasis
GEO Series GSE36904. Mus musculus. 8 samples. Type: Expression profiling by array.
Transcriptional responses of an indigenous and an invasive whitefly to different host plants reveal their different capacity of adaptation
GEO Series GSE57074. Bemisia tabaci. 4 samples. Type: Expression profiling by high throughput sequencing.
Path-seq identifies essential mycolate remodeling program for mycobacterial adaptation in host cells [RNA-seq]
GEO Series GSE116027. Mycolicibacterium smegmatis. 6 samples. Type: Expression profiling by high throughput sequencing.
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.