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49 results for “gene action”
Complex patterns shape immune genes diversity during invasion of common raccoon in Europe – selection in action despite genetic drift
<p>Rapid adaptation is common in invasive populations and is crucial to their long-term success. The primary target of selection in the invasive species' new range is standing genetic variation. Therefore, genetic drift and natural selection acting on existing variation are key evolutionary processes through which invaders will evolve over a short timescale. In this study, we used the case of the raccoon <em>Procyon</em> <em>lotor</em> invasion in Europe to identify the forces shaping the diversity of immune genes during invasion. The genes involved in the defence against infection should be under intense selection pressure in the invasive range where novel pathogens are expected to occur. To disentangle the selective and demographic processes shaping the adaptive immune diversity of its invasive and expanding populations, we have developed species-specific SNP markers located in the coding regions of targeted immune-related genes. We characterised the genetic diversity of 110 functionally important immune genes in two invasive and one native raccoon genetic clusters, each presenting a different demographic history. Despite the strong effect of demographic processes in the invasive clusters, we detected a subset of genes exhibiting the diversity pattern suggestive of selection. The most likely process shaping the variation in those genes was balancing selection. The selected genes belong to toll-like receptors and cytokine-related genes. Our results suggest that the prevalence of selection depends on the level of diversity, i.e. – less genetically diverse invasive population from Czech Republic displayed fewer signs of selection. Our results highlight the role of standing genetic variation in adapting to a new environment. Understanding the evolutionary mechanisms behind invasion success would enable predicting how populations may respond to environmental change.</p>
Complex patterns shape immune genes diversity during invasion of common raccoon in Europe – selection in action despite genetic drift
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Muller's Ratchet in Action: The Erosion of Sexual Reproduction Genes in Domesticated Cassava (Manihot esculenta)
<p>Data Files for research study on Cassava gene evolutionary selection.</p>
Data from: Effects of gene action, marker density, and time since selection on the performance of landscape genomic scans of local adaptation
Genomic "scans" to identify loci that contribute to local adaptation are becoming increasingly common. Many methods used for such studies have assumed that local adaptation is created by loci experiencing antagonistic pleiotropy and that the selected locus itself is assayed, and few consider how signals of selection change through time. However, most empirical data sets have marker density too low to assume that a selected locus itself is assayed, researchers seldom know when selection was first imposed, and many locally adapted loci likely experience not antagonistic pleiotropy but conditional neutrality. We simulated data to evaluate how these factors affect the performance of tests for genotype-environment association. We found that three types of regression-based analyses (linear models, mixed linear models, and latent factor mixed models) and an implementation of BayEnv all performed well, with high rates of true positives and low rates of false positives, when the selected locus experienced antagonistic pleiotropy, and when the selected locus was assayed directly. However, all tests had reduced power to detect loci experiencing conditional neutrality, and the probability of detecting associations was sharply reduced when physically linked rather than causative loci were sampled. Antagonistic pleiotropy also maintained detectable genotype-environment associations much longer than conditional neutrality. Our analyses suggest that if local adaptation is often driven by loci experiencing conditional neutrality, genome-scan methods will have limited capacity to find loci responsible for local adaptation.
Action of Essential Fatty Acids on the Expression of Antioxidant Genes and Athletic Performance
ClinicalTrials.gov study NCT02177383. IPD Sharing: Not stated. Countries: 1. Publications: 3.
Genes-in-Action - Hepcidin Regulation of Iron Supplementation
ClinicalTrials.gov study NCT03341338. IPD Sharing: NO. Countries: 1. Publications: 1.
Study of Gene Polymorphisms Involved in the Metabolism and Action of Vitamin D in Amyotrophic Lateral Sclerosis
ClinicalTrials.gov study NCT02893605. IPD Sharing: Not stated. Countries: 1. Publications: 1.
Data from: Effects of gene action, marker density, and time since selection on the performance of landscape genomic scans of local adaptation
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G3BP1::CSF1R: a new and actionable gene fusion in acute megakaryoblastic leukemia
GEO Series GSE279844. Homo sapiens. 12 samples. Type: Expression profiling by high throughput sequencing.
DNA variants affecting the expression of numerous genes in trans have diverse mechanisms of action and evolutionary histories
GEO Series GSE134169. Saccharomyces cerevisiae. 25 samples. Type: Expression profiling by high throughput sequencing.
TempO-Seq S1500+ Platform Gene Expression of Rat Liver Mode of Action Samples
GEO Series GSE118956. Rattus norvegicus. 63 samples. Type: Expression profiling by high throughput sequencing.
Methotrexate treatment of newly diagnosed RA patients is associated with DNA methylation differences at genes relevant for disease pathogenesis and pharmacological action
GEO Series GSE188509. Homo sapiens. 36 samples. Type: Methylation profiling by high throughput sequencing.
Linking toxicant physiological mode of action with induced gene expression changes in Caenorhabditis elegans: atrazine
GEO Series GSE21008. Caenorhabditis elegans. 23 samples. Type: Expression profiling by array.
Linking toxicant physiological mode of action with induced gene expression changes in Caenorhabditis elegans: cadmium
GEO Series GSE21010. Caenorhabditis elegans. 23 samples. Type: Expression profiling by array.
Concerted Actions of FoxO1 and Pparα in hepatic gene expression and metabolic adaptation
GEO Series GSE282595. Mus musculus. 24 samples. Type: Expression profiling by high throughput sequencing.
The Parathyroid Hormone-Regulated Transcriptome in Osteocytes: Parallel Actions with 1,25-Dihydroxyvitamin D3 to Oppose Gene Expression Changes During Differentiation and to Promote Mature Cell Functi
GEO Series GSE62978. Mus musculus. 4 samples. Type: Genome binding/occupancy profiling by high throughput sequencing.
The Parathyroid Hormone-Regulated Transcriptome in Osteocytes: Parallel Actions with 1,25-Dihydroxyvitamin D3 to Oppose Gene Expression Changes During Differentiation and to Promote Mature Cell Functi
GEO Series GSE62981. Mus musculus. 7 samples. Type: Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing.
The molecular basis of T-PLL is an actionable perturbation of TCL1/ATM- and epigenetically instructed damage responses [human gene expression array]
GEO Series GSE107397. Homo sapiens. 140 samples. Type: Expression profiling by array.
Linking toxicant physiological mode of action with induced gene expression changes in Caenorhabditis elegans: fluoranthene
GEO Series GSE21011. Caenorhabditis elegans. 26 samples. Type: Expression profiling by array.
Control of developmentally primed erythroid genes by combinatorial corepressor actions
GEO Series GSE59859. Mus musculus. 27 samples. Type: Genome binding/occupancy profiling by high throughput sequencing; Expression profiling by high throughput sequencing.
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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.
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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.