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4,566 results for “marker”
Multi‐marker DNA metabarcoding reveals spatial and sexual variation in the diet of a scarce woodland bird
<p>Avian diet can be affected by site‐specific variables, such as habitat, as well as intrinsic factors such as sex. This can lead to dietary niche separation, which reduces competition between individuals, as well as impacting how well avian species can adapt to environmental variation. Estimating dietary niche separation is challenging, due largely to difficulties in accurately identifying food taxa consumed. Consequently, there is limited knowledge of the diets of woodland bird species, many of which are undergoing serious population declines. Here, we show the effectiveness of multi‐marker fecal metabarcoding to provide in‐depth dietary analysis of a declining passerine in the UK, the Hawfinch (Coccothraustes coccothraustes). We collected fecal samples from (n = 262) UK Hawfinches prior to, and during, the breeding seasons in 2016–2019. We detected 49 and 90 plant and invertebrate taxa, respectively. We found Hawfinch diet varied spatially, as well as between sexes, indicating broad dietary plasticity and the ability of Hawfinches to utilize multiple resources within their foraging environments.</p>
Exploring the Diagnostic Markers of Essential Tremor: A study based on Machine Learning Algorithms
<p>supplementary information files for the manuscript Exploring the Diagnostic Markers of Essential Tremor: A study based on Machine Learning Algorithms</p>
Data from: Biological clocks as age estimation markers in animals: a review and meta-analysis
<p>Complete dataset of Methylation and Telomere studies searched, retrieved, analysed, extracted and compared in the review and meta-analysis "<strong>Biological clocks as age estimation markers in animals: a review and meta-analysis".</strong></p>
Data for: Optimizing a metabarcoding marker portfolio for species detection from complex mixtures of globally diverse fishes
<p>DNA metabarcoding is used to enumerate and identify taxa in both environmental samples and tissue mixtures, but the effectiveness of particular markers depends on their sensitivity to the taxa involved. Using multiple primer sets that amplify different genes can mitigate biases in amplification efficiency, sequence resolution, and reference data availability, but few empirical studies have evaluated markers for complementary performance. Here, we assess the individual and joint performance of 22 markers for detecting species in a DNA pool of 98 species of marine and freshwater bony fishes from geographically and phylogenetically diverse origins. We find that a portfolio of four markers targeting 12S, 16S, and two regions of COI identifies 100% of reference taxa to family and nearly 60% to species. We then use these four markers to evaluate metabarcoding of heterogeneous tissue mixtures, using experimental fishmeal to test: 1) the tissue input threshold to ensure detection; 2) how read depth scales with tissue abundance; and 3) the effect of non-target material in the mixture on recovery of target taxa. We consistently detect taxa that make up >1% of fishmeal mixtures and can detect taxa at the lowest input level of 0.01%, but rare taxa (<1%) were detected inconsistently across markers and replicates. Read counts showed only a weak correlation with tissue input, suggesting they are not a reliable quantitative proxy for relative abundance. Despite the limitations arising from primer specificity and reference data availability, our results demonstrate that a modest portfolio of markers can perform well in detecting and identifying aquatic species in complex mixtures despite heterogeneity in tissue representation, phylogenetic affinities, and from a broad geographic range.</p>
E-Cigarette Effects on Markers of Cardiovascular and Pulmonary Disease
ClinicalTrials.gov study NCT03863509. IPD Sharing: YES. Countries: 1. Publications: 1.
A Study to Investigate the Efficacy, Safety, and Tolerability of DFV890 and MAS825 for Inflammatory Marker Reduction in Adult Participants With Coronary Heart Disease and Clonal Hematopoiesis of Indet
ClinicalTrials.gov study NCT06097663. IPD Sharing: YES. Countries: 3. Publications: 1.
Multi‐marker DNA metabarcoding reveals spatial and sexual variation in the diet of a scarce woodland bird
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Validating marker-less pose estimation with 3D x-ray radiography
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Data from: Pitfalls and pointers: an accessible guide to marker gene amplicon sequencing in ecological applications
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Standardized nuclear markers improve and homogenize species delimitation in Metazoa
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Metazoa-level USCOs as markers in species delimitation and classification
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Species-informative GT-seq markers for Columbia River salmonid fishes: Genotypic data and computing resources
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Data from: Exploring the potential of Angiosperms353 markers for species identification of Eastern Mediterranean orchids
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The more the better: Fatty acids are predictive markers of honey bee, Apis mellifera, worker longevity
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Data for: Optimizing a metabarcoding marker portfolio for species detection from complex mixtures of globally diverse fishes
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Locations of shoreline marker signs on Northern Hog Island, Northampton Co., VA 1852-1993
Locations for signs showing intersection of historic shorelines with the road and Transect 1 crossing northern Hog Island.
Annotated genes harboring major effect markers (R2 ≥ 15%). Highlighted in green are genes annotated from Rhodes et al. 2014,2017, in orange genes annotated as similar to Peroxidase, in yellow new annotations from sorghum genome in Atlas. In the first three columns start and stop position on the sorghum genome and transcript name, followed by the nearest marker name and the distance of the gene from the nearest marker, then a column where are shown the GWAS methods and target traits for which the linked SNP was significant, the last column shows the category of the genes.
<p><strong>We conducted a comprehensive genomics study to map genomic loci determining the production of antioxidants in sorghum grains. Encouraging results were obtained and published in peer-reviewed article with impact factor (https://doi.org/10.1371/journal.pone.0225979). Annotated genes harboring major effect markers (R<sup>2</sup> ≥ 15%) were identified and will be of worldwide interest. </strong></p>
'A posteriori' genes harboring major effect marker (R2 ≥ 15%)
<p>In The process of our comprehensive mapping of the genomic loci governing the production of antioxidants in sorghum, we identified a posteriori genes harboring major effect marker. All genes involved in polyphenols metabolic pathway were considered 'a priori' candidates, including those genes that were reported in previous works. Regardless of their annotation and putative function, all genes containing a significant marker within their sequence were considered 'a posteriori' candidates. <strong> </strong> </p>
Data from: Altitude difference might contribute to the genetic divergence of giant panda' staple food Bamboo (Fargesia spathacea complex) based on 14 SSR markers
<p>The taxonomy in woody bamboo faces a lot of difficulties due to its long blooming intervals and complicated morphological variation. Whether the current taxonomy would reflect the genuine species divergence within woody bamboo is an intriguing question. <i>Fargesia spathacea</i> complex comprises fifteen closely related species with sympatric distribution in China. Their classification has long been controversy because of only a handful of vegetative traits available, thus providing a good opportunity to explore the evolutionary relationship and genetic differentiation in woody bamboo. Here we presented a study with 750 individuals from 39 representative populations in <i>Fargesia spathacea</i> complex using 14 SSR markers. We found varying degrees of genetic diversity across populations of the <i>Fargesia spathacea</i> complex (<i>He</i>=0.07-0.81) and largely negative <i>F</i> values at the population level, implying an excess of heterozygotes in the populations. Phylogenetic analyses revealed that all populations were divided into two major groups (cluster A and B), with the majority of fifteen species representing distinct genetic lineages. Based on the population genetic analysis along with morphological evidence, we confirmed the identity of three species (<i>F. decurvata</i>, <i>F. spathacea</i> and <i>F. murielae</i>) and suggested invalidation of four other species (<i>scabrida</i>, <i>F. robusta</i>, <i>F. denudata</i> and <i>F. nitida</i>). The delimitation of the rest eight species was yet to be explored. The ecological factor and spatial autocorrelation analysis supported that altitude difference might account for the distinct genetic divergence between two major groups.</p>
Sex-linked markers by genome-wide RAD sequencing to identify XX/XY Sex Chromosomes in the spiny frog (Quasipaa boulengeri)
<p><span>We use genotyping by sequencing as an approach to identify sex-linked markers in the spiny frog <i>Quasipaa boulengeri</i> with 43 wild-collected adults from a single site. The GBS methodology identified 2 loci on sex differences in allele frequencies, 50 loci on sex differences in heterozygosity, and 523 loci on male-limited occurrence, altogether associated with males heterogamety, indicating an XX-XY system. The sex specificity of five markers was further validated by PCR amplification with a large number of additional individuals from 26 various populations in this species. A total of 27 sex linkage markers were matched to Dmrt1 gene, a ubiquitous role in sex determination and differentiation from flies and nematodes to mammals. Chromosome 1, that harboring Dmrt1, has further been assigned to a highly potential candidate sex chromosome in anurans. Five sex-linked SNP makers explored 3 sex reversals out of 133 individuals here, sparsely showing sex reversal detected in wild amphibian populations. </span></p>
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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.
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.