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8 results for “Lineage replacement”
Lineage replacement and evolution captured by three years of the United Kingdom Covid Infection Survey
<p>The Office for National Statistics COVID-19 Infection Survey (ONS-CIS) is the largest surveillance study of SARS-CoV-2 positivity in the community and collected data on the United Kingdom (UK) epidemic from April 2020 until March 2023 before being paused. Here, we report on the epidemiological and evolutionary dynamics of SARS-CoV-2 determined by analysing the sequenced samples collected by the ONS-CIS during this period. We observed a series of sweeps or partial sweeps, with each sweeping lineage having a distinct growth advantage compared to its predecessors. The sweeps also generated an alternating pattern in which most samples had either S-gene target failure (SGTF) or non-SGTF over time. Evolution was characterised by steadily increasing divergence and diversity within lineages but with step increases in divergence associated with each sweeping major lineage. This led to a faster overall rate of evolution when measured at the between-lineage level compared to within-lineages, and fluctuating levels of diversity. These observations highlight the value of viral sequencing integrated into community surveillance studies to monitor the viral epidemiology and evolution of SARS-CoV-2, and potentially other pathogens, particularly in the current phase of the pandemic with routine RT-PCR testing now ended in the community.</p>
Lineage replacement and evolution captured by three years of the United Kingdom Covid Infection Survey
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Data from: A novel, enigmatic basal leafflower moth lineage pollinating a derived leafflower host illustrates the dynamics of host shifts, partner replacement, and apparent coadaptation in intimate mutualisms
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Fig. 3 in Invading a refugium: post glacial replacement of the ancestral lineage of a Nymphalid butterfly in the West Mediterranean
Fig. 3 Interpolation by inverse distance weighting (IDW) of component 1 values over the study area (a). The shapes of valvae and brachia corresponding to the maximum and minimum values of valva PC1 and brachium PC1 are shown beside the legend. Slope of the interpolated
Fig. 1 The study area showing the 21 in Invading a refugium: post glacial replacement of the ancestral lineage of a Nymphalid butterfly in the West Mediterranean
Fig. 1 The study area showing the 21 sampled localities: 1 Esperia, 2 Ischia, 3 Napoli, 4 Capri, 5 Punta Campanella, 6 Ottati, 7 Castrovillari, 8 Cosenza, 9 Sila Grande, 10 Isola Capo Rizzuto, 11 Monte Limina, 12 Gambarie, 13 Portella Rizzo, 14 Santa Lucia sul Melo, 15 Lipari, 16 Galati
Fig. 2 in Invading a refugium: post glacial replacement of the ancestral lineage of a Nymphalid butterfly in the West Mediterranean
Fig. 2 Partial least squares discriminant analysis (PLSDA) displaying the relative positions of specimens belonging to the 21 areas. Only the areas with more than five specimens were used to construct the model. Components 1 and 2 are represented on the x- and y-axis, respectively
Fig. 4 in Invading a refugium: post glacial replacement of the ancestral lineage of a Nymphalid butterfly in the West Mediterranean
Fig. 4 Reconstruction of isochronous shorelines for Capri (a) and Ischia (b) at different times by coupling present-day isobaths and past sea-level reconstructions
Age-dependent replacement of neural-crest derived enteric neurons by a novel mesodermal lineage and its functional consequences
GEO Series GSE156146. Mus musculus. 2 samples. Type: 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.
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.