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133 results for “genetic lineages”
Data from: Constrained body shape among highly genetically divergent allopatric lineages of the supralittoral isopod Ligia occidentalis (Oniscidea)
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Data from: Genetic and ecological data reveal species boundaries between viviparous and oviparous lizard lineages
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Data from: Morphological and genetic divergence between two lineages of Magnolia salicifolia (Magnoliaceae) in Japan
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Data from: The genetic architecture of hybridisation between two lineages of greenshell mussels
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Data from: An ecological history of the relict genetic lineage of Arabidopsis thaliana
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Data from: Temporally isolated lineages of pink salmon reveal unique signatures of selection on distinct pools of standing genetic variation
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Genotype data for: Population genetics reveals divergent lineages and ongoing hybridization in a declining migratory fish species complex
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Data from: Rapid genetic assimilation of native wall lizard populations (Podarcis muralis) through extensive hybridization with introduced lineages
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Figure 6. Thelogresponsecurvesfor R. darlingi. A in Phenotypic Convergence in Genetically Distinct Lineages of a Rhinolophus Species Complex (Mammalia, Chiroptera)
Figure 6. Thelogresponsecurvesfor R. darlingi. A) R. darlingi; (i) annual precipitation, (ii) precipitationof thewettestquarter, (iii) temperature seasonality when all locality records were used to build the model (temperature seasonality (Coefficient of Variation) is the standard deviation of the monthly temperature estimates expressed as a percentage of the mean of those estimates (i.e., the annual mean); and B) R. damarensis; (i) annual precipitation, (ii), precipitation of thewettest quarter, and (iii) mean temperature of the wettest quarter when all locality records were used to build the model. doi: 10.1371/journal. pone.0082614.g006
Figure 3 in Phenotypic Convergence in Genetically Distinct Lineages of a Rhinolophus Species Complex (Mammalia, Chiroptera)
Figure 3. Plot of canonical scores extracted by Discriminant Function Analysis from 24 skull and external parameters. Species abbreviations are the same as those in Table S1 (Supporting Information). Museum accession numbers relate to holotypes (See legend of Figure 1). doi: 10.1371/journal.pone.0082614.g003
Figure 2 in Phenotypic Convergence in Genetically Distinct Lineages of a Rhinolophus Species Complex (Mammalia, Chiroptera)
Figure 2. Bayesian consensus topology of Rhinolophus spp. based on cytochrome b. Values above nodes indicate Bayesian posterior probabilities (> 0.80) and below nodes report parsimony bootstrap support. Branch lengths are proportional to average number of substitutions per site. Divergence times (millions years ago, Mya) were estimated for three nodes of interest: node A = 4.8 Mya (95% HPD; 2.69–7.52), B = 9.68 Mya (95% HPD; 5.87–10.04), C = 10.51 Mya (95% HPD; 6.65–15.43). The split between the Hipposideridae (outgroup) and the Rhinolophidae together with fossil dates for R. ferrumequinum were used as calibration points; calibration points are indicated on the tree with an asterisk *. Sequences from the type localities for R. darlingi darlingi (TM2476) and R. darlingi damarensis (TM9474) are indicated on the tree in bold. The eastern R. darlingi darlingi subspecies forms a single clade together with R. fumigatus, R. eloquens and R. hildebrandti (blue) while R. damarensis damarensis, distributed in the western region of southern Africa, is composed of two very well supported clades that subdivide into northern and southern lineages (red) that diverged in the late Miocene. doi: 10.1371/journal. pone.0082614.g002
Figure 5 in Phenotypic Convergence in Genetically Distinct Lineages of a Rhinolophus Species Complex (Mammalia, Chiroptera)
Figure 5. Probability of occurrence for A) R. darlingi and B) R. damarensis in southern Africa. The predictions (Low-High) show a suitability gradient from 0–1 based on environmental suitability where 0 (low) indicates a zero probability of occurrence and 1 (high) indicates maximum probability of occurrence. White circles indicate locality records used for modelling the species. Dotted white triangles indicate locality records from where DNA sequences were obtained. Variables used in the final model include annual mean temperature, isothermality, temperature seasonality, temperature annual range, mean temperature of thewettest quarter, mean temperature of the driest quarter, mean temperature of the warmest quarter, mean temperature of the coldest quarter, annual precipitation, precipitation seasonality, precipitation of the wettest quarter, precipitation of the driest quarter, and precipitation of the coldest quarter.
Figure 1 in Phenotypic Convergence in Genetically Distinct Lineages of a Rhinolophus Species Complex (Mammalia, Chiroptera)
Figure 1. The distribution of R. darlingi (shaded areas) and sample localities (symbols). Squares = eastern R. darlingi; Circles (southern lineage) and triangles (northern lineage) = western R. darlingi (R. damarensis; Fig. 2). TM 9474 = holotype R. d. damarensis Namibia), TM 2476 = holotype of R. d. barbetonensis South Africa. doi: 10.1371/journal.pone.0082614.g001
Data from: The influence of life-history strategy on genetic differentiation and lineage divergence in darters (Percidae: Etheostomatinae)
Recent studies determined that darters with specialized breeding strategies can exhibit deep lineage divergence over fine geographic scales without apparent physical barriers to gene flow. However, the extent to which intrinsic characteristics interact with extrinsic factors to influence population divergence and lineage diversification in darters is not well understood. This study employed comparative phylogeographic and population genetic methods to investigate the influence of life-history on gene flow, dispersal ability, and lineage divergence in two sympatric sister darters with differing breeding strategies. Our results revealed highly disparate phylogeographic histories, patterns of genetic structure, and dispersal abilities between the two species suggesting that life-history may contribute to lineage diversification in darters, especially by limiting dispersal among large river courses. Both species also showed striking differences in demographic history, indicating that extrinsic factors differentially affected each species during the Pleistocene. Collectively, our results indicate that intrinsic and extrinsic factors have influenced levels of gene flow among populations within both species examined. However, we suggest that life-history strategy may play a more important role in lineage diversification in darters than previously appreciated, a finding that has potentially important implications for understanding diversification of the rich North American freshwater fish fauna.
Data from: Higher genetic diversity in recolonized areas than in refugia of Alnus glutinosa triggered by continent-wide lineage admixture
Genetic admixture is supposed to be an important trigger of species expansions because it can create the potential for selection of genotypes suitable for new climatic conditions. Up until now, however, no continent-wide population genetic study has performed a detailed reconstruction of admixture events during natural species expansions. To fill this gap, we analysed the postglacial history of Alnus glutinosa, a keystone species of European swamp habitats, across its entire distribution range using two molecular markers, cpDNA and nuclear microsatellites. CpDNA revealed multiple southern refugia located in the Iberian, Apennine, Balkan and Anatolian Peninsulas, Corsica and North Africa. Analysis of microsatellites variation revealed three main directions of postglacial expansion: (i) from the northern part of the Iberian Peninsula to Western and Central Europe and subsequently to the British Isles, (ii) from the Apennine Peninsula to the Alps and (iii) from the eastern part of the Balkan Peninsula to the Carpathians followed by expansion towards the Northern European plains. This challenges the classical paradigm that most European populations originated from refugial areas in the Carpathians. It has been shown that colonizing lineages have met several times and formed secondary contact zones with unexpectedly high population genetic diversity in Central Europe and Scandinavia. On the contrary, limited genetic admixture in southern refugial areas of A. glutinosa renders rear-edge populations in the Mediterranean region more vulnerable to extinction due to climate change.
Figure 2 in Genetic lineages of Parisotoma notabilis sensu lato (Collembola) in Eastern Europe and the Caucasus
Figure 2. Maximum Likelihood genetic tree of P. notabilis s. l. based on the D3−D5 region of 28S gene.
Data from: The influence of life-history strategy on genetic differentiation and lineage divergence in darters (Percidae: Etheostomatinae)
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Data from: Higher genetic diversity in recolonized areas than in refugia of Alnus glutinosa triggered by continent-wide lineage admixture
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Parallel scRNA-seq and genetic recording reveals lineage decisions in early mouse embryogenesis
GEO Series GSE140890. Mus musculus. 55 samples. Type: Expression profiling by high throughput sequencing; Other.
Spatiotemporal and genetic cell lineage tracing of endodermal organogenesis at single-cell resolution [Smart-seq3-RNA-seq-add]
GEO Series GSE277789. Mus musculus. 830 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.