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25 results for “phylogenetic tools”
Combined sequence matrix for: Molecular phylogenetic tools reveal the phytogeographic history of the genus Capparis L. and suggest its reclassification
<p><em><span>Capparis</span></em><span> L. is the largest genus of the family Capparaceae, represented by 142 species in the tropics and subtropics of the Old World. Despite being one of the medicinally and economically important genera with its unique distribution pattern, the evolutionary history of <em>Capparis</em> remained unexplored. Moreover, the phylogenetic relationships, origin, dispersal, and character evolution of the genus were poorly understood. With the objectives to (i) test the congruence between the molecular and morphological datasets, (ii) validate Jacobs' hypothesis on the origin, dispersal, and speciation pattern of <em>Capparis</em> using new fossil data, and (iii) understand the possible evolutionary role of some key morphological characters, we sampled across the five speciation centres of <em>Capparis</em>. The results derived from three plastidial markers (<em>matK</em>, <em>trnL</em>-<em>F</em> and <em>rbcL</em>) revealed incongruence with the morphological datasets and suggested a new sectional classification in <em>Capparis</em>. Divergence dating analysis revealed that Capparaceae originated in Africa at 47.25 MYA and <em>Capparis</em> in Peninsular India at about 29.32 MYA. <em>Capparis</em> followed multiple forward and backward dispersal, supporting the "into and out of India" hypothesis. These dispersal events were consistent with the various land bridges present during the Eocene to Miocene in different parts of the old world. The only long-distance dispersal event was observed in the case of the new world Capparaceae, corroborating the earlier findings. Our results suggest West Asia to the North African region as another centre of speciation for <em>Capparis</em> and present a robust age estimate for the genus. The character state reconstruction of <em>Capparis</em> revealed a unique evolutionary adaptation due to exposure to various climatic conditions and the acquisition of suitable pollination strategies. We hypothesize that the gynophore length, calyx shape, and blotches on petals contribute substantially to the pollination success. </span></p>
Combined sequence matrix for: Molecular phylogenetic tools reveal the phytogeographic history of the genus Capparis L. and suggest its reclassification
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Data from: An assessment of phylogenetic tools for analyzing the interplay between interspecific interactions and phenotypic evolution
Much ecological and evolutionary theory predicts that interspecific interactions often drive phenotypic diversification and that species phenotypes in turn influence species interactions. Several phylogenetic comparative methods have been developed to assess the importance of such processes in nature; however, the statistical properties of these methods have gone largely untested. Focusing mainly on scenarios of competition between closely-related species, we assess the performance of available comparative approaches for analyzing the interplay between interspecific interactions and species phenotypes. We find that many currently used statistical methods often fail to detect the impact of interspecific interactions on trait evolution, that sister-taxa analyses are particularly unreliable in general, and that recently developed process-based models have more satisfactory statistical properties. Methods for detecting predictors of species interactions are generally more reliable than methods for detecting character displacement. In weighing the strengths and weaknesses of different approaches, we hope to provide a clear guide for empiricists testing hypotheses about the reciprocal effect of interspecific interactions and species phenotypes and to inspire further development of process-based models.
Data from: An assessment of phylogenetic tools for analyzing the interplay between interspecific interactions and phenotypic evolution
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Data from: Toward a better understanding of Apis mellifera and Varroa destructor microbiomes: introducing PhyloH as a novel phylogenetic diversity analysis tool
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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.