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1,492 results for “species delimitation”
Bayesian species delimitation in Pleophylla chafers (Coleoptera) – the importance of prior choice and morphology
<p>Input files for the analyses associated with the following study publish in BMC Evolutionary Biology: </p> <p> </p> <p><em>Bayesian species delimitation in Pleophylla chafers (Coleoptera) – the importance of prior choice and morphology</em></p> <p><strong>Background</strong></p> <p>Defining species units can be challenging, especially during the earliest stages of speciation, when phylogenetic inference and delimitation methods may be compromised by incomplete lineage sorting (ILS) or secondary gene flow. Integrative approaches to taxonomy, which combine molecular and morphological evidence, have the potential to be valuable in such cases. In this study we investigated the South African scarab beetle genus <em>Pleophylla</em> using data collected from 110 individuals of eight putative morphospecies. The dataset included four molecular markers (<em>cox1</em>, 16S, <em>rrnL</em>, ITS1) and morphometric data based on male genital morphology. We applied a suite of molecular and morphological approaches to species delimitation, and implemented a novel Bayesian approach in the software iBPP, which enables continuous morphological trait and molecular data to be combined.</p> <p><strong>Results</strong></p> <p>Traditional morphology-based species assignments were supported quantitatively by morphometric analyses of the male genitalia (eigenshape analysis, CVA, LDA). While the ITS1-based delineation was also broadly congruent with the morphospecies, the <em>cox1</em> data resulted in over-splitting (GMYC modelling, haplotype networks, PTP, ABGD). In the most extreme case morphospecies shared identical haplotypes, which may be attributable to ILS based on statistical tests performed using the software JML. We found the strongest support for putative morphospecies based on phylogenetic evidence using the combined approach implemented in iBPP. However, support for putative species was sensitive to the use of alternative guide trees and alternative combinations of priors on the population size (<em>θ</em>) and rootage (<em>τ</em><sub><em>0</em></sub>) parameters, especially when the analysis was based on molecular or morphological data alone.</p> <p><strong>Conclusions</strong></p> <p>We demonstrate that continuous morphological trait data can be extremely valuable in assessing competing hypotheses to species delimitation. In particular, we show that the inclusion of morphological data in an integrative Bayesian framework can improve the resolution of inferred species units. However, we also demonstrate that this approach is extremely sensitive to guide tree and prior parameter choice. These parameters should be chosen with caution – if possible – based on independent empirical evidence, or careful sensitivity analyses should be performed to assess the robustness of results. Young species provide exemplars for investigating the mechanisms of speciation and for assessing the performance of tools used to delimit species on the basis of molecular and/or morphological evidence.</p>
FIGURE 7 in Multilocus species delimitation in the Crotalus triseriatus species group (Serpentes: Viperidae: Crotalinae), with the description of two new species
FIGURE 7. Lateral and dorsal view of the holotype of Crotalus campbelli sp. nov. (KU 73649).
FIGURE 3 in A new species of Indian caecilian highlights challenges for species delimitation within Gegeneophis Peters, 1879 (Amphibia: Gymnophiona: Indotyphlidae)
FIGURE 3. Habitat at Bedoor, type locality of Gegeneophis tejaswini sp. nov.
FIGURE 3 in Cambarus (Jugicambarus) adustus, a new species of crayfish from northeastern Kentucky delimited from the Cambarus (J.) aff. dubius species complex
FIGURE 3. Cambarus (Jugicambarus) adustus, new species, holotype male (form I). USNM 1407169
Fig. 44 in There's gold in them thar hills! Morphology and molecules delimit species in Xerochrysum (Asteraceae; Gnaphalieae) and reveal many new taxa
Fig. 44. Isotype of Xerochrysum wilsonii (T.L.Collins 1160, NE 108019).
Fig. 39 in There's gold in them thar hills! Morphology and molecules delimit species in Xerochrysum (Asteraceae; Gnaphalieae) and reveal many new taxa
Fig. 39. Distribution of Xerochrysum papillosum.
Fig. 49 in There's gold in them thar hills! Morphology and molecules delimit species in Xerochrysum (Asteraceae; Gnaphalieae) and reveal many new taxa
Fig. 49. Distribution of Xerochrysum milliganii.
Fig. 33 in There's gold in them thar hills! Morphology and molecules delimit species in Xerochrysum (Asteraceae; Gnaphalieae) and reveal many new taxa
Fig. 33. Distribution of Xerochrysum macsweeneyorum.
Fig. 36 in There's gold in them thar hills! Morphology and molecules delimit species in Xerochrysum (Asteraceae; Gnaphalieae) and reveal many new taxa
Fig. 36. Isotype of Xerochrysum murapan (J.R.Hosking 3201, NE 95474).
Fig. 30 in There's gold in them thar hills! Morphology and molecules delimit species in Xerochrysum (Asteraceae; Gnaphalieae) and reveal many new taxa
Fig. 30. Isotype of Xerochrysum hispidum (I.R.Telford 13546, J.J.Bruhl & S.Dema, NE 109359).
Fig. 50 in There's gold in them thar hills! Morphology and molecules delimit species in Xerochrysum (Asteraceae; Gnaphalieae) and reveal many new taxa
Fig. 50. Distribution of Xerochrysum palustre.
Fig. 25 in There's gold in them thar hills! Morphology and molecules delimit species in Xerochrysum (Asteraceae; Gnaphalieae) and reveal many new taxa
Fig. 25. Distribution of Xerochrysum frutescens.
Fig. 23 in There's gold in them thar hills! Morphology and molecules delimit species in Xerochrysum (Asteraceae; Gnaphalieae) and reveal many new taxa
Fig. 23. Distribution of Xerochrysum copelandii.
Fig. 21 in There's gold in them thar hills! Morphology and molecules delimit species in Xerochrysum (Asteraceae; Gnaphalieae) and reveal many new taxa
Fig. 21. Distribution of Xerochrysum boreale.
Fig. 27 in There's gold in them thar hills! Morphology and molecules delimit species in Xerochrysum (Asteraceae; Gnaphalieae) and reveal many new taxa
Fig. 27. Distribution of Xerochrysum gudang.
Fig. 22 in There's gold in them thar hills! Morphology and molecules delimit species in Xerochrysum (Asteraceae; Gnaphalieae) and reveal many new taxa
Fig. 22. Distribution of Xerochrysum bracteatum.
Fig. 20 in There's gold in them thar hills! Morphology and molecules delimit species in Xerochrysum (Asteraceae; Gnaphalieae) and reveal many new taxa
Fig. 20. Distribution of Xerochrysum bicolor.
Fig. 19 in There's gold in them thar hills! Morphology and molecules delimit species in Xerochrysum (Asteraceae; Gnaphalieae) and reveal many new taxa
Fig. 19. Isotype of Xerochrysum berarngutta (I.R.Telford 12830 & L.M.Copeland, NE 83736).
Fig. 42 in There's gold in them thar hills! Morphology and molecules delimit species in Xerochrysum (Asteraceae; Gnaphalieae) and reveal many new taxa
Fig. 42. Distribution of Xerochrysum viscosum.
Fig. 18 in There's gold in them thar hills! Morphology and molecules delimit species in Xerochrysum (Asteraceae; Gnaphalieae) and reveal many new taxa
Fig. 18. Distribution of Xerochrysum berarngutta.
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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.