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190 results for “molecular species delimitation”
Fig. 7 in Molecular and morphological approaches for species delimitation and hybridization investigations of two Cichla species
Fig. 7. Recognition and orientation sites of universal and species-specific primers within regions of the mitochondrial (COI) and nuclear (RAG1) genes of Cichla Bloch & Schneider, 1801 species.
Figs. 2, 3. Fig. 2 in Molecular and morphological approaches for species delimitation and hybridization investigations of two Cichla species
Figs. 2, 3. Fig. 2 (adapted of Kullander & Ferreira, 2006), body measures used for morphological analyses of Cichla Bloch & Schneider, 1801 individuals: Standard length (1); head length (2); snout length (3); length of the lower jaw (4); length of the upper jaw (5); orbit diameter (6); head height (7); body height (8); length of pectoral fin (9); length of the dorsal fin spines (10); length of the dorsal fin radius (11); length of caudal peduncle (12); caudal peduncle height (13); and inter-orbital width (14). Fig. 3 (adapted of Kullander & Nijssen 1989): meristic parameters included the following measures. Numbers of dorsal fin spines (ED); dorsal fin radius (RD); upper lateral line scales (LS); lower lateral line scales (LI); pectoral fin radius (RP); and anal fin radius (RA).
Linked collectors and determiners for: Applying n-dimensional hypervolumes for species delimitation: unexpected molecular, morphological, and ecological diversity in the Leaf-Toed Gecko Phyllodactylus reissii Peters, 1862 (Squamata: Phyllodactylidae) from northern Peru.
Natural history specimen data linked to collectors and determiners held within, "Applying n-dimensional hypervolumes for species delimitation: unexpected molecular, morphological, and ecological diversity in the Leaf-Toed Gecko Phyllodactylus reissii Peters, 1862 (Squamata: Phyllodactylidae) from northern Peru". Claims or attributions were made on Bionomia by volunteer Scribes, <a href="https://bionomia.net/dataset/4de18441-9329-474b-a4a0-dea3aaf1e1ee">https://bionomia.net/dataset/4de18441-9329-474b-a4a0-dea3aaf1e1ee</a> using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, <a href="https://gbif.org/dataset/4de18441-9329-474b-a4a0-dea3aaf1e1ee">https://gbif.org/dataset/4de18441-9329-474b-a4a0-dea3aaf1e1ee</a>. Formatted as a Frictionless Data package.
Linked collectors and determiners for: Revisiting the taxonomy and molecular systematics of Sesamia stemborers (Lepidoptera: Noctuidae: Apameini: Sesamiina): updated classification and comparative evaluation of species delimitation methods.
Natural history specimen data linked to collectors and determiners held within, "Revisiting the taxonomy and molecular systematics of Sesamia stemborers (Lepidoptera: Noctuidae: Apameini: Sesamiina): updated classification and comparative evaluation of species delimitation methods". Claims or attributions were made on Bionomia by volunteer Scribes, <a href="https://bionomia.net/dataset/0dedf555-acec-471d-a197-0a2cfe1a1329">https://bionomia.net/dataset/0dedf555-acec-471d-a197-0a2cfe1a1329</a> using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, <a href="https://gbif.org/dataset/0dedf555-acec-471d-a197-0a2cfe1a1329">https://gbif.org/dataset/0dedf555-acec-471d-a197-0a2cfe1a1329</a>. Formatted as a Frictionless Data package.
Figure 1 in Guidelines and quantitative standards to improve consistency in cetacean subspecies and species delimitation relying on molecular genetic data
Figure 1. Guidelines for studies of cetacean taxonomy based on genetic data.
Fig. 1 in Molecular and morphological approaches for species delimitation and hybridization investigations of two Cichla species
Fig. 1. Sample sites location in the Paraná and Tietê rivers, state of São Paulo, Brazil.
Supplementary datasets to: Molecular species delimitation and morphometry in the Melampus bidentatus (Panpulmonata, Ellobiidae) cryptic species complex
<p>The coffee bean snail <em>Melampus</em> <em>bidentatus</em> occurs in coastal salt marshes along the North American Atlantic and Gulf coasts and in the Caribbean. It was recently found that this large geographical span is actually occupied by a complex of three apparently cryptic species (preliminarily called "North", "South", and "Gulf") with partially overlapping distributions. Until now, it was not clear whether there are any morphological differences between the three species or which of the available names can be applied to e<span>ach </span>of the cryptic species. We used the already-known distribution patterns of the cryptic species as well as new barcode sequences to assign available names to the three cryptic species. We then compared morphological characters from 264 specimens using two approaches: an analysis based on 11 landmark points on the shell and another based on the entire shell outline. We were able to assign a nominal name to each of the three cryptic species: <em>Melampus</em> <em>bidentatus</em> for "North", <em>Melampus</em> <em>jaumei</em> for "South", and <em>Melampus</em> <em>gundlachi</em> for "Gulf". The morphometric analyses did not yield any diagnostic differentiating features; these cryptic species are hence diagnosable solely by genetic analysis but may phenotypically differ in some unseen internal features or in their physiology.</p>
Supplementary datasets to: Molecular species delimitation and morphometry in the Melampus bidentatus (Panpulmonata, Ellobiidae) cryptic species complex
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Molecular species delimitation of Sphagnum subgenus Subsecunda in Europe
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Morphometric and molecular evidence delimit six species in <em>Clematis reticulata</em> s.l. (Ranunculaceae: <em>Clematis</em> subg. <em>Viorna</em>)
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Data from: Molecular species-delimitation methods recover most song-delimited cicada species in the European Cicadetta montana complex
Molecular species delimitation is increasingly being used to discover and inform illuminate species level diversity and a number of methods have been developed. Here we compare the ability of two molecular species delimitation methods to recover song-delimited species in the Cicadetta montana cryptic species complex throughout Europe. Recent bioacoustics studies of male calling songs (pre-mating reproductive barriers) have revealed cryptic species diversity in this complex. Maximum likelihood and Bayesian phylogenetic analyses were used to analyze the mitochondrial genes COI and COII and the nuclear genes EF1α and period for thirteen European Cicadetta species as well as the closely related monotypic genus Euboeana. Two molecular species delimitation methods, general mixed Yule-coalescent (GMYC) and Bayesian Phylogenetics and Phylogeography (BPP), identified the majority of song-delimited species and were largely congruent with each other. None of the molecular delimitation methods were able to fully recover a recent radiation of four Greek species.
Data from: What have been and what can be delimited as species using molecular data under the multi-species coalescent model? A case study using Hercules beetles (Dynastes; Dynastidae)
Molecular species delimitation using the multi-species coalescent model has become common for statistically and objectively determining species limits. Empirical examples of how consistently different molecular data sets delimit the same level of divergence as species using coalescent-based methods are still lacking. I applied the method of molecular species delimitation in the Bayesian Phylogenetics and Phylogeography (BPP) program to study species delimitation in the divergence between populations and between putative species across four species of Hercules beetles. The quantity and variability of the molecular data affected species delimitation. A divergence that represented a late stage along the speciation continuum, e.g. between sympatric biological species, could be delimited by BPP by fewer and less variable loci than a recent divergence, e.g. between geographic populations. My results further indicated that the use of genomic data could even over-split geographically continuously distributed populations into species. I compared my results with those from other empirical studies and argue for the need of a thorough review of the kind of evolutionary entities, e.g. geographic populations versus morphologically distinct taxa, that have been designated as species and whether such designations are consistent among studies.
FIGURE 5. Corallium medea Bayer, 1964. Holotype, USNM 52512 in Coralliidae (Anthozoa: Octocorallia) from the INDEMARES 2010 expedition to north and northwest Spain (northeast Atlantic), with delimitation of a new species using both morphological and molecular approaches
FIGURE 5. Corallium medea Bayer, 1964. Holotype, USNM 52512. (A) Front, back and close-up view of colony. (B) Sclerites from cortex.
FIGURE 8. Corallium johnsoni Gray, 1860 in Coralliidae (Anthozoa: Octocorallia) from the INDEMARES 2010 expedition to north and northwest Spain (northeast Atlantic), with delimitation of a new species using both morphological and molecular approaches
FIGURE 8. Corallium johnsoni Gray, 1860. (A) NHM 1933.3. 13.55, “ front ” and “ back ” views of colony. (B) SMF 2426, view of colony, and sclerites from the autozooids.
FIGURE 3. Corallium occultum n in Coralliidae (Anthozoa: Octocorallia) from the INDEMARES 2010 expedition to north and northwest Spain (northeast Atlantic), with delimitation of a new species using both morphological and molecular approaches
FIGURE 3. Corallium occultum n. sp., holotype (MNCN 2.04 / 1128), Avilés Canyon System, Stn. DR 18. (A) Cortical sclerites. (B) Sclerites from the autozooids.
FIGURE 1 in Coralliidae (Anthozoa: Octocorallia) from the INDEMARES 2010 expedition to north and northwest Spain (northeast Atlantic), with delimitation of a new species using both morphological and molecular approaches
FIGURE 1. Map of the north of Spain showing the two sampling areas of the INDEMARES 2010 expedition. 1) Avilés Canyon System. 2) Galicia Bank. Modified from Altuna (2013).
FIGURE 2. Corallium occultum n in Coralliidae (Anthozoa: Octocorallia) from the INDEMARES 2010 expedition to north and northwest Spain (northeast Atlantic), with delimitation of a new species using both morphological and molecular approaches
FIGURE 2. Corallium occultum n. sp., Avilés Canyon System, Stn. DR 18. (A) Holotype, “ front ”, “ back ” and close views (MNCN 2.04 / 1128). (B) Paratype (MNCN 2.04 / 1129), Avilés Canyon System, Stn. DR 18, close view of cortical mounds. (C) Right image, paratype (MNCN 2.04 / 1130), Avilés Canyon System, Stn. DR 16. Arrows indicating siphonozooids.
FIGURE 7 in Coralliidae (Anthozoa: Octocorallia) from the INDEMARES 2010 expedition to north and northwest Spain (northeast Atlantic), with delimitation of a new species using both morphological and molecular approaches
FIGURE 7. Corallium cf. bayeri Simpson & Watling, 2011, Galicia Bank, Stn. DR 15. (A) View of colony. (B) Cortical sclerites; double club (uppermost right) seen in top down view. (C) Corallium niobe Bayer, 1964, Avilés Canyon System, Stn. DR 16. Note modification of axis resulting from the presence of a commensal worm.
FIGURE 4 in Coralliidae (Anthozoa: Octocorallia) from the INDEMARES 2010 expedition to north and northwest Spain (northeast Atlantic), with delimitation of a new species using both morphological and molecular approaches
FIGURE 4. (A) Cortical sclerites of Corallium occultum n. sp., paratype (MNCN 2.04 / 1130). (B) Box plots indicate the width, height, and width / height ratio of double clubs from Corallium johnsoni (Gray, 1860), NHM 1933.3. 13.55 and SMF 2426; Corallium medea Bayer, 1964, USNM 52512 (holotype) and USNM 52513 (paratype); Corallium occultum n. sp., MNCN 2.04 / 1128 (holotype) and MNCN 2.04 / 1130 (paratype). The box delimits the first and 3 rd quartile, the horizontal line represents the median, and the whiskers delimit values that are within 1.5 x the inter-quartile range; values outside that range are represented by circles and considered as statistical outliers. (C) Mean (± one standard error, n = 40) of width, height, and width / height ratio of double clubs. Means within a column (in small letter) followed by the same letter are not significantly different based on multiple comparisons (at alpha = 1 % significance level).
FIGURE 6 in Coralliidae (Anthozoa: Octocorallia) from the INDEMARES 2010 expedition to north and northwest Spain (northeast Atlantic), with delimitation of a new species using both morphological and molecular approaches
FIGURE 6. (A) Phylogenetic tree inferred by maximum likelihood, based on concatenated dataset (16s rRNA + 16s-nad2 + nad3-nad6). Tree topology inferred by Bayesian Inference is identical to the ML topology. Branch values correspond to bootstrap support for maximum likelihood (first) and Bayesian posterior probabilities (second). The gray arrow indicates the position of Corallium occultum sp. nov. Single (S) and multiple (M) threshold likelihood solutions to the GMYC model (center). The single threshold likelihood solution and the multiple threshold likelihood solution suggest 21 and 20 entities within Coralliidae, respectively. (B) Raindrop pits on axis and 8-radiates from Paracorallium japonicum (Kishinouye, 1903), ASIZ80266 in Clade I-A. (C) Non-retractable autozooids and long spindles from tentacles from Corallium abyssale Bayer, 1956, USNM 1164629 are common features for species in Clade I-B. (D) Circular pits on axis from Paracorallium inutile (Kishinouye, 1903), USNM 19935. (E) Corallium borneense Bayer, 1950, IK-2011-1542.
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Allen Brain Atlas
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Annotated Behaviour and Observability Dataset (ABODe)
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DANDI Archive for NWB datasets
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International Brain Laboratory public data
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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.