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2,620 results for “Molecular Phylogeny”
Figure 5 in Molecular phylogeny of hinge-beak shrimps (Decapoda: Caridea: Rhynchocinetes and Cinetorhynchus) and allies: a formal test of familiar and generic monophyly using a multilocus phylogeny
Figure 5. Two-phase (above) and three-phase (below) phylogenetic analyses of maximum likelihood (ML) and Bayesian inference (BI) for representatives of the family Rhynchocinetidae using three genes. The software MUSCLE was used for sequence alignment The two phylogenetic trees resulted from the combined analysis of 12S, Histone (H3), and Enolase gene fragments of Rhynchocinetes (seven taxa and eight terminals), Cinetorhynchus (five taxa and 12 terminals), Lipkius (one taxon and two terminals), Eugonatonotus (one taxon) and outgroups. The general topology of the trees obtained from two-phase and three-phase ML and BI analyses was the same. The numbers above or below the branches represent the posterior probabilities from the BI analysis in MrBayes and bootstrap values obtained from ML analyses in TREEFINDER (ML/BI).
Figure 1 in A combined morphological and molecular phylogeny of the genus Chironius Fitzinger, 1826 (Serpentes: Colubridae)
Figure 1. Strict consensus of two most parsimonious trees derived from the maximum-parsimony (MP) analysis of the morphological data set. Numbers above and below branches refer to Bremer and bootstrap support values, respectively.
Figure 3 in A combined morphological and molecular phylogeny of the genus Chironius Fitzinger, 1826 (Serpentes: Colubridae)
Figure 3. Maximum-parsimony (MP) and maximum-likelihood (ML) analyses of combined morphological and molecular data sets: A, strict consensus of two most parsimonious trees; B, ML tree. Numbers above and below branches refer to Bremer and bootstrap support values, respectively.
Figure 2 in A combined morphological and molecular phylogeny of the genus Chironius Fitzinger, 1826 (Serpentes: Colubridae)
Figure 2. Maximum-likelihood (ML) tree derived from an analysis of the molecular data set. Numbers above and below branches refer to Bremer and bootstrap support values, respectively.
Figure 4 in Molecular phylogeny of the subterranean genus Niphargus (Crustacea: Amphipoda) in the Middle East: a comparison with European Niphargids
Figure 4. Species delimitation of Iranian Niphargus. BEAST tree as inferred from the COI, ITS, 28S and H3 gene sequences. Only a clade of 28 focal individuals is shown; the entire tree is given in Figure S1; posterior probabilities for nodes are indicated with circles. The time scale at the bottom has been obtained from an uncorrelated lognormal relaxed clock using the calibration points of Hou et al. (2011) and McInerney et al. (2014). Species-candidates as a result of species delineation using bPTP, GMYC and qualitative morphological data are indicated in boxes to the right side. Speciescandidates that received support within the multilocus framework are indicated with circles. Same labels are used for species delineation and node support: pp = 0.90–0.94 (white circles), pp = 0.95–0.99 (grey circles), pp = 1.00 (black circles).
Figure 1 in Molecular phylogeny of the subterranean genus Niphargus (Crustacea: Amphipoda) in the Middle East: a comparison with European Niphargids
Figure 1. Distribution of the genus Niphargus. The upper map is based on c. 10 000 records from the European Groundwater Crustacean Database (Zagmajster et al., 2014), and clearly indicates how unevenly the genus has been studied. The lower map shows the distribution map of the localities used in this study (Iran, Lebanon, Crimean Peninsula). The shaded areas show the hypothetical geographical range of two clades with representatives in Iran. Sampling localities and spatial distribution of two Niphargus clades in the Middle East, Crimean Peninsula and Transcaucasia are labelled as: 1, N. vadimi; 2, N. dimorphus; 3, N. tauricus; 4, Brolan Spring; 5, N. khwarizmi; 6, N. daniali; 7, Sohrevard Spring; 8, N. alisadri; 9, N. khayyami and new species from Ghori-Ghaleh Cave; 10, Sarab-e-Bisitun; 11, Nojivaran Spring; 12, Sarab-e-Niaz; 13, Razbashi Spring; 14, Sarab-e-Robat; 15, Shol-Abad Spring; 16, Ab-Rahmeh Spring; 17, Dimeh Spring; 18, Gholam-Abad Spring; 19, Sarab-e, Kanipahn; 20, Sarab-e-Moord; 21, Gahroo Spring; 22, Siah Spring; 23, Belqais Spring; 24, Tir-e-Bagh Spring; 25, Magharit Cave in Lebanon.
Figure 3. A phylogeny from a in Deciphering the diversity and history of New World nightjars (Aves: Caprimulgidae) using molecular phylogenetics
Figure 3. A phylogeny from a maximum-likelihood (ML) analysis of a concatenated 5298-bp molecular data set. The figure shows the Old World taxa in the basal genera Eurostopodus, Gactornis, and Lyncornis, as well as the members of the Old World crown clade. ML bootstrap values higher than 60 and Bayesian posterior probability values higher than 0.95 are displayed on the nodes. Names on the tree represent current taxonomy; names on the right represent those resulting from this revision (see text).
Figure 4 in A molecular phylogeny of the temperate Gondwanan family Pettalidae (Arachnida, Opiliones, Cyphophthalmi) and the limits of taxonomic sampling
Figure 4. Optimal phylogenetic hypothesis based on the ML partitioned analysis of the untrimmed data set aligned with MAFFT (logL = –56 209.799040). Numbers at nodes indicate bootstrap support values>50%; asterisks indicate 100% bootstrap support. Colours as in Figure 3.
Figure 1 in A molecular phylogeny of the temperate Gondwanan family Pettalidae (Arachnida, Opiliones, Cyphophthalmi) and the limits of taxonomic sampling
Figure 1. Habitus of live specimens: A, Pettalus thwaitesi, Sri Lanka, 18.vi.2004 [MCZ IZ-132349]; B, Chileogovea oedipus, Chile, 15.xi.2014 [MCZ IZ-138106]; C, Purcellia sp. nov., South Africa, 16.xii.2014 [MCZ IZ-49518]; D, Parapurcellia monticola, South Africa, 15.xi.2011 [MCZ IZ-134571]; E, Purcellia argasiformis, South Africa, 5.xi.2011 [Photo MCZ IZ- 134759]; F, Purcellia argasiformis, South Africa, 5.xi.2011 [MCZ IZ-134759]; G, Aoraki longitarsa, New Zealand, 20.i.2014 [MCZ IZ-29554]; H, Aoraki inerma, New Zealand, 12.i.2014 [MCZ IZ-29572]; I, Neopurcellia salmoni, New Zealand, 18.i.2014 [MCZ IZ-25981]; J, Rakaia magna australis, New Zealand, 17.i.2014 [MCZ IZ-29212]; K, Austropurcellia sp., Australia, v.2011[Photo DSC_2946]; L, Karripurcellia peckorum, Australia, 12.x.2011 [MCZ IZ-134720].
Figure 5 in A molecular phylogeny of the temperate Gondwanan family Pettalidae (Arachnida, Opiliones, Cyphophthalmi) and the limits of taxonomic sampling
Figure 5. Chronogram generated in BEAST, with the root calibrated at 445 Ma. Colours as in Figures 3 and 4.
Figure 2 in A molecular phylogeny of the temperate Gondwanan family Pettalidae (Arachnida, Opiliones, Cyphophthalmi) and the limits of taxonomic sampling
Figure 2. Generic sampling in the different former temperate Gondwanan landmasses: Sri Lankan Pettalus (cyan), Western Australian Karripurcellia (orange), South African Purcellia (blue) and Parapurcellia (crimson), New Zealand Aoraki (yellow), Neopurcellia (black) and Rakaia (grey), Chilean Chileogovea (red) and eastern Australian Austropurcellia (white).
Figure 6 in A molecular phylogeny of the temperate Gondwanan family Pettalidae (Arachnida, Opiliones, Cyphophthalmi) and the limits of taxonomic sampling
Figure 6. Summary of the generic relationships for the different analyses conducted. Colours as in Figures 3–5.
Figure 5 in A molecular and morphological reassessment of the phylogeny of the subfamily Ophioninae (Hymenoptera: Ichneumonidae)
Figure 5. Morphological synapomorphies of the three ophionine tribes. (A, B) details of the forewing of (A) Afrophion nubilicarpus and (B) Rhopalophion discinervus (both Ophionini) showing angled 1 m-cu and the short to long ramellus (arrow) in the disco-submarginal cell. (C, D) details of the postero-dorsal corner of pronotum showing the spiracular sclerite (arrow), occluded in (C) Enicospilus drakensbergi (Enicospilini) and fully exposed in (D) Afrophion nubilicarpus (Ophionini). (E, F) dorsal view of propodeum showing the basal transverse carina (arrows) in (F) Enicospilus gauldetmitchellorum (Enicospilini), and totally reduced in (E) Dictyonotus nigrocyaneus (Thyreodonini). (G, H) lateral view of the first metasomal tergites showing the latero-tergite 2, pendant below level of spiracle (arrow) in (G) Thyreodon atriventris (Thyreodonini) and folded in (H) Dicamptus maxipol (Enicospilini; pn, pronotum; ms, mesoscutum; mp, mesopleuron; t2, metasomal tergite 2).
Figure 4 in A molecular and morphological reassessment of the phylogeny of the subfamily Ophioninae (Hymenoptera: Ichneumonidae)
Figure 4. Combined CO1 + 28S trees, with (A) or without (B) the inclusion of morphological characters; highlighted are the genus-groups discussed in the text (X scale bars are mean nucleotide substitution rates per site, nodes with posterior probability, pp> 0.90 are considered as significant).
Figure 3. 28S in A molecular and morphological reassessment of the phylogeny of the subfamily Ophioninae (Hymenoptera: Ichneumonidae)
Figure 3. 28S phylogeny; highlighted are the genus-groups discussed in the text (X scale bars are mean nucleotide substitution rates per site, nodes with posterior probability, pp> 0.90 are considered as significant).
Figure 2 in A molecular and morphological reassessment of the phylogeny of the subfamily Ophioninae (Hymenoptera: Ichneumonidae)
Figure 2. CO1 phylogeny; highlighted are the genus-groups discussed in the text (X scale bars are mean nucleotide substitution rates per site, nodes with posterior probability, pp> 0.90 are considered as significant).
Figure 13 in Molecular phylogeny of interstitial Polycopidae ostracods (Crustacea) and descriptions of a new genus and four new species
Figure 13. Parapolycope setouchiensis sp. nov. A, B, D, F, male holotype (SUM-CO-2201); C, E, male paratype (SUM- CO-2202). A, right lateral view of upper lip; B, antennula (A1; arrowhead indicates inward bulge); B′, seta with comblike setulae of A1; C, antenna (A2) except exopodite; C′, exopodite of A2; D, mandibula; E, maxillula (Mxl); E′, precoxa of Mxl; E″, coxa of Mxl; F, fifth limb (L5); F′, one of the epipodites of L5. Abbreviations: ba, basis; cx, coxa; en, endopodite; ep, epipodite; ex, exopodite; pc, precoxa. Scale bar = 50 μm.
Figure 12 in Molecular phylogeny of interstitial Polycopidae ostracods (Crustacea) and descriptions of a new genus and four new species
Figure 12. Scanning electron micrographs of valves of Parapolycope setouchiensis sp. nov., internal lateral view, male paratype (SUM-CO-2203). A–F, right valve; G–L, left valve. A, anterodorsal bar and groove; B, anterior part of marginal infold; C, socket at dorsal end of hinge structure; D, posterodorsal bar of hinge structure; E, posterior element of hinge structure; F, ventral part of marginal infold; G, anterior part of marginal infold; H, anterodorsal bar and groove; I, knob at dorsal end of hinge structure; J, posterodorsal bar of hinge structure; K, posteroventral bar; L, ventral part of marginal infold.
Figure 8 in Molecular phylogeny of interstitial Polycopidae ostracods (Crustacea) and descriptions of a new genus and four new species
Figure 8. Kliecope mihoensis gen. et sp. nov., female paratype (SUM-CO-2191). A, left lateral view of upper lip; B, antennula; C, antenna except part of exopodite. Abbreviations: ba, basis; en, endopodite; ex, exopodite. Scale bar = 20 μm.
Figure 31 in Molecular phylogeny of interstitial Polycopidae ostracods (Crustacea) and descriptions of a new genus and four new species
Figure 31. Molecular phylogenetic trees based on 18S rDNA sequences. The numbers on branches indicate bootstrap values. A, maximum likelihood tree based on the data-specific model [TIM3 (transitional model 3) + I + G]; B, neighbourjoining tree, evolutionary distances were computed using the Tamura−Nei method and the units are the number of base substitutions per site; C, maximum parsimony tree, obtained using the subtree-pruning-regrafting algorithm (Nei & Kumar, 2000) with search level 1 in which the initial trees were obtained by the random addition of sequences (ten replicates). The most parsimonious tree, with a length of 638, is shown. Abbreviations: K., Kliecope gen. nov.; P., Parapolycope Klie, 1936; Pe., Polycopetta Chavtur, 1981; Pi., Polycopiella Chavtur, 1981; Po., Polycope Sars, 1866. Scale bar indicates substitutions per site.
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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.