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Figure 3 in A completely resolved phylogenetic tree of British spiders (Arachnida: Araneae)
Figure 3. Selected ecological and conservation biological variables mapped onto the phylogenetic tree of British spiders. The abundance indicates the number of occupied hectads, with a 1% depreciation per year since the latest record. The recency of the observations is indicated as the median year of the latest record per hectad. The northern distribution is indicated by the median distance of the occupied hectads from the southern edge of the British Ordnance Survey national grid. The Vulnerability Index is 1 minus the quantile of the average of the recency quantile and the abundance quantile for each species. Higher values indicate species that are reported from only a small number of hectads and have few or no recent records; low values indicate species that are widespread and have often been recorded recently. The Contraction Index is the quantile of the difference between the abundance and recency quantiles. Higher values indicate widespread species with relatively few recent records; low values indicate highly localised species that have nevertheless a large fraction of recent records (e.g., new arrivals and expanding species). The clades highlighted in colour are discussed in more detail in the text. The order of columns (from left to right) follows the order of the legends (from top to bottom). Based on data provided by the UK Spider Recording Scheme.
Fig. 3. Bayesian phylogenetic tree using the 12S in Characterization of aortic and brachiocephalic filariasis by Filarioidea sp (Nematoda:Spirurida:Filarioidea) in Mexican ramphastids
Fig. 3. Bayesian phylogenetic tree using the 12S mitochondrial sequences for different species of filariae. The number of the nodes indicate the values of support or posterior probability.
Fig. 5. Maximum likelihood phylogenetic tree inferred from nucleotide sequence data from mitochondrial 16S in A herpetological survey of western Zambia
Fig. 5. Maximum likelihood phylogenetic tree inferred from nucleotide sequence data from mitochondrial 16S rRNA of Phrynobatrachus natalensis. Numbers above branches are non-parametric bootstrap support values. Specimen vouchers or GenBank accession numbers are shown in parentheses. Colored polygons highlight the clades comprising specimens from this study. (*) Nearest sample from type locality of Phrynobatrachus natalensis; (**) Haplotype groups A and B in Zimkus and Schick (2010).
Fig. 3. Evolutionary analysis conducted through a neighbor-joining phylogenetic tree between the cox1 in Detection of maize bushy stunt phytoplasma in leafoppers collected in native corn crops grown at high elevations in southeast Mexico
Fig. 3. Evolutionary analysis conducted through a neighbor-joining phylogenetic tree between the cox1 mini-barcode sequences obtained for the red speckled nymphs and Idiodonus wickhami (Hemiptera: Cicadellidae) (both marked with a circle) with reference sequences from GenBank. Bar 5 substitution in 100 positions.
Fig. 4. Evolutionary analysis conducted through a neighbor-joining phylogenetic tree between the 16S in Detection of maize bushy stunt phytoplasma in leafoppers collected in native corn crops grown at high elevations in southeast Mexico
Fig. 4. Evolutionary analysis conducted through a neighbor-joining phylogenetic tree between the 16S rRNA sequences amplified in this study from phytoplasma DNA, bar 1 substitution in 100 positions. Sequences in the grey square belong to the subgroup 16SrI-B. Sequences amplified from leafoppers (Hemiptera: Cicadellidae) Dalbulus elimatus marked with a circle and from Idiodonus wickhami marked with a square.
Fig. 5. Phylogenetic tree depicting inferred genetic relationships among Leucocytozoon mitochondrial DNA cytochrome b in Negligible evidence for detrimental effects of Leucocytozoon infections among Emperor Geese (Anser canagicus) breeding on the Yukon-Kuskokwim Delta, Alaska
Fig. 5. Phylogenetic tree depicting inferred genetic relationships among Leucocytozoon mitochondrial DNA cytochrome b haplotypes identified from blood samples collected from Emperor Geese inhabiting the Yukon-Kuskokwim Delta, Alaska during 2006–2016 and those previously reported for closely related haemosporidian morphospecies on the National Center for Biotechnology Information GenBank and Malavi databases (accession IDs in parentheses). Bars to the right of tree represent the assignment of sequences to L. simondi clade A (teal), L. simondi clade B (orange), or other Leucocytozoon. (For interpretation of the references to colour in this figure legend, the reader is referred to the Web version of this article.)
Fig. 4. Phylogenetic tree depicting inferred genetic relationships among Haemoproteus mitochondrial DNA cytochrome b in Negligible evidence for detrimental effects of Leucocytozoon infections among Emperor Geese (Anser canagicus) breeding on the Yukon-Kuskokwim Delta, Alaska
Fig. 4. Phylogenetic tree depicting inferred genetic relationships among Haemoproteus mitochondrial DNA cytochrome b haplotypes identified from blood samples collected from Emperor Geese inhabiting the Yukon-Kuskokwim Delta, Alaska during 2006–2016 and those previously reported for closely related haemosporidian morphospecies on the National Center for Biotechnology Information GenBank and Malavi databases (accession IDs in parentheses).
Fig. 9. Strict consensus tree from phylogenetic analysis under extended implied weighting with 21 in New postcranial remains of large toxodontian notoungulates from the late Oligocene of Mendoza, Argentina and their systematic implications
Fig. 9. Strict consensus tree from phylogenetic analysis under extended implied weighting with 21 different values of k.
Fig. 8. Consensus trees from phylogenetic analyses under equal weights. A. Strict consensus tree. B. Reduced consensus tree. a in New postcranial remains of large toxodontian notoungulates from the late Oligocene of Mendoza, Argentina and their systematic implications
Fig. 8. Consensus trees from phylogenetic analyses under equal weights. A. Strict consensus tree. B. Reduced consensus tree. a, Martinmiguelia fernandezi; b, Taubatherium paulacoutoi; c, Ancylocoelus frequens; d, Huilatherium pluriplicatum; e, Asmodeus petrasnerus; f, Colpodon antucoensis + C. propinquus.
Fig. 2. Phylogenetic tree created using a in Dirofilaria immitis and Dirofilaria striata (Spirurida: Onchocercidae) detected in wild carnivores from Texas, United States
Fig. 2. Phylogenetic tree created using a maximum likelihood method (2000 bootstrap replicates) showing the relationship of identified Dirofilaria immitis and one isolate of Dirofilaria striata. Brugia pahangi sequence was used as outgroup.
Fig. 4. A. Strict consensus trees for 8638 trees 413 in Phylogenetic position of the crocodylian Megadontosuchus arduini and tomistomine palaeobiogeography
Fig. 4. A. Strict consensus trees for 8638 trees 413 steps long derived from the analysis including Megadontosuchus arduini. The geographic range of tomistomines is abbreviated as follows: CE, Central Europe; EA, Eastern Asia; NA, North America; NAf, Northern Africa; SEA, South Eastern Asia; WE, Western Europe; NWE, North Western Europe. Consensus statistics: tree length (L) = 430; consistency index (CI) = 0.4581; homoplasy index (HI) = 0.5419; CI excluding uninformative characters = 0.4261; HI excluding uninformative characters = 0.5739; retention index (RI) = 0.7272; rescaled consistency index (RC) = 0.3331. B. Strict consensus topology for 4344 trees 409 steps long derived from the analysis excluding M. arduini. Consensus statisics: L = 416; CI = 0.4712; HI = 0.5288; CI excluding uninformative characters = 0.4388; HI excluding uninformative characters = 0.5612; RI = 0.7406; RC = 0.3489. C. Adams consensus tree derived from the 47 taxa matrix.
Figure 2. Majority rule consensus tree for the 16S in Genus Baseodiscus (Nemertea: Heteronemertea): Molecular identification of a new species in a phylogenetic context
Figure 2. Majority rule consensus tree for the 16S rRNA data resulting from the Bayesian analysis (model GTR+G+I), 1,000,000 generations. Numbers refer to posterior probabilities.
Fig. 3a-c in New Tools for Phylogenetic reconstruction using character state trees
Fig. 3a-c: A CST with the same structure as the one of fig. 1. The paths to the root of the states D (3a) and G (3b) are accentuated, as well as the elements of the set SDG (fig. 3c, see eq. 1).
Fig. 1 in New Tools for Phylogenetic reconstruction using character state trees
Fig. 1 (from LORENZ 1941): Resulting tree out of a species/characters-matrix of 48 mainly behavioural characters from twenty Anatid species (in fact, this graphic is matrix and tree in one).
Fig. 4a-b in New Tools for Phylogenetic reconstruction using character state trees
Fig. 4a-b: (a) Cladogram for five species (the tips T1 to T5) and the character which is coded in fig. 2b as CST. The inner nodes of the cladogram are hypothetical species. Their character state is reconstructed by the algorithm described in the text. Prominent branches denote an evolutionary step (a change of state). (b) Bifurcation of a cladogram with the character coded in fig. 3.
Fig. 2a-c in New Tools for Phylogenetic reconstruction using character state trees
Fig. 2a-c: The same character state tree with Camin – Sokal (a) and Matrioshka (b) coding, and (c) as a combination of three subcharacters (factors), each one with two states.
Fig. 1 in New Tools for Phylogenetic reconstruction using character state trees
Fig. 1: Evolution of the ovipositor and the ootheca of Dictyoptera (Insecta) as an example of a relatively complex character state tree (based on data of GRIMALDI & ENGEL 2005 and EHRMANN 2002). Each node of the tree corresponds to an observed character state.
Fig. 44. Tree topology taken from figure 43 in Freshwater Stingrays Of The Green River Formation Of Wyoming (Early Eocene), With The Description Of A New Genus And Species And An Analysis Of Its Phylogenetic Relationships (Chondrichthyes: Myliobatiformes)
Fig. 44. Tree topology taken from figure 43 (strict consensus tree) with ambiguous characters mapped (numbered as in text and matrix in table 5, unambiguous characters in fig. 43). Some of the characters are ambiguous because they are scored as uncertain in Hexatrygon (characters 4 and 21) and in Myliobatis (character 16); these are displayed conservatively on the tree (i.e., it is not simply assumed that they will be found in these taxa). Other characters have more than one equally parsimonious optimization (characters 3, 20, 32, 43), whereas others are scored as uncertain in the Green River stingrays (characters 12, 22, and 44). The optimization chosen in both of these cases is accelerated transformation, favoring reversals over independent gains. Characters denoted with an asterisk (*) are part of multistate transformation series that have unambiguous character states in figure 43.
Fig. 3. The simplified phylogenetic tree modified from Figs. 1 & 2 in Systematics of the family Ocypodidae Rafinesque, 1815 (Crustacea: Brachyura), based on phylogenetic relationships, with a reorganization of subfamily rankings and a review of the taxonomic status of Uca Leach, 1814, sensu lato and its subgenera
Fig. 3. The simplified phylogenetic tree modified from Figs. 1 & 2, with number of species beside or below the taxa/group. The gray boxes mean the genera are not fiddler crabs.
Text-fig. 3. Phylogenetic relationship of Peignecyon felinoides n. gen. et n. sp., within some selected Amphicyonidae, and some extinct caniform carnivorans. Paramiacis exilis is the outgroup. Searches were performed by means of the Branch and Bound and a Bootstrap analysis through 1,000 replicates. One tree is obtained (length 73 steps, consistency index (CI) = 0.6301, retention index (RI) = 0.7000). The numbers below nodes are Bremer indices, and the numbers above nodes are Bootstrap support percentages (only shown ≥ 50). in A New Thaumastocyoninae (Amphicyonidae, Carnivora) From The Early Miocene Of Tuchořice, The Czech Republic
Text-fig. 3. Phylogenetic relationship of Peignecyon felinoides n. gen. et n. sp., within some selected Amphicyonidae, and some extinct caniform carnivorans. Paramiacis exilis is the outgroup. Searches were performed by means of the Branch and Bound and a Bootstrap analysis through 1,000 replicates. One tree is obtained (length 73 steps, consistency index (CI) = 0.6301, retention index (RI) = 0.7000). The numbers below nodes are Bremer indices, and the numbers above nodes are Bootstrap support percentages (only shown ≥ 50).
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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.