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242 results for “Maximum Likelihood”
FIGURE. Phylogram of Panus generated from Maximum likelihood analysis of ITS sequence data. Lentinus crinitus (MK408650) was selected as the outgroup taxon. Maximum likelihood bootstrap values greater than 60% are indicated above the nodes. The new record Panus similis (HKAS 121668) is in black bold. in Yunnan-Guizhou Plateau: a mycological hotspot
FIGURE. Phylogram of Panus generated from Maximum likelihood analysis of ITS sequence data. Lentinus crinitus (MK408650) was selected as the outgroup taxon. Maximum likelihood bootstrap values greater than 60% are indicated above the nodes. The new record Panus similis (HKAS 121668) is in black bold.
FIGURE 42. Maximum Likelihood consensus tree inferred from the 16S rDNA sequence alignment representing a in Monographic revision of the endemic Helix mazzullii De Cristofori & Jan, 1832 complex from Sicily and re-introduction of the genus Erctella Monterosato, 1894 (Pulmonata, Stylommatophora, Helicidae)
FIGURE 42. Maximum Likelihood consensus tree inferred from the 16S rDNA sequence alignment representing a possible reconstruction of Helicidae phylogeny. Initial trees for the heuristic search were obtained automatically. A GTR + Γ model (alpha= 0.29) was employed. The analysis involved 58 nucleotide sequences. All positions containing gaps and missing data were eliminated.
FIGURE 8a. Maximum Likelihood consensus tree inferred from a in Monographic revision of the endemic Helix mazzullii De Cristofori & Jan, 1832 complex from Sicily and re-introduction of the genus Erctella Monterosato, 1894 (Pulmonata, Stylommatophora, Helicidae)
FIGURE 8a. Maximum Likelihood consensus tree inferred from a combined dataset including partial sequences of the mitochondrial 16S rRNA and 12S rRNA and the nuclear ITS-2 genes. Numbers above branches represent bootstrap values.
FIGURE 7. Maximum likelihood tree for all 28 in Mud-packing frog: A novel breeding behaviour and parental care in a stream dwelling new species of Nyctibatrachus (Amphibia, Anura, Nyctibatrachidae)
FIGURE 7. Maximum likelihood tree for all 28 nominal species of Nyctibatrachus and an outgroup (Indirana sp.) based on mitochondrial 16S rRNA. Number at the branches indicate bootstrap values. Bootstrap values less than 50 are indicated with an asterisk. Area marked with grey belong to N. sanctipalustris clade.
FIGURE 2. Maximum Likelihood tree for 33 in Systematic status of Fejervarya (( Amphibia, Anura, Dicroglossidae) from South and SE Asia with the description of a new species from the Western Ghats of Peninsular India
FIGURE 2. Maximum Likelihood tree for 33 dicroglossid taxa based on 6879 bp of mitochondrial (16S and 12S) and nuclear genes (BDNF, Rhod, Tyr, RAG-1, RAG-2, NCX1, and CXCR4).
FIGURE 2. Phylogram generated from maximum likelihood analysis resulting from the combined ITS, tef1 and tub2 in Interesting Botryosphaeria (Botryosphaeriaceae) associated with Magnolia species in Thailand: Additions of two new host records with their lifestyles
FIGURE 2. Phylogram generated from maximum likelihood analysis resulting from the combined ITS, tef1 and tub2 sequence dataset. Related sequences of Botryosphaeria were obtained from Zhang et al. (2021). Cophinforma eucalypti (MFLUCC 11-0425) was selected as the outgroup taxon. Bootstrap values for maximum likelihood equal to or greater than 60% and bayesian posterior probabilities equal to or greater than 0.95 are placed above the branches. The newly generated sequences are indicated in red. Type and ex-type strains are in black bold. Species names and strain accession numbers are followed by the lifestyle (orange), the isolation source or host species (green) and country of origin (blue). The accepted species names (according to Zhang et al. 2021) are indicated to the left of each clade. The scale bar represents the expected number of changes per site. The tree was rooted to Cophinforma eucalypti (MFLUCC 11-0425). END: Endophytic; PAT: Pathogenic; SAP: Saprobic; UNK: Unknown.
Figure 12. Maximum likelihood phylogram computed for 18S in Litthabitellidae: a new family of the Truncatelloidea (Mollusca: Caenogastropoda)
Figure 12. Maximum likelihood phylogram computed for 18S sequences; bootstrap support and Bayesian posterior probabilities are shown when bootstrap supports>65%.
Figure 13. Maximum likelihood phylogram computed for H3 in Litthabitellidae: a new family of the Truncatelloidea (Mollusca: Caenogastropoda)
Figure 13. Maximum likelihood phylogram computed for H3 sequences; bootstrap support and Bayesian posterior probabilities are shown when bootstrap supports>65%.
Figure 2. Maximum likelihood phylogenetic tree topology derived from the combined 16S in Cryptic and widespread: a recipe for taxonomic misidentification in a freshwater crab species (Decapoda: Potamonautidae: Potamonautes sidneyi) as evident from species delimitation methods
Figure 2. Maximum likelihood phylogenetic tree topology derived from the combined 16S rRNA + COI sequence data, demonstrating the evolutionary relationships within the P. sidneyi s.l. species complex. Statistical support for nodes is provided as posterior probability values above nodes (> 0.95 PP) and bootstrap values below nodes (> 75%). An * or # denotes nodal relationships that were not supported (<0.95 PP/ <75%). Potamonautes sidneyi s.s. (clade 3) localities are marked with a dark blue triangle, while P. danielsi (clade 5) localities are marked by an orange square. The two new species, P. karooensis, (clade 2) and P. Ʋalles (clade 4), are marked by a light-blue circle and a green diamond, respectively. Specimens of P. barbarai are confined to clade 1.
FIGURE 2. Maximum likelihood tree inferred from the COI dataset with 1000 in Integrative redescription of the sucking millipede genus Dawydoffia Attems, 1953 with a description of a new species and a transfer to the family Hirudisomatidae (Diplopoda, Polyzoniida)
FIGURE 2. Maximum likelihood tree inferred from the COI dataset with 1000 bootstrap pseudoreplicates implementing the TN+I+G model. The red, blue and brown boxes indicate the polyzoniidan families.
FIGURE 3. Maximum likelihood tree using a in Where to set the bar? Recent descriptions inflate species number in South American toad-headed turtles (Mesoclemmys)
FIGURE 3. Maximum likelihood tree using a COI alignment (675 bp) expanding the alignment from Cunha et al. (2021, 2022). Sequences used by Cunha et al. (2021, 2022) in bold. Codes preceding taxon names are GenBank accession numbers. Nomenclature for genera follows TTWG (2021).
FIGURE 3. Maximum-Likelihood cytochrome b in A new lizard species of the Liolaemus kingii group (Squamata: Liolaemidae) from northwestern Chubut province (Argentina)
FIGURE 3. Maximum-Likelihood cytochrome b genealogy showing results of single-locus species delimitations. Circles on nodes indicate ultrafast bootstrap supports (black ≥ 95, gray ≥ 80 and ≤ 95, and white ≤ 80).
Figure 6. Best maximum likelihood phylogeny using a in Tales from the crypt: genome mining from fungarium specimens improves resolution of the mushroom tree of life
Figure 6. Best maximum likelihood phylogeny using a concatenated dataset of the 27 genes composing the best combination of top-ranked loci using five ranking criteria identified using measures of Tree Certainty (Salichos & Rokas, 2013). Numbers above branches (red) are bootstrap percentages based on the combined bootstrap replicates. Numbers below branches and adjacent to nodes indicate internode certainty (IC) and internode certainty all (ICA) values of the individual gene bootstrap trees compared with the best maximum likelihood tree depicted. Family/clade designations (fide Matheny et al., 2006 except 1 fide Henkel, Smith & Aime, 2010 and 2 fide Nakasone, Hibbett & Goranova, 2009) are indicated to the right of terminal labels and suborders are named with capital letters at the far right.
FIGURE 1. Maximum Likelihood tree generated from a combined dataset using ITS and 28S in A new species of Boletinellus (Boletinellaceae, Boletales) from India
FIGURE 1. Maximum Likelihood tree generated from a combined dataset using ITS and 28S sequences. Bootstrap values (>50 %) are indicated above/below branches. The new species is indicated in bold.
FIGURE 23. Maximum likelihood phylogenies for the Bubarida. A in The Sponges of the Carmel Pinnacles Marine Protected Area
FIGURE 23. Maximum likelihood phylogenies for the Bubarida. A: 28S locus, B: cox1 locus. Green clade designated the putative Bubarida; the orders and families currently housing each taxon is also shown. Genbank accession numbers are shown; bold indicates new sequences; asterisks designate type species. Node confidence is based on bootstrapping. Scale bar indicates substitutions per site. Colors indicate clades containing new taxa, as referenced in the text.
FIGURE 21. Maximum likelihood phylogenies for the Scopalinida. A in The Sponges of the Carmel Pinnacles Marine Protected Area
FIGURE 21. Maximum likelihood phylogenies for the Scopalinida. A: 28S locus, B: cox1 locus. Genbank accession numbers are shown; bold indicates new sequences. Node confidence is based on bootstrapping. Scale bar indicates substitutions per site.
FIGURE 18. Maximum likelihood phylogenies for the Halichondriidae. A in The Sponges of the Carmel Pinnacles Marine Protected Area
FIGURE 18. Maximum likelihood phylogenies for the Halichondriidae. A: 28S locus, B: cox1 locus. Genbank accession numbers are shown; bold indicates new sequences. Node confidence is based on bootstrapping. Scale bar indicates substitutions per site.
FIGURE 7. Phylogenetic maximum likelihood reconstruction using partial 28S in A new species of Cycloporus from the Adriatic Sea, with an updated phylogeny of the families Euryleptidae and Stylostomidae (Polycladida, Platyhelminthes)
FIGURE 7. Phylogenetic maximum likelihood reconstruction using partial 28S sequences (accession numbers in brackets) of polyclads, rooted with Macrostomum lignano; branches other than Euryleptidae and Stylostomidae collapsed. Bootstrap nodal support of 200 non-parametric bootstrap replicates. Full tree in Suppl. Mat. 2. Cycloporus pinkipus sp. n. marked in pink. Additional representatives of Cycloporus written in red. Representatives of Eurylepta written in light green. Branches of Euryleptidae in light green. Branches of Stylostomidae in light blue. Branches of Pseudocerotidae in purple. Scale bar indicates the number of substitutions per site.
indicate branches. above MrBayes numbers by inferred The . supports Ixodes of probability subgenera 22 posterior the of Inference 16 from Bayesian ticks of indicate genomes mitochondrial branches below 40 numbers of The sequences. RAxML nucleotide by the inferred from support inferred bootstrap Phylogenies Likelihood . 2 FIGURE Maximum in A new subgenus, Australixodes n. subgen. (Acari: Ixodidae), for the kiwi tick, Ixodes anatis Chilton, 1904, and validation of the subgenus Coxixodes Schulze, 1941 with a phylogeny of 16 of the 22 subgenera of Ixodes Latreille, 1795 from entire mitochondrial genome sequences
indicate branches. above MrBayes numbers by inferred The . supports Ixodes of probability subgenera 22 posterior the of Inference 16 from Bayesian ticks of indicate genomes mitochondrial branches below 40 numbers of The sequences. RAxML nucleotide by the inferred from support inferred bootstrap Phylogenies Likelihood . 2 FIGURE Maximum
FIGURE 2. Maximum likelihood phylogeny inferred from cox1 in Exploring gene sequences and phylogenetic relationships of four terrestrial planarian species (Platyhelminthes; Tricladida; Geoplanidae) in Europe
FIGURE 2. Maximum likelihood phylogeny inferred from cox1 sequences (dataset 1). Tree scale corresponds to the number of substitutions per site. Numbers at nodes correspond to the ultrafast bootstrap support values (showing only values from 70% to 100%). Countries of origin labelled as 3-digit alpha code: AUS (Australia), BRA (Brazil), ESP (Spain), FRA (France), GBR (UK), NZL (New Zealand), PAN (Panama). Results from species in this study are highlighted in red (Australopacifica atrata), blue (Artioposthia exulans), and green (Marionfyfea adventor).
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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.