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9 results for “MrBayes”
FIGURE 2. Overview tree for the COI gene fragment. Bayesian inference tree using MrBayes 3.2.7a in The Oracle of Delphi-a molecular phylogenetic approach to Greek Cordulegaster Leach in Brewster, 1815 (Odonata: Anisoptera: Cordulegastridae)
FIGURE 2. Overview tree for the COI gene fragment. Bayesian inference tree using MrBayes 3.2.7a using the best-fit model (GTR+I+G) identified with JModeltest 2.1.10. Bayesian posterior probabilities values are depicted at the nodes. Included are our own sequences (PCR number next to the name) and those retrieved from GenBank (accession numbers next to the name), if specimens identify different taxa in the COI and ITS analysis they are considered hybrids. Haplotype analysis (TCS-network made in PopART 1.7) is shown in Figs. 5 and 6.
FIGURE 3. Overview tree from the ITS gene fragment. Bayesian inference tree using MrBayes 3.2.7a in The Oracle of Delphi-a molecular phylogenetic approach to Greek Cordulegaster Leach in Brewster, 1815 (Odonata: Anisoptera: Cordulegastridae)
FIGURE 3. Overview tree from the ITS gene fragment. Bayesian inference tree using MrBayes 3.2.7a using the best-fit model (HKY+G) identified with JModeltest 2.1.10. Bayesian posterior probabilities values are depicted at the nodes. Included are our isolated sequences (PCR number next to the name) and those retrieved from GenBank (accession numbers next to the name), if specimens identify different taxa in the COI and ITS analysis they are indicated hybrids.
FIGURE 1. ITS rDNA phylogenetic tree obtained with MrBayes v. 3.2.1 in Scleroderma furfuraceum (Boletales, Agaricomycetes)-a new species from the Russian Far East
FIGURE 1. ITS rDNA phylogenetic tree obtained with MrBayes v. 3.2.1 (Ronquist et al. 2012) under GTR+I+G model for 1 M generations. Posterior probability values are indicated on the branches. Novel species is indicated in a bold font in the green box; type specimen is indicated with an asterisk (*). GenBank accession numbers of sequences are indicated after the species names.
FIGURE 20. Phylogenetic relationship among selected Dryocosmus and Chilaspis species based COI sequences resolved using with MrBayes 3.2.6 in Discovery of a new species of Dryocosmus Giraud, 1859 (Hymenoptera: Cynipidae: Cynipini) on Castanopsis tibetana from China
FIGURE 20. Phylogenetic relationship among selected Dryocosmus and Chilaspis species based COI sequences resolved using with MrBayes 3.2.6 (Ronquist et al. 2012). Two independent MCMC runs were run with the following parameters: 10 million gens, nst = 6, rates = gamma, sample frequency = 1/1,000, burn-in = 30%, and otherwise default. The length of the branches is drawn to scale of genetic distance and the number over branches is posterior probability. (Generic name abbreviations: A. = Andricus, Ch. = Chilaspis, D. = Dryocosmus)
FIGURE 4. trnK-matK mrBayes 50 in Wadithamnus, a new monotypic genus in Amaranthaceae
FIGURE 4. trnK-matK mrBayes 50% majority-rule consensus tree. Bayesian posterior probabilities and maximum likelihood bootstrap are given above and below the branches respectively. An arrow indicates the position of Aerva artemisioides; major clades within Amaranthaceae are labeled on the right.
FIGURE 3. ITS mrBayes 50 in Wadithamnus, a new monotypic genus in Amaranthaceae
FIGURE 3. ITS mrBayes 50% majority-rule consensus tree. Bayesian posterior probabilities and maximum likelihood bootstrap values are given above and below the branches respectively. An arrow indicates the position of Aerva artemisioides; major clades within Amaranthaceae are labeled on the right.
Figure 1. A, molecular phylogeny from MrBayes. Node labels are posterior probability support values. B in A new lineage of deep-reef gobies from the Caribbean, including two new species and one new genus (Teleostei: Gobiidae: Gobiosomatini)
Figure 1. A, molecular phylogeny from MrBayes. Node labels are posterior probability support values. B, time-calibrated tree from BEAST. Node bars are 95% highest posterior densities for age estimates. Coloured taxa are new species. Colored circles in B refer to the placement of fossil calibration points 1 through 4.
FIGURE 1. MrBayes phylogram inferred from incomplete internal transcribed spacer rDNA sequence data. Choiromyces meandriformis and C in A new species of Tuber (Tuberaceae, Pezizales) from Inner Mongolia, China
FIGURE 1. MrBayes phylogram inferred from incomplete internal transcribed spacer rDNA sequence data. Choiromyces meandriformis and C. alveolatus were used to root the tree. The same outcome was shown via Maximum Likelihood. On each branch, Bayesian posterior probability values (PP> 0.75) and maximum likelihood bootstrap values (MLbs> 75%) are displayed. The new species sequences are denoted by an asterisk (*). Different colours are used to represent the six primary Tuber phylogroups. Our findings establish T. mongolicum sp. nov. based on phylogenetic studies as well as morphological observations.
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
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