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FIGURE 9 in Molecular phylogenetics of snailfishes (Cottoidei: Liparidae) based on MtDNA and RADseq genomic analyses, with comments on selected morphological characters

FIGURE 9. Phylogeny of the genus Liparis, excluding L. fucensis depicted in Figure 8, from the majority rule (50%) consensus tree from the Bayesian inference of a 490 bp alignment of 270 cytochrome c oxidase subunit one gene (COI) sequences. Nodal values represent Bayesian posterior probabilities and bootstrap values from the maximum likelihood analysis (above and below, respectively). Species names are followed by a catalog number or BOLD "Sequence ID" number when represented by a sequence from a single specimen in our dataset. N indicates number of sequences, when multiple sequences support a branch tip. Only unique sequences were subjected to the analyses (Appendix Table 1); other identical sequences surveyed are listed in Appendix Table 2.

FIGURE 6 in Molecular phylogenetics of snailfishes (Cottoidei: Liparidae) based on MtDNA and RADseq genomic analyses, with comments on selected morphological characters

FIGURE 6. Majority rule (50%) consensus phylogenetic tree of Gardner et al. (2016, after fig. 4), derived from Bayesian inference and maximum parsimony analysis of a 492 bp alignment of cytochrome c oxidase subunit 1 gene (COI) sequences of 492 bp for 128 samples of 23 liparid species. Bootstrap values are above and Bayesian posterior probabilities are below branches that lead to multiple species. Tree is rooted with Liparis gibbus. Corrected identifications based on our study are in parentheses.

FIGURE 12 in Molecular phylogenetics of snailfishes (Cottoidei: Liparidae) based on MtDNA and RADseq genomic analyses, with comments on selected morphological characters

FIGURE 12. Phylogeny of selected eastern North Pacific liparids inferred using genome-wide restriction-site associated DNA sequences (RADseq; –p 28, –r 0.5) with maximum likelihood and Bayesian methods. Majority rule (50%) consensus tree of individual sequences. Nodal values represent Bayesian posterior probabilities and bootstrap values from the maximum likelihood analysis (above and below branches, respectively); double asterisks denote Bayesian posterior probabilities of 1 and bootstrap support of 100%. Species names are followed by the University of Washington Fish Collection catalog number for the specimen. Boldface species names indicate species placed in different positions in COI and RADseq trees.

FIGURE 4 in Molecular phylogenetics of snailfishes (Cottoidei: Liparidae) based on MtDNA and RADseq genomic analyses, with comments on selected morphological characters

FIGURE 4. Unrooted neighbor-joining tree of Steinke et al. (2009, after fig. 4), derived from cluster analysis of a 650 bp alignment of cytochrome c oxidase subunit 1 gene (COI) sequences for 78 samples of 19 liparid species. Bootstrap values>80 are above branches leading to multiple species. Corrected identifications based on our study are in parentheses.

FIGURE 2 in Molecular phylogenetics of snailfishes (Cottoidei: Liparidae) based on MtDNA and RADseq genomic analyses, with comments on selected morphological characters

FIGURE 2. Phylogenetic hypothesis of Balushkin (1996, after fig. 4), derived from a manual cladistic analysis of morphological data, including seven osteological and external characters, for 26 liparid genera.

FIGURE 1 in Molecular phylogenetics of snailfishes (Cottoidei: Liparidae) based on MtDNA and RADseq genomic analyses, with comments on selected morphological characters

FIGURE 1. Phylogenetic hypothesis of Kido (1988, after fig. 20), derived from a maximum parsimony analysis of morphological data, using 34 osteological and external characters, for 60 liparid species.

FIGURE 3 in Molecular phylogenetics of snailfishes (Cottoidei: Liparidae) based on MtDNA and RADseq genomic analyses, with comments on selected morphological characters

FIGURE 3. Majority-rule (50%) consensus tree of Knudsen et al. (2007, after fig. 3), derived from a Bayesian analysis of three combined datasets composed of mitochondrial DNA (16S and cytochrome b) and morphological data for 24 liparid species. Tree is rooted with species of the Cyclopteridae. Posterior probabilities are above branches.

FIGURE 5 in Molecular phylogenetics of snailfishes (Cottoidei: Liparidae) based on MtDNA and RADseq genomic analyses, with comments on selected morphological characters

FIGURE 5. Consensus phylogenetic tree of Duhamel et al. (2010, after fig. 3), derived from Bayesian and maximum parsimony analyses of a 668 bp alignment of cytochrome c oxidase subunit 1 gene (COI) sequences for 157 samples of 46 liparid species. Bayesian posterior probabilities are above branches that lead to multiple species. Tree is rooted with species of the Cyclopteridae and Zoarcidae. Corrected identifications based on our study are in parentheses.

FIGURE 8 in Molecular phylogenetics of snailfishes (Cottoidei: Liparidae) based on MtDNA and RADseq genomic analyses, with comments on selected morphological characters

FIGURE 8. Phylogeny of the Liparidae. Majority rule (50%) consensus tree from the Bayesian inference of a 490 bp alignment of 270 cytochrome c oxidase subunit one gene (COI) sequences. Nodal values represent Bayesian posterior probabilities and bootstrap values from the maximum likelihood analysis (above and below, respectively). Species names are followed by a catalog number or BOLD "Sequence ID" number when represented by a sequence from a single specimen in our dataset. N indicates number of sequences, when multiple sequences support a branch tip. Only unique sequences were subjected to the analyses (Appendix Table 1); other identical sequences surveyed are listed in Appendix Table 2. Clades Liparis, Aenigmoliparia, and Paraliparia are depicted in Figures 9, 10, and 11, respectively.

FIGURE 13 H–O in Molecular phylogenetics of snailfishes (Cottoidei: Liparidae) based on MtDNA and RADseq genomic analyses, with comments on selected morphological characters

FIGURE 13 H–O. Pectoral girdles of selected species of the Cyclopteridae and Liparidae: H) Prognatholiparis ptychomandibularis, UW 156749; I) Acantholiparis opercularis, UW 118624; J) Careproctus sp. cf. melanurus, UW 119240; K) Paraliparis dactylosus, UW 116232; L) Rhinoliparis attenuatus, UW 113736; M) P. cephalus, UW 117527; N) Paraliparis pectoralis, UW 117515; O) P. ulochir, UW 150802.

FIGURE 13 A–G in Molecular phylogenetics of snailfishes (Cottoidei: Liparidae) based on MtDNA and RADseq genomic analyses, with comments on selected morphological characters

FIGURE 13 A–G. Pectoral girdles of selected species of the Cyclopteridae and Liparidae: A) Eumicrotremus orbis, UW 111284; B) Nectoliparis pelagicus, UW 119455; C) Liparis gibbus, UW 119092; D) Crystallichthys cyclospilus, UW 47840; E) Careproctus macrodiscus, FAKU 137835; F) Careproctus marginatus, FAKU 144616; G) Careproctus roseofuscus, FAKU 144615

FIGURE 11 in Molecular phylogenetics of snailfishes (Cottoidei: Liparidae) based on MtDNA and RADseq genomic analyses, with comments on selected morphological characters

FIGURE 11. Phylogeny of the liparid clade Paraliparia from the majority rule (50%) consensus tree from the Bayesian inference of a 490 bp alignment of 270 cytochrome c oxidase subunit one gene (COI) sequences. Nodal values represent Bayesian posterior probabilities and bootstrap values from the maximum likelihood analysis (above and below, respectively). Species names are followed by a catalog number or BOLD "Sequence ID" number when represented by a sequence from a single specimen in our dataset. N indicates number of sequences, when multiple sequences support a branch tip. Only unique sequences were subjected to the analyses (Appendix Table 1); other identical sequences surveyed are listed in Appendix Table 2.

opennotspecifiedAug 2011View details →

Fig. 1 in Multilocus population analysis of Gavia immer (Aves: Gaviidae) mtDNA reveals low genetic diversity and lack of differentiation across the species breeding range

Fig. 1 Haplotype network constructed using the median joining method. Haplotype numbers are indicated. Circle patterns represent coastal sampling locations: GZ Galicia, Spain, MX Mexico, GE Germany, NJ New Jersey, US, MI Michigan, US, CA Canada, FL Florida, US. Circle surfaces are roughly proportional to the number of individuals with each haplotype (Table 3)

opennotspecifiedApr 2019View details →

FIG. 6. A majority-rule consensus gene tree reconstructed from mtDNA cytochrome oxidase 1 in Redescription and Recognition of Etheostoma cyanorum from Blue River, Oklahoma

FIG. 6. A majority-rule consensus gene tree reconstructed from mtDNA cytochrome oxidase 1 (CO1) sequence data obtained from the Barcode of Life Database (BOLD). Maximum-likelihood (ML) and Bayesian trees had identical topologies. Branch lengths are proportional to inferred mutations. Shading of lineages represents samples from E. whipplei (outgroup) in black, E. cyanorum in gray, and E. radiosum in white. ML bootstrap proportions/ Bayesian posterior probabilities are reported. See Data Accessibility for tree file.

Figure 4 in An extended mtDNA phylogeography for the alpine newt illuminates the provenance of introduced populations

Figure 4. Nucleotide diversity (π) across the natural distribution range of the alpine newt (Ichthyosaura alpestris) for the main mtDNA clades and at country-level, based on 651 bp of the mtDNA gene ND4. N/a means π could not be established because only a single individual was available. Background colour reflects the rough natural distribution of the mtDNA clades. Further details can be found in supplementary table S3.

Figure 3 in An extended mtDNA phylogeography for the alpine newt illuminates the provenance of introduced populations

Figure 3. Haplotype network for the alpine newt (Ichthyosaura alpestris) based on 651 bp of the mtDNA gene ND4. Pie

Figure 1 in An extended mtDNA phylogeography for the alpine newt illuminates the provenance of introduced populations

Figure 1. Distribution map for the alpine newt (Ichthyosaura alpestris). Background colour reflects the rough natural distribution of the mtDNA clades and symbols reflect sampled localities. The inset shows the Netherlands in more detail (lighter shading reflects uncertainty about the status of populations in the northeast of the country). Numbers refer to localities/regions mentioned in the text: 1 = Oudeland, 2 = Veluwe and 3 = Holterberg. Sampling information in supplementary table S1.

opennotspecifiedNov 2022View details →

Figure 1 in The limits of mtDNA analysis for determining the provenance of invasive species: a midwife toad example

Figure 1. Sampling of the common midwife toad (Alytes obstetricans). Samples from the Netherlands, Belgium and Germany were newly studied. The localities on the coast of the Netherlands (Meijendel and The Hague from top to bottom, enclosed by the pink dotted line) are introductions outside of the native range. Localities are color-coded according to the six major ND4 mtDNA clades, referred to as haplogroups by Gonçalves et al. (2015), to which they belong. Sampling details can be found in supplementary table S1.

Figure 2 in An extended mtDNA phylogeography for the alpine newt illuminates the provenance of introduced populations

Figure 2. Majority rule consensus Bayesian phylogeny for the alpine newt (Ichthyosaura alpestris) based on 651 bp of the mtDNA gene ND4. The outgroup is not shown. Spanish haplotypes are highlighted with an asterisk. Haplotype details can Downloaded from Brill.com 08/07/2024 04:58:17PM be found in supplementary table S1 and a moreviadetailed Open Access version. of Thisthisis an phylogenyopen is access availablearticlein supplementary distributed fig. underS1. the terms