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Figure 7. cox1 in Phylogeography of the endemic red-tailed cicadas of New Zealand (Hemiptera: Cicadidae: Rhodopsalta), and molecular, morphological and bioacoustical confirmation of the existence of Hudson's Rhodopsalta microdora

Figure 7. cox1 chronogram from the *BEAST multispecies coalescent analysis, showing divergence times for intraspecific haplotype clades as bars indicating the 95% highest posterior density intervals. Taxa with asterisks were missing cox1, and their positions within the species clades are determined by the EF1α gene tree.

opennotspecifiedJan 2015View details →

Fig. 2 Ultrametric tree showing the GMYC delimitation results obtained from the Cox1 in Focus on the details: morphological evidence supports new cryptic land flatworm (Platyhelminthes) species revealed with molecules

Fig. 2 Ultrametric tree showing the GMYC delimitation results obtained from the Cox1Del dataset. Threshold separating speciation and coalescent processes plotted as grey vertical line that delimits 18 entities (including 7 singletons)

opennotspecifiedAug 2021View details →

Fig. 4 in Complete plastome phylogeny and an update on cox1 intron evolution of Hyoscyameae (Solanaceae)

Fig. 4 An evolutionary scenario for the cox1 intron acquisitions in the tribe Hyoscyameae. Purple dots indicate mitochondrial cox1 intron acquisitions by horizontal gene transfer. The paraphyly of the genus Scopolia is supported by plastid and nuclear markers (see text and Fig. 3)

opennotspecifiedAug 2021View details →

Fig. 1 in Complete plastome phylogeny and an update on cox1 intron evolution of Hyoscyameae (Solanaceae)

Fig. 1 The chloroplast genome of Scopolia carniolica. Large and small single-copy regions (LSC and SSC, respectively) and inverted repeats (IR) are indicated. Genes inside and outside the circle indicate clockwise and counterclockwise transcription directions, respectively. Gene positions are color-coded according to functional categories of genes. The

opennotspecifiedAug 2021View details →

Fig. 3 in Complete plastome phylogeny and an update on cox1 intron evolution of Hyoscyameae (Solanaceae)

Fig. 3 Maximum likelihood phylogenetic trees of the tribe Hyoscyameae. A Tree based on the complete chloroplast genomes. The last inverted repeat region was removed to avoid sequence overrepresentation. The alignment length is 134,327 nt. B Tree based on nuclear ITS2 sequences. The seven individuals of Atropa

opennotspecifiedJul 2017View details →

FIGURE 1. cox1 in Morphological and molecular studies on Gelidiaceae and Gelidiellaceae (Gelidiales, Rhodophyta) from Brazil with description of the new species Gelidium calidum

FIGURE 1. cox1 Neighbor-Joining tree representing specimens of Gelidiales from Brazil. Bootstrap values for 2000 replicates are represented on the branches (only when higher than 60). Sequences of Brazilian specimens are in bold. Sequences with '*' were genereted in this study. GenBank accession numbers are in brackets followed by the collection site.

Figure 7 in Taxonomy of family Plakinidae (Porifera: Homoscleromorpha) from eastern Pacific coral reefs, through morphology and cox1 and cob mtDNA data

Figure 7. Scanning electron microscopy images of spicules and skeletal structure of Plakinastrella clippertonensis van Soest et al., 2011. A, diods. B, triods. C, simple calthrops. D, tangential view of the ectosome. E, transversal view of the choanosome.

Figure 5 in Taxonomy of family Plakinidae (Porifera: Homoscleromorpha) from eastern Pacific coral reefs, through morphology and cox1 and cob mtDNA data

Figure 5. Scanning electron microscopy and light microscopy images of spicules and skeletal structure of Plakortis clarionensis sp. nov. A, diods. B, triods. C, tangential view of the ectosome. D, transversal view of the choanosome.

Figure 4 in Taxonomy of family Plakinidae (Porifera: Homoscleromorpha) from eastern Pacific coral reefs, through morphology and cox1 and cob mtDNA data

Figure 4. Scanning electron microscopy and light microscopy images of spicules and skeletal structure of Plakina paradilopha sp. nov. A, diods. B, triods. C, dilophose calthrops. D, transversal view of the choanosome.

Figure 3 in Taxonomy of family Plakinidae (Porifera: Homoscleromorpha) from eastern Pacific coral reefs, through morphology and cox1 and cob mtDNA data

Figure 3. Scanning electron microscopy and light microscopy images of spicules and skeletal structure of Plakina muricyae sp. nov. A, diods. B, triods. C, calthrops. D, monolophose calthrops. E, transversal view of the choanosome.

Figure 6 in Taxonomy of family Plakinidae (Porifera: Homoscleromorpha) from eastern Pacific coral reefs, through morphology and cox1 and cob mtDNA data

Figure 6. Scanning electron microscopy images of spicules and skeletal structure of Plakortis albicans Cruz-Barraza & Carballo, 2005. A, diods and triods. B, tangential view of ectosomal alveolar skeleton. C, transversal view of the choanosome.

Figure 2 in Taxonomy of family Plakinidae (Porifera: Homoscleromorpha) from eastern Pacific coral reefs, through morphology and cox1 and cob mtDNA data

Figure 2. External morphologies of plakinid species from the eastern Pacific. A, B, Plakina muricyae sp. nov. C, i, Plakina paradilopha sp. nov.; ii, Plakina muricyae sp. nov. D, Plakortis clarionensis sp. nov. E, Plakortis albicans Cruz-Barraza & Carballo, 2005. F, Plakinastrella clippertonensis van Soest et al., 2011.

Figure 8 in Taxonomy of family Plakinidae (Porifera: Homoscleromorpha) from eastern Pacific coral reefs, through morphology and cox1 and cob mtDNA data

Figure 8. Phylogenetic reconstruction of cytochrome c oxidase subunit I (cox1; A) and cytochrome b (cob; B) mitochondrial markers. The topologies were obtained by Bayesian inference analysis with MrBayes. The number at each node represents the Bayesian posterior probability (%).

opennotspecifiedJan 2015View details →

Figure 4. Laqueoidea cox1 in Congruence and conflict: case studies of morphotaxonomy versus rDNA gene tree phylogeny among articulate brachiopods (Brachiopoda: Rhynchonelliformea), with description of a new genus

Figure 4. Laqueoidea cox1 tree. Best maximum-likelihood tree (GTR + invariant + gamma model) from RAxML with thorough bootstrap support (%), based on 1218 nucleotides of aligned sequences of the cox1 mitochondrial gene from 14 laqueoid in-group and six terebratulide out-group taxa. The sequences were aligned with no gaps. Nodes with no bootstrap support value attached are considered to be unsupported (bootstrap <50%) and may be collapsed.

FIGURE 2 in Molecular systematics of Jania species (Corallinales, Rhodophyta) from south-eastern Australia based on cox1 and psbA DNA sequence analyses

FIGURE 2. Bayesian phylogenetic tree of Jania species (Rhodophyta) based on cox1 gene with focus on specimens from south-eastern Australia. Numbers above branches represent posterior probabilities (values <0.5 were omitted). Some branches were shortened to fit the figure. Specimens sequenced in this study marked in bold and have their herbarium code identified. Colored columns indicate species delimitation methods results: ABGD; ASAP P (p-value partition), ASAP W (w rank partition); GMYC S (single-threshold), GMYC M (multiple-threshold); PTP B (Bayesian inference), PTP M (Heuristic or Maximum Likelihood); and SPN 95% and 99% of parsimony probability limit. Black column indicates the consensus across all species delimitation results. Numbers below to each column indicate the total number of species partitions for each method or the consensus. Jania squamata in the PTP B result was divided into three different species.

FIGURE 3 in Molecular systematics of Jania species (Corallinales, Rhodophyta) from south-eastern Australia based on cox1 and psbA DNA sequence analyses

FIGURE 3. Maximum likelihood phylogeny of Jania species based on psbA gene focusing on specimens from south-eastern Australia. Numbers above branches represent non-parametric bootstrap support (values <70 omitted). Species names are followed by GenBank accession number and specimen locality (for sequences downloaded from GenBank), or species name, herbarium codes for all specimens sharing that particular haplotype, and specimen locality (marked in bold for sequences produced in this study). Scale bar = substitutions per site.

FIGURE 1 in Molecular systematics of Jania species (Corallinales, Rhodophyta) from south-eastern Australia based on cox1 and psbA DNA sequence analyses

FIGURE 1. Maximum likelihood phylogenetic tree of Jania species (Rhodophyta) based on cox1 gene with focus on specimens from south-eastern Australia. Numbers above branches represent non-parametric bootstrap support (values <70 omitted). Tree tip names are composed by species name, GenBank accession number and specimen locality (for sequences downloaded from GenBank), or species name, herbarium code for all sequenced specimens presented by that sequence, and specimen locality (for sequences produced in this study, all marked in bold). Scale bar = substitutions per site.

FIGURE 4 in Molecular systematics of Jania species (Corallinales, Rhodophyta) from south-eastern Australia based on cox1 and psbA DNA sequence analyses

FIGURE 4. Bayesian phylogenetic tree of Jania species based on psbA gene with focus on specimens from south-eastern Australia. Numbers above branches represent posterior probabilities (values <0.5 omitted). Specimens sequenced in this study are marked in bold and have their herbarium code identified. Colored columns indicate species delimitation results: ABGD; ASAP P (p-value partition), ASAP W (w rank partition); GMYC S (single-threshold), GMYC M (multiple-threshold); PTP B (Bayesian inference), PTP M (Heuristic or Maximum Likelihood); and SPN 95% and 99% of parsimony probability limit. Black column indicates the consensus across all species delimitation results. Numbers below each column indicate the total number of species partitions for each method, including the consensus.

FIGURE 5 in Molecular systematics of Jania species (Corallinales, Rhodophyta) from south-eastern Australia based on cox1 and psbA DNA sequence analyses

FIGURE 5. Maximum likelihood phylogenetic tree of Corallina species based on psbA DNA sequences. Numbers above branches represent non-parametric bootstrap support. Values <50 were omitted. Species names are followed by GenBank accession number. South-eastern Australian sequences produced in this study are marked in bold. Bossiella, Calliarthron and Arthrocardia were used as outgroups.