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Fig 5 in Multigene phylogeny reveals a new Iranian earthworm genus (Lumbricidae: Philomontanus) with three new species

Fig 5. Sampling sites of new species. (A1, A2) Mazandaran, Abbasabad (36.72 o N; 51.11o E), Elburz Mountains, sampling site of Philomontanus sarii sp. nov. (B1, B2) Kurdistan, Kamyaran (35.49o N; 46.35o E), Zagros Mountains, sampling site of Philomontanus baloutchi sp. nov. (C1, C2) Kurdistan, Baneh (35.99o N; 45.88o E), Zagros Mountains, sampling site of Philomontanus mahmoudi sp.nov. https://doi.org/10.1371/journal.pone.0208904.g005

Fig 3 in Multigene phylogeny reveals a new Iranian earthworm genus (Lumbricidae: Philomontanus) with three new species

Fig 3. Ventrolateral view of the Philomontanus species. Arrows point to tubercula pubertatis A. Philomontanus sarii sp. nov. B. Philomontanus mahmoudi sp. nov. C. Philomontanus baloutchi sp. nov.. https://doi.org/10.1371/journal.pone.0208904.g003

Fig 4 in Multigene phylogeny reveals a new Iranian earthworm genus (Lumbricidae: Philomontanus) with three new species

Fig 4. Diagram of external morphology of the Philomontanus species. Yellow, Spermathecae Blue, Male pore Brown, Clitellum Green, Tubercula pubertatis Orange, Variation of Tubercula pubertatis. https://doi.org/10.1371/journal.pone.0208904.g004

Fig 1 in Multigene phylogeny reveals a new Iranian earthworm genus (Lumbricidae: Philomontanus) with three new species

Fig 1. Study area in the Zagros and Elburz Mountains of Iran (This map is originally created by first author, using ArcGIS, Mapping & Analytical platform. Red, Type locality of Philomontanus sarii sp. nov, Elburz Mountains. Green, Type locality of Philomontanus mahmoudi sp. nov, Zagros Mountains. Blue, Type locality of Philomontanus baloutchi sp. nov, Zagros Mountains. https://doi.org/10.1371/journal.pone.0208904.g001

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Fig. 2. The red algal phylogenomic approaches. A. Concatenated multigene phylogeny using 170 in Algal genomics perspective: the pangenome concept beyond traditional molecular phylogeny and taxonomy

Fig. 2. The red algal phylogenomic approaches. A. Concatenated multigene phylogeny using 170 plastid genes (Muñoz-Gómez et al., 2017). B. Concatenated multigene phylogeny using 4,777 nuclear genes (Lee et al., 2019). C. Intertwining phylogenetic network tree of red algal plastid and nuclear multigene phylogenies.

opencc-by-4.0Dec 2012View details →

Fig. 1 in Phylogenetic Analyses on the Tintinnid Ciliates (Protozoa, Ciliophora) Based on Multigene Sequence Data

Fig. 1. Alignment of the ITS1-5.8S-ITS2 regions from ten reference tintinnid species: Tintinnopsis sp. 1, Tintinnopsis sp. 2, Tintinnopsis sp. 3, T. cylindrica, T. tubulosoides, T. lohmanni, Stenosemella nivalis, Codonellopsis nipponica, Favella campanula, F. taraikaensis, F. ehrenbergii, Metacylis angulata, Eutintinnus pectinis, and Amphorellopsis acuta. Agreement with other sequences is indicated by periods and disagreement by a nucleotide at a position. Gaps introduced to improve the alignment are indicated by dashes. The insertion in ITS1 of F. campanula is labeled. The ITS1 and ITS2 region sequences are shaded; the 5.8S gene sequence is unshaded.

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Figs 3–5 in Phylogenetic Analyses on the Tintinnid Ciliates (Protozoa, Ciliophora) Based on Multigene Sequence Data

Figs 3–5. Phylogenetic analyses and photomicrographs in this work. 3, 4 – phylogenetic analyses inferred by ML of internal transcribed spacer (ITS) and 5.8S region sequences and small subunit rDNA sequences. Topologies of trees constructed with other methods (BI, MP, or NJ) were essentially identical, lacking only a few nodes indicated by asterisks in the support values. Posterior probability values for branches of the ML tree and bootstrap values for ML, NJ, and MP trees, respectively, are given on nodes. Newly sequenced species are highlighted in bold. Scale bar in 3 corresponds to 10 substitutions per 100 nucleotide positions, scale bar in 4 corresponds to 5 substitutions per 100 nucleotide positions. 5 – photomicrographs of nine of the 10 newly sequenced tintinnid species in vivo: A – Amphorellopsis acuta; B – Favella taraikaensis; C – F. campanula; D – Tintinnopsis sp. 2; E – Stenosemella nivalis; F – Codonellopsis nipponica; G – Tintinnopsis sp. 3; H – T. lohmanni and I – T. cylindrica. Scale bars: 25 μm.

Fig 2 in Multigene phylogeny reveals a new Iranian earthworm genus (Lumbricidae: Philomontanus) with three new species

Fig 2. DNA maximum likelihood phylogenetic tree. Bootstrap proportions (if P>70%) and Bayesian posterior probabilities (if P>95%) are shown above and below the branches, respectively. The Philomontanus exemplars from each of the three morphological groups are shown in red.

FIG. 5. — Rhytidhysteron subrufulum X.-L in Multigene phylogenetic support for novel Rhytidhysteron Speg. species (Hysteriaceae) from Sichuan Province, China

FIG. 5. — Rhytidhysteron subrufulum X.-L. Xu & C.-L. Yang, sp. nov. (holo-, SICAU19-0010): A, appearance of apothecia on host; B, C, ascomata; D, vertical section of hysteriothecium; E, exciple; F, G, pseudoparaphyses; H-M, asci; N, ocular chamber; O-S, ascospores; T, germinated ascospores; U, colonies on PDA for five days. Scale bars: A, 1 mm; B, C, 0.5 mm; D, 200 μm; E, 50 μm; F-M, 20 μm; N-T, 10 μm.

FIG. 4. — Rhytidhysteron sichuanensis X.-L in Multigene phylogenetic support for novel Rhytidhysteron Speg. species (Hysteriaceae) from Sichuan Province, China

FIG. 4. — Rhytidhysteron sichuanensis X.-L. Xu & C.-L. Yang, sp. nov. (holo-, SICAU 19-0004): A, appearance of apothecia on host; B, C, ascomata; D, vertical section of hysteriothecium; E, exciple; F, pseudoparaphyses; G-K, asci; L, ocular chamber; M-P, ascospores; Q, germinated ascospores; R, colonies on PDA for six days. Scale bars: A, B, 1 mm; C, 0.5 mm; D, 200 μm; E-K, 20 μm; L-Q, 10 μm.

FIG. 3. — Rhytidhysteron ligustrum X.-L in Multigene phylogenetic support for novel Rhytidhysteron Speg. species (Hysteriaceae) from Sichuan Province, China

FIG. 3. — Rhytidhysteron ligustrum X.-L. Xu & C.-L. Yang, sp. nov. (holo-, SICAU 20-0004): A, appearance of apothecia on host; B, C, ascomata; D, vertical section of hysteriothecium; E, exciple; F, pseudoparaphyses; G-K, asci; L, ocular chamber; M, germinated ascospores; N-Q, ascospores; R, colonies on PDA for five days. Scale bars: A, 1 mm; B, C, 0.5 mm; D, 100 μm; E-K, 20 μm; L-Q, 10 μm.

FIG. 1 in Multigene phylogenetic support for novel Rhytidhysteron Speg. species (Hysteriaceae) from Sichuan Province, China

FIG. 1. — Phylogram generated from RAxML analyses based on combined LSU, SSU, ITS and tef-1α sequence dataset within the genus Rhytidhysteron Speg. The tree is rooted to Hysterographium fraxini (Pers.) De Not. (CBS 109.43 and MFLU 15-3681). ML ≥70% and BYPP ≥0.95 are defined as ML/BYPP above or below the nodes. The type strains are in bold and the newly generated sequences are highlighted in red.

FIG. 2 in Multigene phylogenetic support for novel Rhytidhysteron Speg. species (Hysteriaceae) from Sichuan Province, China

FIG. 2. — Rhytidhysteron hongheense Wanas (SICAU 19-0006): A, appearance of apothecia on host; B, C, ascomata; D, vertical section of hysteriothecium; E, F, exciple; G, pseudoparaphyses; H-K, asci; L, M, ocular chamber; N-P, ascospores; Q, germinated ascospores; R, colonies on PDA for four days. Scale bars: A, B, 1 mm; C, 0.5 mm; D, 200 μm; E-K, 20 μm; L-Q, 10 μm.

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FIG. 1 in Vittaliana mangrovei Devadatha, Nikita, A.Baghela & V.V.Sarma, gen. nov, sp. nov. (Phaeosphaeriaceae), from mangroves near Pondicherry (India), based on morphology and multigene phylogeny

FIG. 1. — Phylogenetic tree generated from Bayesian analysis of concatenated LSU, SSU, TEF1α and ITS sequence data of Phaeosphaeriaceae. Values above the branches indicate maximum parsimony and maximum likelihood bootstrap ≥ 70%, (MP/ML). Values at the third positions, respectively, above or below the branches represent posterior probabilities (PP ≥ 0.95) from Bayesian inference analysis. The new isolate is in blue. The tree is rooted with Leptosphaeria doliolum (Pers.) Cesati & De Notaris and Paraleptosphaeria dryadis (Johanson) Gruyter, Aveskamp & Verkley.

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FIG. 2 in Vittaliana mangrovei Devadatha, Nikita, A.Baghela & V.V.Sarma, gen. nov, sp. nov. (Phaeosphaeriaceae), from mangroves near Pondicherry (India), based on morphology and multigene phylogeny

FIG. 2. — Vittaliana mangrovei Devadatha, Nikita, A.Baghela & V.V.Sarma, gen. nov., sp. nov. (AMH-9953, holotype): A, ascomata on host substrate; B, C, vertical section through ascomata; D, peridium magnified; E, pseudoparaphyses; F, germinating ascospore; G, ostiole showing periphyses; H-K, asci; L-R, ascospores. Scale bars: B, C, 50 µm; D-R, 10 µm.

FIG. 11. — Russula shoreae D.Chakr., A.Ghosh, K in Three new species of genus Russula Pers. from Sal dominated forests of tropical India based on morphotaxonomy and multigene phylogenetic analysis

FIG. 11. — Russula shoreae D.Chakr., A.Ghosh, K.Das & Buyck, sp. nov. (from holotype): A-C, fresh and dissected basidiomata in the field and basecamp; D, E, transverse section through pileipellis showing elements; F, transverse section through lamellae showing basidia; G, H, transverse section through lamellae showing hymenial cystidia near the lamellae edges; I-M, transverse section through lamellae showing hymenial cystidia near the lamellae sides. Scale bars: A, B, 20 mm; D, 20 μm; E-M, 10 μm.

FIG. 9. — Russula pseudoflavida A in Three new species of genus Russula Pers. from Sal dominated forests of tropical India based on morphotaxonomy and multigene phylogenetic analysis

FIG. 9. — Russula pseudoflavida A.Ghosh, Hembrom, I.Bera & Buyck, sp. nov. (from holotype): A, basidiospore; B, basidia; C, hymenial gloeocystidia near the lamellae edges; D, hymenial gloeocystidia near the lamellae sides; E, marginal cells; F, elements of the pileipellis near the pileus margin: hyphal terminations; G, elements of the pileipellis near the pileus centre: hyphal terminations; H, doubtfull primordial hyphae. Scale bars: 10 µm.

FIG. 4 in Three new species of genus Russula Pers. from Sal dominated forests of tropical India based on morphotaxonomy and multigene phylogenetic analysis

FIG. 4. — Phylogram generated by Maximum Likelihood analysis based on nrITS sequence data of Russula boddingii Hembrom, D.Chakr., A.Ghosh & K.Das, sp. nov. and allied species. Maximum Likelihood bootstrap support values (MLbs) ≥ 70% are shown on the left of "/" and Bayesian Posterior Probabilities (BPP) ≥ 0.95 are shown on the right above or below the branches at nodes. Russula boddingii Hembrom, D.Chakr., A.Ghosh & K.Das, sp. nov. is placed in red font to highlight its phylogenetic position in the tree.

FIG. 2 in Three new species of genus Russula Pers. from Sal dominated forests of tropical India based on morphotaxonomy and multigene phylogenetic analysis

FIG. 2. — SEM micrographs of basidiospores: A, B, Russula boddingii Hembrom, D.Chakr., A.Ghosh & K.Das, sp. nov.; C, D, R. pseudoflavida A.Ghosh, Hembrom, I.Bera & Buyck, sp. nov.; E, F, R. shoreae D.Chakr., A.Ghosh, K.Das & Buyck, sp. nov. Scale bars: A-C, E, F, 2 μm; D, 1 μm.

FIG. 6 in Three new species of genus Russula Pers. from Sal dominated forests of tropical India based on morphotaxonomy and multigene phylogenetic analysis

FIG. 6. — Russula boddingii Hembrom, D.Chakr., A.Ghosh & K.Das, sp. nov. (from holotype): A, basidiospore; B, hymenial gloeocystidia near the lamellae edges; C, elements of the pileipellis near the pileus centre: hyphal terminations; D, basidia; E, hymenial gloeocystidia near the lamellae sides; F, elements of the pileipellis near the pileus margin: hyphal terminations. Scale bars: 10 µm.