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155 results for “multilocus phylogeny”
FIGURE 8 in Multilocus phylogeny reveals Gibsmithia hawaiiensis (Dumontiaceae, Rhodophyta) to be a species complex from the Indo-Pacific, with the proposal of G. eilatensis sp. nov.
FIGURE 8. Gibsmithia eilatensis sp. nov. A–B) Mature corncob-like spermatangial heads. A) Slide DG220-1. Scale bar 50 μm. B) Slide DG220-1, scale bar 20 μm. C) Young and mature tetrasporangia. Slide DG219-1. Scale bar 20 μm. D–E) Terminal and lateral tetrasporangial initials growing on lateral assimilatory filaments, and decussate and cruciate tetrasporangia. D) Slide DG219-1. Scale bar 50 μm. E) Slide DG219-1. Scale bar 20 μm.
FIGURES 5 in Multilocus phylogeny reveals Gibsmithia hawaiiensis (Dumontiaceae, Rhodophyta) to be a species complex from the Indo-Pacific, with the proposal of G. eilatensis sp. nov.
FIGURES 5. Range of habits of Gibsmithia hawaiiensis from the Hawaiian Islands (dry herbarium specimens). Main Hawaiian Islands: A) DG261, Hawaii; B) DG255, Hawaii; C) DG253, Oahu; D) DG267, Oahu. Northwestern Hawaiian Islands: E) DG258; F) DG218. Scale bar = 1.0 cm.
FIGURE 3 in Multilocus phylogeny reveals Gibsmithia hawaiiensis (Dumontiaceae, Rhodophyta) to be a species complex from the Indo-Pacific, with the proposal of G. eilatensis sp. nov.
FIGURE 3. Consensus phylogram obtained from the Bayesian Inference analysis of the concatenated dataset (rbcL, UPA and COI- 5P). Numbers besides nodes indicate posterior-probabilities (BI) and bootstrap values (ML), respectively. Scale bar indicates number of substitutions per site. A to E represent the different lineages observed. Numbers represents the respective marine provinces: 1) Hawaii; 2) Southeast Polynesia; 3) Sunda Shelf; 4) Western Coral Triangle; 5) Tropical Northwestern Pacific; 6) Western Indian Ocean; 7) Red Sea and Gulf of Aden.
FIGURE 2 in Multilocus phylogeny reveals Gibsmithia hawaiiensis (Dumontiaceae, Rhodophyta) to be a species complex from the Indo-Pacific, with the proposal of G. eilatensis sp. nov.
FIGURE 2. Reported distribution of Gibsmithia hawaiiensis prior to this study (grey shade), based on records listed in AlgaeBase (Guiry & Guiry 2016): Africa: South Africa, Tanzania; Indian Ocean Islands: Seychelles; Asia: China, Japan, Taiwan; South-east Asia: Indonesia, Philippines, Vietnam; Australia and New Zealand: Australia, Coral Sea Islands Territory, Papua New Guinea, Queensland, Western Australia; Pacific Islands: Central Polynesia, Federated States of Micronesia, Fiji, French Polynesia, Guam, Hawaiian Islands, Mariana Islands, Northern Hawaiian Islands, Republic of Palau. Collection sites are marked with shapes corresponding to the different lineages from Fig. 3.
FIGURE 1 in Multilocus phylogeny reveals Gibsmithia hawaiiensis (Dumontiaceae, Rhodophyta) to be a species complex from the Indo-Pacific, with the proposal of G. eilatensis sp. nov.
FIGURE 1. In situ habits of Gibsmithia hawaiiensis complex. A) DG234, Eilat, Israel. B) SGAD0509563, Kepulauan Seribu, Indonesia. C) SGAD0911460, Ternate, Indonesia. D) TIG001, Pulau Tiga, Malaysia. E) SGAD1205119, Johor, Malaysia. F) SGAD0712185, Raja Ampat, Indonesia. G) SGAD1206005, Labuan, Malaysia. Four individuals, each comprising one stipe and one to a few lobes. H) LEM03, Bitung, Indonesia. Scale bar 1 cm. Photo credits: A) T. Sauvage; B) A. Gittenberger; C, E–G) S.G.A. Draisma; D) M.A.S. Hussein; H) B.T. Reijnen.
FIGURE 7 in Multilocus phylogeny reveals Gibsmithia hawaiiensis (Dumontiaceae, Rhodophyta) to be a species complex from the Indo-Pacific, with the proposal of G. eilatensis sp. nov.
FIGURE 7. Gibsmithia eilatensis sp. nov. Early post-fertilization stages. A) Vegetative lateral branch (arrowhead) on basal cell of carpogonial filament, and curved hypogynous cell (arrow). Slide DG210-4. Scale bar 50 μm. B) Presumed early fertilization stage showing lateral extension of carpogonium and hypogynous cell (arrowhead). Slide DG210-1. Scale bar 50 μm. C) Auxiliary cell branch. Slide DG234-4. Scale bar 50 μm. D) Unsegmented incoming connecting filament (ic) partly and laterally fused to auxiliary cell, and unseptated outgoing connecting filament (oc). Slide DG234-2. Scale bar 100 μm. E) Incoming connecting filament (ic) segment partly fused with auxiliary cell, and outgoing connecting filament (oc) segment (arrow) partly fused with nearby auxiliary cell. Slide DG234- 3. Scale bar 50 μm. F) Gonimoblast initial (arrow) developed from the short segment partly fused to auxiliary cell, between incoming connecting filament (ic) and outgoing connecting filament (oc). Slide DG234-3. Scale bar 50 μm. G–H) Multiple gonimoblast initials cut off bilaterally from connecting filament segment (arrow) fused to auxiliary cell. G) Slide DG234-3. Scale bar 50 μm. H) Slide DG234-5. Scale bar 50 μm. I) Young clusters of spermatangia (arrow) formed terminally and laterally in assimilatory filaments. Slide DG220-1. Scale bar 50 μm.
FIGURE 4 in Multilocus phylogeny reveals Gibsmithia hawaiiensis (Dumontiaceae, Rhodophyta) to be a species complex from the Indo-Pacific, with the proposal of G. eilatensis sp. nov.
FIGURE 4. In vivo habits of G. eilatensis sp. nov. Specimens growing: A) attached to coral reef surface (DG219; isotype), B) between coral heads (DG210) and C) under a coral wall (DG234; holotype). Scale bar = 1.0 cm
FIGURE 6 in Multilocus phylogeny reveals Gibsmithia hawaiiensis (Dumontiaceae, Rhodophyta) to be a species complex from the Indo-Pacific, with the proposal of G. eilatensis sp. nov.
FIGURE 6. Gibsmithia eilatensis sp. nov. A) Holotype, female gametophyte, DG234, Eilat, Israel. B) Assimilatory filaments comprised of main percurrent filaments (arrow), cortical filaments (arrowhead) and rhizoidal filaments (double arrowhead). Rhizoidal filaments with cells connected to neighboring rhizoidal cells. Slide DG219-2. Scale bar 200 μm. C) Female pre-fertilization stages among elongated, narrow assimilatory filaments. Slide DG234-3. Scale bar 200 μm. D) Hairlike extensions from apical cortical cells. Slide DG210-2. Scale bar 50 μm. E) Branched and unbranched "seirospore" filaments. Slide DG210-5. Scale bar 50 μm. F) Carpogonial branch laterally positioned on assimilatory filaments, with straight and obliquely (arrow) directed trichogynes. Slide DG210-1. Scale bar 50 μm. G) Carpogonial branch with laterally extended hypogynous cell (double arrowhead), small subhypogynous cell (arrowhead) and conical carpogonium (arrow) with straight trichogyne. Slide DG210-4. Scale bar 50 μm.
Figure 7 in Molecular phylogeny of hinge-beak shrimps (Decapoda: Caridea: Rhynchocinetes and Cinetorhynchus) and allies: a formal test of familiar and generic monophyly using a multilocus phylogeny
Figure 7. Presence/absence of the 'robustus' morphotype and sexual systems of Rhynchocinetes and Cinetorhynchus shrimps synthesized on the tree resulting from the one-phase SATé-II analysis of maximum likelihood. Robustus morphotype: presence (black squares), absence (white squares), unknown (grey squares). Sexual system: separate sexes (white squares), protandry (black squares), unknown (grey squares). The photographs show a 'robustus' male morphotype of Rhynchocinetes typus (left, bottom) and a male specimen of the protandric Cinetorhynchus uritai (right, bottom). Males in the latter species exhibit poorly developed chelipeds and maxillipeds in comparison with 'robustus' males of species of Rhynchocinetes. For further details see text. Photographic credits: M. Thiel (C. uritai), I. Hinojosa (Rhynchocinetes typus).
Figure 4 in Molecular phylogeny of hinge-beak shrimps (Decapoda: Caridea: Rhynchocinetes and Cinetorhynchus) and allies: a formal test of familiar and generic monophyly using a multilocus phylogeny
Figure 4. One-phase simultaneous alignment and tree estimation (SATé-II) analysis of maximum likelihood (ML) for representatives of the family Rhynchocinetidae using two nuclear genes. The phylogenetic tree resulted from the combined analysis of 12S, Histone (H3), and Enolase gene fragments of Rhynchocinetes (seven taxa and eight terminals), Cinetorhynchus (five taxa and 12 terminals), Lipkius (one taxon and two terminals), Eugonatonotus (one taxon), and outgroups. The numbers above or below the branches represent the bootstrap values obtained from the ML analyses in SATé-II.
Figure 1 in Molecular phylogeny of hinge-beak shrimps (Decapoda: Caridea: Rhynchocinetes and Cinetorhynchus) and allies: a formal test of familiar and generic monophyly using a multilocus phylogeny
Figure 1. Some morphological characters of shrimps from the genera Rhynchocinetes and Cinetorhynchus. A, 'cage' position during mating in the shrimp Rhynchocinetes typus, the only species of marine caridean shrimp for which alternative mating tactics have been demonstrated so far. Notice the well-developed third maxillipeds and chelipeds characteristic of the 'robustus' male morphotype. B, habitus (view of the entire animal) of the hinged-beak shrimp genus Cinetorhynchus. C, lateral view of the rostrum of R. typus. Notice the articulation (arrow) of the rostrum with the remainder of the carapace. D, lateral view of the rostrum of Cinetorhynchus rigens. Notice the indistinct articulation between the carapace and the rostrum (compared with Rhynchocinetes). E, dorsal view of the carapace in C. rigens. Notice the three teeth at the median carina of the carapace and the absence of a supraorbital spine. F, dorsal view of the carapace in R. typus. Notice the two acute teeth at the median carina of the carapace and the supraorbital spine. G, lateral view of the fourth and fifth pereopods of R. typus. Notice the presence of only one row of meral spines on these pereopods. H, lateral view of the fourth and fifth pereopods of C. rigens. Notice the presence of two rows of meral spines. A from Correa et al. (2003); B–H from de Melo (2007).
Figure 3. A in Molecular phylogeny of hinge-beak shrimps (Decapoda: Caridea: Rhynchocinetes and Cinetorhynchus) and allies: a formal test of familiar and generic monophyly using a multilocus phylogeny
Figure 3. A, one-phase simultaneous alignment and tree estimation (SATé-II) analysis of maximum likelihood (ML) for representatives of the superfamily Nematocarcinoidea using two nuclear genes. B, two-phase phylogenetic analysis of Bayesian inference (BI) using two nuclear genes for representatives of the superfamily Nematocarcinoidea. The two phylogenetic trees resulted from the combined analysis of Histone (H3) and Enolase gene fragments of Rhynchocinetes (seven taxa and eight terminals), Cinetorhynchus (five taxa and 12 terminals), Lipkius (one taxon and two terminals), Nematocarcinus (three taxa), Eugonatonotus (one taxon), and outgroups. In (B), the general topology of the trees obtained from two-phase ML and BI analyses was the same. In (A), the numbers above or below the branches represent the bootstrap values obtained from the ML analysis in SATé-II. In (B), numbers above or below the branches represent the posterior probabilities from the BI analysis in MrBayes and bootstrap values obtained from the ML analyses in TREEFINDER (ML/BI).
Figure 2 in Molecular phylogeny of hinge-beak shrimps (Decapoda: Caridea: Rhynchocinetes and Cinetorhynchus) and allies: a formal test of familiar and generic monophyly using a multilocus phylogeny
Figure 2. Habitus and morphological diversity of hinged-beak shrimps from the genera Rhynchocinetes and Cinetorhynchus and allied species in the superfamily Nematocarcinoidea. A, lateral view of Eugonatonotus crassus (Eugonatonotidae) (photo credit: Charles Bump, SERT). B, lateral view of Cinetorhynchus cf. maningi (photo credit: Arthur Anker). C, pair of Cinetorhynchus hendersoni in situ (photo credit: Nicolas Ory). Notice the male on the right with extremely elongated pereopods. D, large aggregation of Rhynchocinetes uritai in Japan (photo credit: Martin Thiel). E, dorsal view of a 'robustus' male of Rhynchocinetes typus (photo credit: Ivan Hinojosa). Notice the elongated third maxillipeds and the dense setae in the chelipeds. F, small aggregation of Rhynchocinetes serratus (photo credit: Ivan Hinojosa). In the male perched on the roof of the crevice, notice the elongated third maxillipeds and the absence of dense setae on the chelipeds. G, lateral view of Cinetorhynchus cf. rigens (photo credit: Arthur Anker).
Figure 5 in Molecular phylogeny of hinge-beak shrimps (Decapoda: Caridea: Rhynchocinetes and Cinetorhynchus) and allies: a formal test of familiar and generic monophyly using a multilocus phylogeny
Figure 5. Two-phase (above) and three-phase (below) phylogenetic analyses of maximum likelihood (ML) and Bayesian inference (BI) for representatives of the family Rhynchocinetidae using three genes. The software MUSCLE was used for sequence alignment The two phylogenetic trees resulted from the combined analysis of 12S, Histone (H3), and Enolase gene fragments of Rhynchocinetes (seven taxa and eight terminals), Cinetorhynchus (five taxa and 12 terminals), Lipkius (one taxon and two terminals), Eugonatonotus (one taxon) and outgroups. The general topology of the trees obtained from two-phase and three-phase ML and BI analyses was the same. The numbers above or below the branches represent the posterior probabilities from the BI analysis in MrBayes and bootstrap values obtained from ML analyses in TREEFINDER (ML/BI).
Figure 3 in Phylogeny of the shore crab family Grapsidae (Decapoda: Brachyura: Thoracotremata) based on a multilocus approach
Figure 3. Bayesian consensus topology inferred from the combined nDNA sequences of sodium-potassium adenosine triphosphatase α-subunit (531 bp), enolase (331 bp), and histone 3 (294 bp). Numbers at nodes are bootstrap supports/ posterior probabilities. Nodal supports lower than 50/0.5 are not shown.
Figure 2 in Phylogeny of the shore crab family Grapsidae (Decapoda: Brachyura: Thoracotremata) based on a multilocus approach
Figure 2. Bayesian consensus topology inferred from the combined mtDNA sequences of 16S (552 bp) and 12S (539 bp). Numbers at nodes are bootstrap supports/posterior probabilities. Nodal supports lower than 50/0.5 are not shown.
Figure 1 in Phylogeny of the shore crab family Grapsidae (Decapoda: Brachyura: Thoracotremata) based on a multilocus approach
Figure 1. Bayesian consensus topology inferred from the combined sequences of the five genes: 16S (552 bp), 12S (539 bp), sodium-potassium adenosine triphosphatase α-subunit (531 bp), enolase (331 bp), and histone 3 (294 bp). Numbers at nodes are bootstrap supports/posterior probabilities. Nodal supports lower than 50/0.5 are not shown.
Figure 3. A in Multilocus phylogeny and a new classification for Southeast Asian and Melanesian forest frogs (family Ceratobatrachidae)
Figure 3. A schematic representation of ceratobatrachid phylogeny (based on Fig. 2), summarizing (A) the previous taxonomy of ceratobatrachid frogs and (B) the new classification scheme proposed here.
Figure 1 in Multilocus phylogeny and a new classification for Southeast Asian and Melanesian forest frogs (family Ceratobatrachidae)
Figure 1. Distribution of the frog family Ceratobatrachidae. Numbers of species per major region are included in parentheses.
Figure 1 in Multilocus phylogeny and historical biogeography of the Crematogaster inflata-group (Hymenoptera: Formicidae) in South-East Asia
Figure 1. The Crematogaster inflata-group examined in this study and their natural distributions (modified from Hosoishi & Ogata, 2009). Inset, specimen photographs in profile view. Scale bar represents 0.5 mm.
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International Brain Laboratory public data
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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.