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71 results for “multi-gene phylogeny”
Multi-gene phylogeny of North American clear-winged moths (Lepidoptera: Sesiidae): A foundation for future evolutionary study of a speciose mimicry complex
<p>Sesiids are a diverse group of predominantly diurnal moths, many of which are Batesian mimics of Hymenoptera. However, their diversity and relationships are poorly understood. A multi-gene phylogenetic analysis of 48 North American sesiid species confirmed the traditional taxonomic tribal ranks, demonstrated the paraphyly of <em>Carmenta</em> and <em>Synanthedon</em> with respect to several other genera, and ultimately provided minimal phylogenetic resolution within and between North American and European groups. Character support from each gene suggested inconsistency between the phylogenetic signal of the <em>CAD</em> gene and that of the other four genes. However, removal of <em>CAD</em> from subsequent phylogenetic analyses did not substantially change the initial phylogenetic results or return <em>Carmenta</em> and <em>Synanthedon</em> as reciprocally monophyletic, suggesting it was not impacting the overall phylogenetic signal. The lack of resolution using genes that are typically informative at the species level for other lepidopterans suggests a surprisingly rapid radiation of species in <em>Carmenta</em>/<em>Synanthedon</em>. This group also exhibits a wide range of mimicry strategies and hostplant usage, which could be fertile ground for future study.</p>
Multi-gene phylogeny of North American clear-winged moths (Lepidoptera: Sesiidae): A foundation for future evolutionary study of a speciose mimicry complex
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Supplementary material 7 from: Wiemers M, Chazot N, Wheat CW, Schweiger O, Wahlberg N (2020) A complete time-calibrated multi-gene phylogeny of the European butterflies. ZooKeys 938: 97-124. https://doi.org/10.3897/zookeys.938.50878
Figure S5. Time-calibrated tree of European butterflies Section IV: Nymphalidae Part II: Subfamilies Libytheinae, Danainae & Satyrinae
Supplementary material 4 from: Wiemers M, Chazot N, Wheat CW, Schweiger O, Wahlberg N (2020) A complete time-calibrated multi-gene phylogeny of the European butterflies. ZooKeys 938: 97-124. https://doi.org/10.3897/zookeys.938.50878
Figure S2. Time-calibrated tree of European butterflies Section I: Papilionidae, Hesperiidae & Pieridae
Supplementary material 6 from: Wiemers M, Chazot N, Wheat CW, Schweiger O, Wahlberg N (2020) A complete time-calibrated multi-gene phylogeny of the European butterflies. ZooKeys 938: 97-124. https://doi.org/10.3897/zookeys.938.50878
Figure S4. Time-calibrated tree of European butterflies Section III: Nymphalidae Part I: Subfamilies Limenitidinae, Heliconiinae, Apaturinae & Nymphalinae
Supplementary material 1 from: Wiemers M, Chazot N, Wheat CW, Schweiger O, Wahlberg N (2020) A complete time-calibrated multi-gene phylogeny of the European butterflies. ZooKeys 938: 97-124. https://doi.org/10.3897/zookeys.938.50878
Table listing of European butterfly species with higher taxonomy, voucher codes and accession numbers for the sequences used to build the phylogeny.
Data from: Bryozoan genera Fenestrulina and Microporella no longer confamilial; multi-gene phylogeny supports separation
Bryozoans are a moderately diverse, mostly marine phylum with a fossil record extending to the early Ordovician. Compared to other phyla, little is known about their phylogenetic relationships at both lower and higher taxonomic levels. Hence, an effort is being made to elucidate the phylogenetic relationships among bryozoans. Here, we present newly sequenced nuclear and mitochondrial genes for 21 cheilostome bryozoans and compile these with existing orthologous molecular data. Using these data, we focus on reconstructing the phylogenetic relationships of Fenestrulina and Microporella, two species-rich genera. They are currently placed in a globally distributed family, Microporellidae, defined by having a semicircular primary orifice and a proximal ascopore, although there are indirect inferences in the morphological literature that suggest they might not be confamilial. Our six-gene phylogenetic analysis reveals that the genera Fenestrulina and Microporella are each monophyletic, with the sister clade to Microporella comprising non-microporellids. These genera thus have a polyphyletic relationship and should not be placed in the same family. Our result supports the reinstatement of the family Fenestrulinidae Jullien, 1888 for Fenestrulina and genera with comparable frontal shield and ooecial morphologies. Our well-supported phylogeny based on independent molecular data lends credit to existing phylogenetic hypotheses based on morphological observations but does not conform to the current classification of these particular bryozoans. This illustrates the general need for a rethink of bryozoan higher-level systematics, ideally based on both morphological and molecular data.
FIGURE 3 in Morphology and multi-gene phylogeny reveal a new fungal genus and species from Hevea brasiliensis latex in Yunnan, China
FIGURE 3. Heveicola xishuangbannaensis (KUMCC 21-0086, ex-type) on PDA. A. Germinated conidium. B, C. Upper and lower view of cultures on PDA. D–F, K. Synnemata on PDA medium. G–I. Conidia growing from mycelia. L. Conidiophores with conidia. J, M. Conidia. Scale bars: A, G = 50 μm, F = 500 μm, H = 100 μm, I = 40 μm, J, L, M = 30 μm, K = 150 μm.
FIGURE 2 in Morphology and multi-gene phylogeny reveal a new fungal genus and species from Hevea brasiliensis latex in Yunnan, China
FIGURE 2. Heveicola xishuangbannaensis (HKAS 115759, holotype). A–C.Appearance of colonies on the substrate. D, E. Conidiophores with conidia. F–O. Conidia. Scale bars: D–F = 50 μm, G–I, K, L = 10 μm, J, M–O = 30 μm.
FIGURE 1 in Morphology and multi-gene phylogeny reveal a new fungal genus and species from Hevea brasiliensis latex in Yunnan, China
FIGURE 1. RAxML tree based on a combined dataset of LSU, SSU, rpb2 and tef1-α partial sequences. Bootstrap support values for maximum likelihood (ML) equal to or higher than 60% and Bayesian probability (BYPP) equal to or higher than 0.90 are given above/ below the branches. Newly generated sequences are shown in red.
FIGURE 4 in Morphology and multi-gene phylogeny reveal a new fungal genus and species from Hevea brasiliensis latex in Yunnan, China
FIGURE 4. Split graph showing results of PHI test of Heveicola xishuangbannaensis and closely related taxa using LogDet transformation and splits decomposition. PHI test results Φw ≤ 0.05 indicate that there is significant recombination within the dataset. The new taxon is in red font.
FIGURES 17–22 in Review of Australian Scirtes Illiger, Ora Clark and Exochomoscirtes Pic (Coleoptera: Scirtidae) including descriptions of new species, new groups and a multi-gene molecular phylogeny of Australian and non-Australian species
FIGURES 17–22. Tegmen and penis of: 17) Scirtes auratus; 18) S. serratus; 19) S. interstinctus; 20) S. lynnae; 21) S. albamaculatus. 22) Penis of S. pinjarraensis.
FIGURES 23–28. 23 in Review of Australian Scirtes Illiger, Ora Clark and Exochomoscirtes Pic (Coleoptera: Scirtidae) including descriptions of new species, new groups and a multi-gene molecular phylogeny of Australian and non-Australian species
FIGURES 23–28. 23) Male terminalia of Scirtes zwicki: a) tergite 8, b) tergite 9, c) sternite 9, d) trigonium, e) tegmen. 24) Habitus photograph of Scirtes zwicki; 25) ditto, ♀ S. albamaculatus. 26) Clypeolabrum of last instar larva of S. lynnae; 27) ditto, S. serratus; 28) ditto, S. triangularis.
FIGURES 11–16 in Review of Australian Scirtes Illiger, Ora Clark and Exochomoscirtes Pic (Coleoptera: Scirtidae) including descriptions of new species, new groups and a multi-gene molecular phylogeny of Australian and non-Australian species
FIGURES 11–16. Prehensors and bursal sclerites of: 11) Scirtes helmsi; 12) S. brisbanensis; 13) S. peniculus; 14) S. pinjarraensis; 15) S. storeyi; 16) S. triangularis.
FIGURE 1 in Review of Australian Scirtes Illiger, Ora Clark and Exochomoscirtes Pic (Coleoptera: Scirtidae) including descriptions of new species, new groups and a multi-gene molecular phylogeny of Australian and non-Australian species
FIGURE 1. Phylogenetic tree of Australian Scirtes, Ora, Exochomoscirtes and some related Asian species, based on Bayesian inference (BI) analysis of concatenated sequence data of COI, EF1-a and TOP1. A tree with identical topology was obtained using ML analyses of the same data set and a concatenated dataset comprising only COI and TOP1. Numbers on branches give posterior probabilities (left) from BI analyses and bootstrap proportions (right) as a percentage of 500 pseudoreplicates from a ML analysis.
FIGURES 6–10 in Review of Australian Scirtes Illiger, Ora Clark and Exochomoscirtes Pic (Coleoptera: Scirtidae) including descriptions of new species, new groups and a multi-gene molecular phylogeny of Australian and non-Australian species
FIGURES 6–10. Prehensor and bursal sclerite of: 6) Scirtes albamaculatus; 7) S. exoletus; 8) S. nigerpalpus; 9) S. orientalis; 10) S. zwicki.
FIGURES 2–5 in Review of Australian Scirtes Illiger, Ora Clark and Exochomoscirtes Pic (Coleoptera: Scirtidae) including descriptions of new species, new groups and a multi-gene molecular phylogeny of Australian and non-Australian species
FIGURES 2–5. Portion of female reproductive tract: a) bursa, b) prehensor, c) accessory gland, d) bursal sclerite. 2) Scirtes auratus; 3) S. kaytae; 4) S. tindaleensis; 5) S. emmaae.
Supplementary material 1 from: Ge Z-W, Jacobs A, Vellinga EC, Sysouphanthong P, van der Walt R, Lavorato C, An Y-F, Yang ZL (2018) A multi-gene phylogeny of Chlorophyllum (Agaricaceae, Basidiomycota): new species, new combination and infrageneric classification. MycoKeys 32: 65-90. https://doi.org/10.3897/mycokeys.32.23831
Figure S1. Maximum Likelihood tree showing the monophyly of Chlorophyllum inferred from the rpb2 data set : Explanation note: Bootstrap values (>50) are indicated along nodes. The clade where Chlorophyllum species are nested is highlighted in grey.
A complete time-calibrated multi-gene phylogeny of the European butterflies - data
<p>The datasets used for the article on phylogenetic relationships of European butterflies, including the treefile for all European species, as well as the posterior distributions of ages of each node.</p>
Fig. 8 in Multi-gene phylogeny of the subclass Astomatia (Protista: Ciliophora) refreshed with two rare astome ciliates from the digestive tube of endogeic earthworms
Fig. 8 Phylogenetic tree based on the 18S, 5.8S, and 28S rRNA genes, showing the systematic positions of Metaradiophrya speculorum sp. n. and Maupasella mucronata. The subclass Hymenostomatia was used to a posteriori root the tree. Bootstrap values for maximum likelihood conducted in IQTrees as well as posterior probabilities for Bayesian inferences conducted in Phycas and MrBayes were mapped onto the
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Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
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DANDI Archive for NWB datasets
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International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
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.