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FIGURE 3 in Molecular phylogeny of Faberia (Asteraceae: Cichorieae) based on nuclear and chloroplast sequences
FIGURE 3. Strict consensus tree of Faberia and relatives based on the combined chloroplast sequences. Tree length = 624, CI = 0.83, RI = 0.67, and RC = 0.56. Bootstrap values greater than 50% are above the lines and Bayesian posterior probabilities are below the lines.
FIGURE 4 in Phylogenetic relationships of Discyphus scopulariae (Orchidaceae, Cranichideae) inferred from plastid and nuclear DNA sequences: evidence supporting recognition of a new subtribe, Discyphinae
FIGURE 4. Phylogenetic relationships in Spiranthinae inferred from nuclear (ITS) and plastid (rbcL, matK-trnK, trnL-trnF) DNA sequences by maximum likelihood (ML). The main tree is the ML tree; numbers under branches are bootstrap proportions from the ML bootstrap analysis. The inset on the upper left hand is the ML tree with branches drawn proportional to branch lengths. The major clades referred to in the text are marked as follows: a, Stenoptera clade; b, Prescottia clade; c, "core" Cranichidinae; d, Spiranthinae (excluding Discyphus). The position of Discyphus is indicated by an asterisk (*).
FIGURE 3 in Phylogenetic relationships of Discyphus scopulariae (Orchidaceae, Cranichideae) inferred from plastid and nuclear DNA sequences: evidence supporting recognition of a new subtribe, Discyphinae
FIGURE 3. Phylogenetic relationships in Spiranthinae inferred from nuclear (ITS) and plastid (rbcL, matK-trnK, trnL-trnF) DNA sequences by maximum parsimony (MP). The main tree is the strict consensus of 24 most parsimonious trees (MPTs) recovered by the analysis; numbers under branches are bootstrap proportions (from the MP bootstrap analysis). The inset on the upper left hand is one of the 24 MPTs with branches drawn proportional to branch length. The major clades referred to in the text are marked as follows: a, Stenoptera clade; b, Prescottia clade; c, "core" Cranichidinae; d, Spiranthinae (excluding Discyphus). The position of Discyphus is indicated by an asterisk (*).
FIGURE 2 in Phylogenetic relationships of Discyphus scopulariae (Orchidaceae, Cranichideae) inferred from plastid and nuclear DNA sequences: evidence supporting recognition of a new subtribe, Discyphinae
FIGURE 2. Discyphus scopulariae (from Coelho de Moraes 2171). A. Habit. B. Flower. C. Flower opened out between dorsal sepal and one lateral sepal. D. Dorsal sepal. E. Lateral sepal. F. Petal. G. Labellum. H. Column, ventral view. I. Column apex, side view. Single bar = 1 mm, double bar = 1 cm. Drawn by Judi Stone and originally published in Pridgeon et al. 2003: Fig. 181.1 (reproduced with permission).
FIGURE 1. Discyphus scopulariae. A in Phylogenetic relationships of Discyphus scopulariae (Orchidaceae, Cranichideae) inferred from plastid and nuclear DNA sequences: evidence supporting recognition of a new subtribe, Discyphinae
FIGURE 1. Discyphus scopulariae. A. Flowering plant in situ (Bahia, Brazil, Popovkin 338A). B−E. Another flowering plant removed from soil (Bahia, Brazil, Popovkin 900). C. Inflorescence. D. Roots and leaf from below. E. Close-up of the column apex from below with the pollinarium removed, showing the bifid rostellum remnant and the two stigmatic areas with pollinium fragments presumably deposited by an unrecorded pollinator. Photographers: Alex Popovkin (A−D), Isys Souza (E).
FIGURE 8 in Nuclear ITS/ETS sequence data indicate the membership of Senecio racemulifer, but not S. acutipinnus and S. graciliflorus, within the genus Jacobaea (Asteraceae, Senecioneae)
FIGURE 8. Phylogeny of tribe Senecioneae using maximum likelihood analysis based on concatenated ITS and ETS data. Bootstrap values (maximum likelihood/maximum parsimony; MLBS/MPBS) ≥ 70% and Bayesian posterior probabilities (PP) ≥ 0.95 are indicated above and below branches, respectively. Dashes (-) indicate bootstrap values <70%.
FIGURE 5 in Nuclear ITS/ETS sequence data indicate the membership of Senecio racemulifer, but not S. acutipinnus and S. graciliflorus, within the genus Jacobaea (Asteraceae, Senecioneae)
FIGURE 5. Senecio acutipinnus in the wild (Wenshan county, Yunnan, China). A. Habitat. B. Habit. C. Rhizome and roots. D. Proximal to distal stem leaves. E. Synflorescence. F. Capitula. G. Phyllaries (abaxial side). H. Disc florets. I. Achene and pappus. Photographed by Wen-qun Fei.
FIGURE 6 in Nuclear ITS/ETS sequence data indicate the membership of Senecio racemulifer, but not S. acutipinnus and S. graciliflorus, within the genus Jacobaea (Asteraceae, Senecioneae)
FIGURE 6. Senecio graciliflorus in the wild (Lhünzê, Xizang, China). A. Habitat. B. Habit. C. Rhizome and roots. D. Leaf. E. Synflorescence. F. Capitula. G. Phyllaries (abaxial side). H. Ray florets. I. Disc florets. Photographed by Long Wang.
FIGURE 7 in Nuclear ITS/ETS sequence data indicate the membership of Senecio racemulifer, but not S. acutipinnus and S. graciliflorus, within the genus Jacobaea (Asteraceae, Senecioneae)
FIGURE 7. Mitotic metaphase chromosomes (A–D) and karyotypes (E–H) of Senecio acutipinnus (A, B, E, F), S. graciliflorus (C, G), and S. racemulifer (= Jacobaea racemulifera; D, H). All the three species have 2n = 40 = 40 m. A–C, the same scale; E–H, the same scale.
FIGURE 4 in Nuclear ITS/ETS sequence data indicate the membership of Senecio racemulifer, but not S. acutipinnus and S. graciliflorus, within the genus Jacobaea (Asteraceae, Senecioneae)
FIGURE 4. Selected specimens of Senecio acutipinnus. A. China, Guizhou, Leishan county, X.L. Yu 14111003 (CSF). B. China, Yunnan, Yongde county, E.D. Liu & Z.F. Xu 3422 (KUN).
FIGURE 3 in Nuclear ITS/ETS sequence data indicate the membership of Senecio racemulifer, but not S. acutipinnus and S. graciliflorus, within the genus Jacobaea (Asteraceae, Senecioneae)
FIGURE 3. Senecio racemulifer (= Jacobaea racemulifera) in the wild (Wuqia county, Xinjiang, China). A. Habitat. B. Habit. C. Rhizome and roots. D. Basal to distal stem leaves. E. Synflorescence. F. Capitulum. G. Longitudinal section of involucre. H. Ray florets. I. Disc florets. Photographed by Hui-min Li.
FIGURE 2 in Nuclear ITS/ETS sequence data indicate the membership of Senecio racemulifer, but not S. acutipinnus and S. graciliflorus, within the genus Jacobaea (Asteraceae, Senecioneae)
FIGURE 2. Selected specimens of Senecio racemulifer (= Jacobaea racemulifera) from Wuqia county in Xinjiang, China. A, B. Northwest Inst. Bot. Xinjiang Exped. 1726 (WUK). C, D. H.M. Li & Y.P. Zeng 599 (IBSC).
FIGURE 2 in Identification and molecular phylogeny of agriculturally important spider mites (Acari: Tetranychidae) based on mitochondrial and nuclear ribosomal DNA sequences, with an emphasis on Tetranychus
FIGURE 2. Scatter plot for the number of transitions (s) and transversions (v) versus TN distance of ITS1 and ITS2 in pairwise comparisons between spider mites.
FIGURE 1 in Identification and molecular phylogeny of agriculturally important spider mites (Acari: Tetranychidae) based on mitochondrial and nuclear ribosomal DNA sequences, with an emphasis on Tetranychus
FIGURE 1. Scatter plot for the number of transitions (s) and transversions (v) versus TN distance of COI gene in pairwise comparisons between spider mites, (a) all codon positions; (b) third codon position.
FIGURE 5 in Identification and molecular phylogeny of agriculturally important spider mites (Acari: Tetranychidae) based on mitochondrial and nuclear ribosomal DNA sequences, with an emphasis on Tetranychus
FIGURE 5. ML tree based on ITS2 sequences. Sequence data for the ITS2 was aligned from a total of 23 individuals from nine species. Demodex folliculorum and D. canis (GenBank nos. AM904564 and GU299785, respectively) were selected as the outgroups of ITS2 tree. Numbers on the branches indicate the percentage bootstrap values (>50) based on NJ bootstrapping with ML settings (1,000 replicates).
FIGURE 3 in Interrelationships and history of the slit-eared skinks (Gongylomorphus, Scincidae) of the Mascarene islands, based on mitochondrial DNA and nuclear gene sequences
FIGURE 3. Phylogeography of Gongylomorphus skinks in Mauritius based on 1102bp of combined mtDNA sequence data. Lower-case letters refer to collection localities in Fig. 1 and Table 1. Haplotype networks are drawn with the areas of circles proportional to number of individuals observed; dots represent unobserved haplotypes, and lines between them each represent a single nucleotide substitution. Filled circles represent samples collected from extant populations, and open circles samples from extinct ones.
FIGURE 2 in Interrelationships and history of the slit-eared skinks (Gongylomorphus, Scincidae) of the Mascarene islands, based on mitochondrial DNA and nuclear gene sequences
FIGURE 2. Bayesian maximum likelihood tree for extinct and extant Gongylomorphus skinks and a range of outgroup taxa, based on 1473 bp of combined mitochondrial (12S rRNA, cytochrome b) and nuclear (c-mos) DNA sequence. Numbers adjacent to nodes indicate: Bayesian posterior probability/MP bootstrap support values for analyses conducted using all samples (top line, if present), and only a subset of samples with full-length sequence for all three genes (bottom or only line). Letters a-s indicate the sampling locality in Mauritius for each specimen (Fig. 1, Table 1). Letters in bold are specimens which were sequenced for all three genes. Letters suffixed by an * are specimens that represent extinct populations.
FIGURE 1 in Interrelationships and history of the slit-eared skinks (Gongylomorphus, Scincidae) of the Mascarene islands, based on mitochondrial DNA and nuclear gene sequences
FIGURE 1. (A) Map of the west Indian Ocean showing the location of the Mascarene islands. (B) Mauritius showing collection localities for Gongylomorphus bojerii skinks used in the present study. (C) Mauritius showing collection localities for Gongylomorphus 'orange-tail' and G. fontenayi skinks used in the present study. * indicates extinct populations.
Figure 3 in Molecular dating and diversification of the South American lizard genus Liolaemus (subgenus Eulaemus) based on nuclear and mitochondrial DNA sequences
Figure 3. Posterior probability distributions for mean rates of evolution estimated from the combined data under a partitioned analysis for the mitochondrial (A) and nuclear genes (B). The middle line of each box plot represents mean rates and the top and bottom lines indicate the 95% credibility intervals. CMOS; MXRA-5.
Figure 2 in Molecular dating and diversification of the South American lizard genus Liolaemus (subgenus Eulaemus) based on nuclear and mitochondrial DNA sequences
Figure 2. Age posterior probability distributions for each of the Eulaemus crown groups. Vertical black line represents the Miocene-Pliocene boundary (5.33 Mya).
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Allen Brain Atlas
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DANDI Archive for NWB datasets
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International Brain Laboratory public data
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OpenNeuro
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