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FIGURE Phylogenetic relationships of the Coelastrella genus inferred from the 18S-ITS1-5.8S-ITS2 region. The Neighbor-Joining (NJ), Maximum Likelihood (ML) bootstrap values and Bayesian posterior probabilities (PP) are presented at the nodes (NJ/ML/PP). Only values above 75 are shown. Strains provided in this study are indicated in bold font. Authentic strains marked with asterisks. The scale bar represents the number of substitutions per site. The GenBank accession numbers of Coelastrella can be found in the Table 3. in Morphological and phylogenetic relations of members of the genus Coelastrella (Scenedesmaceae, Chlorophyta) from the Ural and Khentii Mountains (Russia, Mongolia)
FIGURE Phylogenetic relationships of the Coelastrella genus inferred from the 18S-ITS1-5.8S-ITS2 region. The Neighbor-Joining (NJ), Maximum Likelihood (ML) bootstrap values and Bayesian posterior probabilities (PP) are presented at the nodes (NJ/ML/PP). Only values above 75 are shown. Strains provided in this study are indicated in bold font. Authentic strains marked with asterisks. The scale bar represents the number of substitutions per site. The GenBank accession numbers of Coelastrella can be found in the Table 3.
Phenotypic variation and genome-wide association studies of main culm panicle node number, maximum node production rate, and degree-days to heading in rice
<p>To understand the genetic basis of main culm panicle node number, maximum node production rate, and degree-days to heading in rice (Oryza sativa), we conducted genome-wide association studies using a diversity panel of 220 rice accessions and 854,832 SNP markers generated using genotyping-by-sequencing (GBS), with 1X coverage. The raw genotype data was filtered, selecting single nucleotide polymorphisms (SNPs) having less than 50% missing data and minimum allele frequency (MAF) >5%. After initial filtering, imputation was conducted using BEAGLE V4.0 in 1,075,302 SNP markers. After imputation, the dataset was filtered a second time by removing SNPs with less than 5% MAF and more than 5% missing data. A total of 854,832 SNPs were used in the genome-wide association analyses. The dataset representing the genotype data of 854,832 SNP markers by 220 rice accessions is presented here.</p>
◂Fig. 2 Maximum likelihood trees. A Tree obtained when analysing 18S data set. B Tree obtained when analysing 28S data set. C Tree obtained when analysing COI data set. D Tree obtained when analysing 16S data set. Bootstrap support values below nodes. Syllis and Typosyllis species as they were originally described in Ramisyllis kingghidorahi n. sp., a new branching annelid from Japan
◂Fig. 2 Maximum likelihood trees. A Tree obtained when analysing 18S data set. B Tree obtained when analysing 28S data set. C Tree obtained when analysing COI data set. D Tree obtained when analysing 16S data set. Bootstrap support values below nodes. Syllis and Typosyllis species as they were originally described
FIGURE. Phylogenetic tree of specimens on Poaceae and related host plants constructed by MP method based on ITS+28S regions of rDNA. Bootstrap values of MP and ML are followed by the Bayesian posterior probabilities (Bpp) on the nodes in the topology. Asterisk (*) represents bootstrap values or Bpp less than 50% in the topology. Sample data are shown with voucher specimen number or GenBank accession number, and host plant. Sequence data determined in this study are shown in color. Teliospore shapes are shown in each clade detected, and new species are shown by asterisk (*) on clades. 0, I: Spermogonial and aecial host genus. Asterisk (*) on host plants: Spermogonial and aecial host plants. in Phylogenetic approach for identification and life cycles of Puccinia (Pucciniaceae) species on Poaceae from northeastern China
FIGURE. Phylogenetic tree of specimens on Poaceae and related host plants constructed by MP method based on ITS+28S regions of rDNA. Bootstrap values of MP and ML are followed by the Bayesian posterior probabilities (Bpp) on the nodes in the topology. Asterisk (*) represents bootstrap values or Bpp less than 50% in the topology. Sample data are shown with voucher specimen number or GenBank accession number, and host plant. Sequence data determined in this study are shown in color. Teliospore shapes are shown in each clade detected, and new species are shown by asterisk (*) on clades. 0, I: Spermogonial and aecial host genus. Asterisk (*) on host plants: Spermogonial and aecial host plants.
Laparoscopic management of isolated nodal recurrence in gynecological malignancies is safe and feasible even for large metastatic nodes until 8 cm: a case series
<p>Supplementary materials. Video S1: Secondary cytoreductive surgery in a case of ILNR from high grade serous ovarian cancer; Video S2: Secondary cytoreductive surgery in a case of ILNR form uterine sarcoma.Video S1: Secondary cytoreductive surgery in a case of ILNR from high grade serous ovarian cancer; Video S2: Secondary cytoreductive surgery in a case of ILNR form uterine sarcoma.</p>
Fig. 1. 16S in Pseudochrobactrum algeriensis sp. nov., isolated from lymph nodes of Algerian cattle
Fig. 1. 16S rRNA gene minimum-likelihood phylogeny of a selected subset of Brucellaceae type strains. Bootstrap support over 1000 replications are indicated at each branching point. The tree is rooted according to a previously published Brucellaceae 16S rRNA topology conducted with several Rhizobiales outgroups [4].
Fig. 2 in Pseudochrobactrum algeriensis sp. nov., isolated from lymph nodes of Algerian cattle
Fig. 2. Whole-genome maximum-likelihood phylogeny of a selected subset of Brucellaceae type strain genomes, based on the alignment of 854 core proteins. Bootstrap support over 100 replications are indicated at each branching point. The Pseudochrobactrum clade is boxed in pink. Pairwise gANI values are given as a heatmap, with values below the species threshold of 96.5 coloured as a white-to-blue gradient, and values above the threshold coloured as a blue-to-purple gradient.
FIGURE. Phylogenetic analysis of Chrysosporium spp. based on ITS sequences. Statistical support values (≥50 %) are shown at nodes, and presented as ML bootstrap support/Bayesian posterior probabilities. Names in black bold are the strains isolated in this study, the coloured names are the new species. in Morphological and phylogenetic characterisations reveal nine new species of Chrysosporium (Onygenaceae, Onygenales) in China
FIGURE. Phylogenetic analysis of Chrysosporium spp. based on ITS sequences. Statistical support values (≥50 %) are shown at nodes, and presented as ML bootstrap support/Bayesian posterior probabilities. Names in black bold are the strains isolated in this study, the coloured names are the new species.
Extant species fail to estimate ancestral geographical ranges at older nodes in primate phylogeny
<p>A clade's evolutionary history is shaped, in part, by geographical range expansion, sweepstakes dispersal and local extinction. A rigorous understanding of historical biogeography may therefore yield insights into macroevolutionary dynamics such as adaptive radiation. Modern historical biogeographic analyses typically fit statistical models to molecular phylogenies, but it remains unclear whether extant species provide sufficient signal or if well-sampled phylogenies of extinct and extant taxa are necessary to produce meaningful estimates of past ranges. We investigated the historical biogeography of Primates and their euarchontan relatives using a novel meta-analytical phylogeny of over 900 extant ( n = 419) and extinct ( n = 483) species spanning their entire evolutionary history. Ancestral range estimates for young nodes were largely congruent with those derived from molecular phylogeny. However, node age exerts a significant effect on ancestral range estimate congruence, and the probability of congruent inference dropped below 0.5 for nodes older than the late Eocene, corresponding to the origins of higher-level clades. Discordance was not observed in analyses of extinct taxa alone. Fossils are essential for robust ancestral range inference and biogeographic analyses of extant clades originating in the deep past should be viewed with scepticism without them.</p>
FIGURE. Phylogenetic tree derived from Bayesian analysis, based on nrLSU data. Posterior probability (PP> 0.95) values from the Bayesian analysis are added at the nodes. The scale bar represents the number of nucleotide changes per site. (T) indicates the type specimen for this species. The new species are in bold. in Four new species of Entoloma (Entolomataceae, Agaricomycetes) subgenera Cyanula and Claudopus from Vietnam and their phylogenetic position
FIGURE. Phylogenetic tree derived from Bayesian analysis, based on nrLSU data. Posterior probability (PP> 0.95) values from the Bayesian analysis are added at the nodes. The scale bar represents the number of nucleotide changes per site. (T) indicates the type specimen for this species. The new species are in bold.
FIGURE. Multilocus phylogenetic tree inferred from Bayesian analysis based on the combined TEF1-α and ACT sequences. Bayesian posterior probabilities are indicated next to the nodes. The tree was rooted with Cladosporium herbarum CBS 121621. The species in this study are indicated in bold. Types of species are indicated after the culture collection number (T = ex-type, ex-epitype, ex-neotype, or reference strain). in Six new species of Cladosporium associated with decayed leaves of native bamboo (Bambusoideae) in a fragment of Brazilian Atlantic Forest
FIGURE. Multilocus phylogenetic tree inferred from Bayesian analysis based on the combined TEF1-α and ACT sequences. Bayesian posterior probabilities are indicated next to the nodes. The tree was rooted with Cladosporium herbarum CBS 121621. The species in this study are indicated in bold. Types of species are indicated after the culture collection number (T = ex-type, ex-epitype, ex-neotype, or reference strain).
FIGURE. (Continued) Multilocus phylogenetic tree inferred from Bayesian analysis based on the combined TEF1-α and ACT sequences. Bayesian posterior probabilities are indicated next to the nodes. The tree was rooted with Cladosporium herbarum CBS 121621. The species in this study are indicated in bold. Types of species are indicated after the culture collection number (T = ex-type, ex-epitype, exneotype, or reference strain). in Six new species of Cladosporium associated with decayed leaves of native bamboo (Bambusoideae) in a fragment of Brazilian Atlantic Forest
FIGURE. (Continued) Multilocus phylogenetic tree inferred from Bayesian analysis based on the combined TEF1-α and ACT sequences. Bayesian posterior probabilities are indicated next to the nodes. The tree was rooted with Cladosporium herbarum CBS 121621. The species in this study are indicated in bold. Types of species are indicated after the culture collection number (T = ex-type, ex-epitype, exneotype, or reference strain).
CLIC1 plasma concentration is associated with lymph node metastases in oral squamous cell carcinoma - Supplementary Material (Statistical Analysis)
<p>Supplementary file containing detailed statistical analysis of results of the article <em>CLIC1 plasma concentration is associated with lymph node metastases in oral squamous cell carcinoma.</em></p>
FIGURE 2. Agave infiernilloensis. A. Rosette with recurving inflorescence. B and C. Plants growing over rocky outcrops. D. Distal inflorescence segment. E. Nodes showing buds and flowers. F. Flower. G in Agave infiernilloensis (sect. Choritepalae, Asparagaceae), a gigantic new species from the Balsas Basin in Western Mexico
FIGURE 2. Agave infiernilloensis. A. Rosette with recurving inflorescence. B and C. Plants growing over rocky outcrops. D. Distal inflorescence segment. E. Nodes showing buds and flowers. F. Flower. G. Inflorescence detail. Photographs by Julia Etter & Martin Kristen.
FIGURE 3. Acidosasa carinata A. Culm leaf. B. Node, showing the sheath base with a corky ring. C. Foliage leafy branches. D. Foliage leaf sheath and inner ligule. E. Synflorescence. F in Sasa guangdongensis, a new synonym of Acidosasa carinata (Poaceae: Bambusoideae)
FIGURE 3. Acidosasa carinata A. Culm leaf. B. Node, showing the sheath base with a corky ring. C. Foliage leafy branches. D. Foliage leaf sheath and inner ligule. E. Synflorescence. F. Strigulose abaxial surface of foliage leaf; G. a: two glumes (the left two) and two sterile lemmas (the right two); b: two glumes (the left two) and one sterile lemma (the rightmost one). H‒K. Strigulose abaxial surface of glume. I‒L. Strigulose abaxial surface of lemma. J‒M. Strigose abaxial surface of palea. Ga & K‒M from X.B. Ye 35118 (CANT, lectotype of Sasa guangdongensis). Gb & H‒J from Taishan Investigation Team 440781190519033LY (IBSC). Photos A‒E by Yi-Hua Tong, others by Xing Li.
S1 Minimal Data Set for Selective Autonomic Stimulation of the AV Node Fat Pad to Control Rapid Post-Operative Atrial Arrhythmias
<p>Raw data files for figures on paper.</p>
Iodine density and contrast enhanced attenuation value of neck nodes
<p>Dataset of iodine concentration and contrast enhanced attenuation value in neck node</p>
Lymph node STARmap/RIBOmap dataset of Chemical and topological design of multi-capped mRNA and capped circular RNA
<p>Here is the STARmap/RIBOmap dataset of Lymph node section included in "<strong>Chemical and topological design of multi-capped mRNA and capped circular RNA</strong>" from Chen et al. </p>
Silent Nodes Results
<p>The results are for the paper "Silence is Golden: Source Location Privacy for Wireless Sensor Networks based on Silent Nodes".</p>
text-fig. 54. Reduced consensus tree of the pruned data matrix after the deletion of Shuvosaurus, Segisaurus, and Poekilopleuron. Named nodes: 1, Saurischia; 4, Herrerasauridae; 5, Neotheropoda; 6, Coelophysoidea; 8, Coelophysidae; 9, Liliensternus', 12, Ceratosauria; 13, Abelisauroidea; 14, etanurae; 16, Camosauria; 17, Spinosauroidea; 20, Allosauroidea; 24, Coelurosauria; 26, Coeluridae; 27, Compsognathinae; 30, Tyrannosauroidea; 34, Maniraptora; 37, Deinonychosauria. in The interrelationships and evolution of basal theropod dinosaurs
text-fig. 54. Reduced consensus tree of the pruned data matrix after the deletion of Shuvosaurus, Segisaurus, and Poekilopleuron. Named nodes: 1, Saurischia; 4, Herrerasauridae; 5, Neotheropoda; 6, Coelophysoidea; 8, Coelophysidae; 9, Liliensternus', 12, Ceratosauria; 13, Abelisauroidea; 14, etanurae; 16, Camosauria; 17, Spinosauroidea; 20, Allosauroidea; 24, Coelurosauria; 26, Coeluridae; 27, Compsognathinae; 30, Tyrannosauroidea; 34, Maniraptora; 37, Deinonychosauria.
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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)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
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.