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opencc-by-4.0Jun 2017View details →

Figure 2. A in Guidelines and quantitative standards to improve consistency in cetacean subspecies and species delimitation relying on molecular genetic data

Figure 2. A comparison of the pairs of populations (red triangles), subspecies (green squares) and species (blue circles) estimated by Rosel et al. (2017a). Net nucleotide divergence (dA) is shown on a natural log scale to better illustrate differences between the pairwise comparisons at low levels of divergence. Bars show the central 95th-pecentile of the estimate distributions. The solid vertical line at dA = 0.020 delimits all but one species and correctly excludes all subspecies pairs. The vertical dashed line at dA = 0.004 delimits all populations from the higher taxonomic levels and correctly delimits seven of eleven subspecies. The horizontal dashed lines are two potential thresholds for percent diagnosable (80% and 95%) that are discussed in the text.

opencc-by-4.0May 2023View details →

Data from: Molecular Dating of Phylogeny of Sturgeons (Acipenseridae) Based on Total Evidence Analysis

Bayesian chronograms (original and updated 08.10.2022) of cladogenesis of fossil and recent Acipenseriformes reconstructed on the basis of combined (mtDNA, morphological characters) data.

FIG. 1. — A in From fin rays to DNA: supplementary morphological and molecular data to identify Mormyrus subundulatus Roberts, 1989 (Pisces: Mormyridae) from the Bandama River in Côte d'Ivoire

FIG. 1. — A, radiography of the paratype SU 63507 Mormyrus subundulatus Roberts, 1989 from the Tano River (© California Academy of Sciences, Dept. of Ichthyology); B, specimen number MNHN-IC-2018-0558 caught in the Bandama River near the type locality; C, specimen number MNHN-IC-2018-0559. Scale bar: A, 10 cm.

FIG. 4. — A in From fin rays to DNA: supplementary morphological and molecular data to identify Mormyrus subundulatus Roberts, 1989 (Pisces: Mormyridae) from the Bandama River in Côte d'Ivoire

FIG. 4. — A, Distribution of Mormyrus subundulatus Roberts, 1989 according to available data; B, the Bandama River in the type locality is impacted by the Taabo dam just upstream; C, preserved stream habitat downstream the type locality where M. subundulatus still lives. This part of the River will be lost after the impoundment of another big dam, planned for the next few years; D, aerial view (GoogleEarth) of the Tano River in the type locality (red dot); E, upstream, showing the important buildup of soil and mud due to mining activities. The Tano River does not seem to host suitable habitat for M. subundulatus anymore, at least around the historical locality.

FIG. 3 in From fin rays to DNA: supplementary morphological and molecular data to identify Mormyrus subundulatus Roberts, 1989 (Pisces: Mormyridae) from the Bandama River in Côte d'Ivoire

FIG. 3. — Distribution of the dorsal fin rays counts for the specimens of M. subundulatus Roberts, 1989 examined by us (blue bars) and for the specimens of M. rume Valenciennes, 1847 (data from Lévêque and Bigorne, 1985; orange bars). Yellow bars: specimens presumably from the Sassandra River population. (1) position of paratype CAS-SU63507 from the Tano River in Ghana (red bar); (2) position of specimen MNHN-IC-2018-0558, for which genetic data confirms the identification as M. subundulatus.

FIG. 2 in From fin rays to DNA: supplementary morphological and molecular data to identify Mormyrus subundulatus Roberts, 1989 (Pisces: Mormyridae) from the Bandama River in Côte d'Ivoire

FIG. 2. — Bayesian phylogenetic analyses base on Cyt b gene fragment (A) and COI gene fragment (B). Numbers on branch node indicate posterior probability values, only node with posterior probability above 85 are represented. Nodes with probability> 98 are identified with *. Numbers on specimens indicate the GenBank accession number of the sequence or, when many specimens shared the same haplotype, the haplotype names in Table 1.

Fig. 1 in A new Diplura species from Georgia caves, Plusiocampa (Plusiocampa) imereti (Diplura, Campodeidae), with morphological and molecular data

Fig. 1. Distribution map of cave-adapted diplurans in the Black Sea region: Plusiocampa (Plusiocampa) isterina Condé, 1993 (red circle), Plusiocampa (Dydimocampa) evallonychia Silvestri, 1949 (red triangles), Plusiocampa (Plusiocampa) imereti Sendra & Barjadze sp. nov. (red stars), Plusiocampa (Plusiocampa) aff. dublanskii Sendra & Turbanov, 2020 (red rhombus), Plusiocampa (Dydimocampa) euxina Condé, 1996 (black square), Plusiocampa (Plusiocampa) dublanskii Sendra & Turbanov, 2020 (black circle). Yellow = karst areas (source: Chen et al. 2017); orange = deserts (source: Olson & Dinerstein 2002); blue = ice cover and permafrost extent during the Last Glacial Maximum (sources: Ehlers et al. 2011; Lindgren et al. 2016).

Figs 14–18. 14–16. Entrances. 17–18 in A new Diplura species from Georgia caves, Plusiocampa (Plusiocampa) imereti (Diplura, Campodeidae), with morphological and molecular data

Figs 14–18. 14–16. Entrances. 17–18. Plans of the studied caves. 14. Datvis Cave. 15. Melouri Cave. 16. Shvilobisa Cave. 17. Plan of the Melouri Cave (Tatashidze et al. 2009a). 18. Plan of the Shvilobisa Cave (Tatashidze et al. 2009a). Black dots = locations where the specimens of the new species were sampled; E = entrance.Scale bares: 14–16 = 1 m.

Fig. 13 in A new Diplura species from Georgia caves, Plusiocampa (Plusiocampa) imereti (Diplura, Campodeidae), with morphological and molecular data

Fig. 13. Maximum likelihood (ML) tree of Diplura obtained from CO1 data. Only bootstrap support values above 70 are shown.

Figs 2–6 in A new Diplura species from Georgia caves, Plusiocampa (Plusiocampa) imereti (Diplura, Campodeidae), with morphological and molecular data

Figs 2–6. Plusiocampa (Plusiocampa) imereti Sendra & Barjadze sp. nov., ♀, holotype (IZISU- TD-T-00001). 2. Thoracic nota. 3. Frontal process. 4. Detail of mesonotum. 5. Detail of mesonotum at high magnification. 6. Detail of metanotum.

Reference data and analysis software for "Four-color single-molecule imaging with engineered tags resolves the molecular architecture of signaling complexes in the plasma membrane"

Reference data set for the single molecule co-tracking analysis presented in "Four-color single-molecule imaging with engineered tags resolves the molecular architecture of signaling complexes in the plasma membrane". Corresponding author for further inquiries: Prof. Dr. Jacob Piehler University of Osnabrück, Department of Biology/Chemistry, Division of Biophysics, Barbarastr. 11, 49076 Osnabrück, Germany https://www.biophysik.uni-osnabrueck.de/

Associated code and data for "Multi-level computational modeling of anti-cancer dendritic cell vaccination utilized to select molecular targets for therapy optimization (doi: 10.3389/fcell.2021.74635)"

This deposit contains the data, code, and analysis to reproduce the results in the manuscript - Lai X, Keller C, Santos-Rosales G, Schaft N, Dörrie J, Vera J. Multi-level computational modeling of anti-cancer dendritic cell vaccination utilized to select molecular targets for therapy optimization. Frontiers in Cell and Developmental Biolology. 2022; 9:746359; <a href="https://www.researchgate.net/publication/358461035_Multi-Level_Computational_Modeling_of_Anti-Cancer_Dendritic_Cell_Vaccination_Utilized_to_Select_Molecular_Targets_for_Therapy_Optimization">doi:10.3389/fcell.2021.746359</a>. If you have used the code for your research, please cite the original publication. Thank you very much.

Diffraction-Limited Molecular Cluster Quantification with Bayesian Nonparametrics: Calibration Data

Calibration data accompanying our work, "Diffraction-Limited Molecular Cluster Quantification with Bayesian Nonparametrics" by J Bryan IV, I Sgouralis, and S Presse.

Diffraction-Limited Molecular Cluster Quantification with Bayesian Nonparametrics: 20 Binding Site Data A

This is the original data for the manuscript "Diffraction-Limited Molecular Cluster Quantification with Bayesian Nonparametrics" by J Bryan IV, I Sgouralis, and S Presse. This repository contains movies of DNA origami with 20 binding sites. Because this data set is too large to fit in one single repository we have split it up into parts. This is part A

Diffraction-Limited Molecular Cluster Quantification with Bayesian Nonparametrics: 20 Binding Site Data C

Diffraction-Limited Molecular Cluster Quantification with Bayesian Nonparametrics: 20 Binding Site Data B

Fig. 5 in Asplenium danxiaense sp. nov. (Aspleniaceae, Aspleniineae), a new tetraploid fern species from Guangdong, China, based on morphological and molecular data

Fig. 5. Spores of the new species Asplenium danxiaense K.W.Xu sp. nov. and its affinities. A, B. A. danxiaense K.W.Xu sp. nov. C. A. cornutissimum X.C.Zhang & R.H.Jiang. D. A. coenobiale Hance. E. A. pulcherrimum.(Baker) Ching ex Tardieu.

Fig. 2 in Asplenium danxiaense sp. nov. (Aspleniaceae, Aspleniineae), a new tetraploid fern species from Guangdong, China, based on morphological and molecular data

Fig. 2. The phylogenetic position of Asplenium danxiaense sp. nov. based on nuclear gene pgiC. The numbers associated with branches are maximum likelihood bootstrap (MLBS) values followed by bayesian inference posterior probabilities (PP). * indicates MLBS = 100% or PP=1.

Fig. 4. Asplenium danxiaense K.W in Asplenium danxiaense sp. nov. (Aspleniaceae, Aspleniineae), a new tetraploid fern species from Guangdong, China, based on morphological and molecular data

Fig. 4. Asplenium danxiaense K.W.Xu sp. nov. A. Danxia landform in the type locality of the new species. B. Habitat of the new species in a cave. C. Habit. D. Abaxial view of lamina. E. Abaxial view of lamina apex. F. Adaxial view of lamina. E. Rhizome and root.

Fig. 1 in Asplenium danxiaense sp. nov. (Aspleniaceae, Aspleniineae), a new tetraploid fern species from Guangdong, China, based on morphological and molecular data

Fig. 1. The phylogenetic position of Asplenium danxiaense K.W.Xu sp. nov. based on five plastid markers (atpB, rbcL, rps4-trnS, rpl32-trnP, and trnL-F). The numbers associated with branches are maximum likelihood bootstrap (MLBS) values followed by bayesian inference posterior probabilities (PP). * indicates MLBS = 100% or PP = 1.