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Fig. 10 in A synopsis of the Sabicea floribunda group (Rubiaceae) from Central Africa, including three new species

Fig. 10. – Distribution map of Sabicea proselyta (N. Hallé) Razafim. et al. (circles), S. rubiginosa O. Lachenaud, Zemagho & Sonké (stars) and S. sanguinosa (N. Hallé) Razafim. et al. (triangles: subsp. sanguinosa; squares: subsp. viridis O. Lachenaud, Zemagho & Sonké).

Fig. 3. – Sabicea couteronii O in A synopsis of the Sabicea floribunda group (Rubiaceae) from Central Africa, including three new species

Fig. 3. – Sabicea couteronii O. Lachenaud, Zemagho & Sonké. A. Flowering stem; B. Node with stipules; C. Detail of upper leaf surface; D. Detail of lower leaf surface; E. Node with paired inflorescences; F. Lower bract, inside; G. Upper bract, inside; H. Flower bud; I. Flower, lateral view; J. Flower, seen from above; K. Longitudinal section of flower; L. Longitudinal section of ovary and calyx; M. Fruit; N. Cross section of fruit. [A–L: Sonké & Zemagho 6341, BR; M–N: Sonké & Zemagho 6334, BR] [Drawing: H. de Vries

Fig. 2 in A synopsis of the Sabicea floribunda group (Rubiaceae) from Central Africa, including three new species

Fig. 2. – Seeds of Sabicea spp. viewed in electron microscopy. Sabicea proselyta (N. Hallé) Razafim. et al.: A. Entire seed; B. Detail of seed surface. Sabicea rubiginosa O. Lachenaud, Zemagho & Sonké: C. Entire seed; D. Detail of seed surface. Sabicea sanguinosa subsp. sanguinosa: E. Entire seed; F. Detail of seed surface. Sabicea segregata Hiern: G. Entire seed; H. Detail of seed surface. [A–B: van Valkenburg et al. 3140; C– D: Lachenaud et al. 2105; E– F: A. M. Louis & Reitsma 2004; G–H: J.J.F.E. de Wilde et al. 9485] [Photos: I. van der Beeten]

Sentiment Analysis outputs based on the combination of three classifiers for news headlines and body text

Sentiment Analysis outputs based on the combination of three classifiers for news headlines and body text covering the Olympic legacy of Rio 2016 and London 2012. Data was searched via Google search engine. It is composed of sentiment labels assigned to 1271 news articles in total. News outlets: <ul> <li>BBC</li> <li>Daily Mail</li> <li>The Telegraph</li> <li>The Guardian</li> <li>Globo</li> <li>Estadao</li> <li>Folha de S. Paulo</li> </ul> Events covered by the articles: <ul> <li>London 2012 Olympic legacy</li> <li>Rio 2016 Olympic legacy</li> </ul> All classifiers were used in texts in English. Text originally published in Portuguese by the Brazilian media were automatically translated. Sentiment classifiers used: <ul> <li>Vader</li> <li>BERT (Trained on Amazon data)</li> <li>BERT (Trained on twitter data - 140)</li> </ul> Each document (spreadsheet - xlsx) refers to one outlet and one event (London 2012 or Rio 2016). How were labels assigned to the texts? These labels are a combination of the three sentiment classifiers listed above. If two of them agree with the same label, then this label would be considered as right. Otherwise, the label ‘other’ was assigned. For news article body text: the proportion of sentences of each sentiment type was used to assign labels to the whole article instead of averaging the sentence scores. For example, if the proportion of sentences with negative labels is greater than 50%, then the article is assigned a negative label. The documents are composed of the following columns: <ul> <li>Rank: the position of the article on Google search ranking</li> <li>Date: date of article's publication (DD/MM/YYYY)</li> <li>Link: article's link</li> <li>Title: article's title</li> <li>Sentiment_Title: final sentiment for article headline</li> <li>Sentiment_Text: final sentiment for article's body text</li> </ul> PS: Documents do not include articles' body text. Sentiment is presented in labels as follows: <ul> <li>Pos: Positive</li> <li>Neg: Negative</li> <li>Neutral: Neutral</li> <li>other: inconclusive - if each of the 3 classifiers assigned a different label to the article, the label 'other' was used. Therefore, 'other' identifies contradictory results.</li> </ul>

opencc-by-4.0Jan 2022View details →

Supplementary material: Picosecond pulse-shaping for strong three-dimensional field-free alignment of generic asymmetric-top molecules

Supplementary material to the manuscript "Picosecond pulse-shaping for strong three-dimensional field-free alignment of generic asymmetric-top molecules" by Terry Mullins, Evangelos T. Karamatskos, Joss Wiese, Jolijn Onvlee, Arnaud Rouzée, Andrey Yachmenev, Sebastian Trippel, and Jochen Küpper, Nat Commun 13, 1431 (2022). <a href="https://doi.org/10.1038/s41467-022-28951-z">https://doi.org/10.1038/s41467-022-28951-z</a>, arXiv: <a href="https://arxiv.org/abs/2009.08157">2009.08157 </a> <ul> <li> simulations_part.z* is split zip archive containing simulations data for indole molecule, such as files with rotational probability density distributions computed at different times \(t=0..1500\) ps during the laser pulse and field-free evolution, and example python scripts for data retrieval.</li> <li>rawdata_part.z* is split zip archive containing raw experimental data.</li> <li>analysis_scripts.zip is zip archive containing experimental analysis codes.</li> </ul> The simulations_part.zip contains the following files and folders: <ul> <li>prob_density_euler_angles contains files rotdens_av_<time>.gz with simulated state-averaged rotational probability density distributions in terms of Euler angles for different times <time>, ranging from the beginning of the alignment laser pulse at \(t=0\) up to \(t=1500\) ps with a time step of 1 ps. Calculations of probability density distributions were done using <a href="https://github.com/CFEL-CMI/richmol">Richmol</a> program. The gzipped ASCII data files rotdens_av_<time>.gz contain in columns the values of the Euler angles \(\phi,\theta,\chi\) followed by the normalized probability density value.</li> <li>prob_density_atoms_xyz contains files monte_carlo_av_<time>.h5 with state-averaged rotational probability density distributions of all atoms in the indole molecule in terms of their Cartesian coordinates, for different times <time>, ranging from the beginning of the alignment pulse at \(t=0\) up to \(t=1500\) ps with a time step of 1 ps. Structure of monte_carlo_av_<time>.h5 HDF5 files: Key        Description -----        ---------------- 'C10'     - Cartesian coordinates of carbon atom no. 10 'C11'     - Cartesian coordinates of carbon atom no. 11 'C12'     - ... 'C14'     - ... 'C3'      - ... 'C6'      - ... 'C7'      - ... 'C9'      - ... 'N4'      - ... 'H1-C3'   - Cartesian coordinates of a vector pointing from carbon atom no. 3 to hydrogen atom no. 1 'H13-C11' - ... 'H15-C12' - ... 'H16-C14' - ... 'H2-N4'   - ... 'H5-C7'   - ... 'H8-C9'   - ... 'ref_vectors' - reference molecular-frame Cartesian coordinates of all atoms 'x'       - coordinates of the x-axis of Principal Axes of Inertia Frame 'y'       - coordinates of the y-axis of Principal Axes of Inertia Frame 'z'       - coordinates of the z-axis of Principal Axes of Inertia Frame 'pol_x'   - coordinates of the x-axis of Principal Axes of Polarizability Frame 'pol_y'   - coordinates of the y-axis of Principal Axes of Polarizability Frame 'pol_z'   - coordinates of the z-axis of Principal Axes of Polarizability Frame</li> <li>indole_deflected_states.txt ASCII file contains initial populations of rotational states of indole in the deflected beam. The following data is arranged in columns: m, J, id, energy, normalized population. The J and m are rotational quantum numbers of the total angular momentum and its Z-projection, the id number refers to the state's index in file indole_energies_j0_j20.txt listing rotational states of indole.</li> <li>indole_data.py Python module provides basic functions to extract information from HDF5 data files monte_carlo_av_<time>.h5. It can also be used to compute alignment and orientation.</li> <li>example_cos.py and example_dens.py Python scripts that demonstrate how to use indole_data.py module for computing and plotting alignment traces and a 2D projection of the probability density distribution, respectively.</li> <li>monte_carlo.py Python script that was used to compute through Monte-Carlo sampling probability density distributions for Cartesian positions of atoms in indole (monte_carlo_av_<time>.h5 files) using probability density distribution functions in Euler angles (outputs of Richmol program rotdens_av_<time>.gz).</li> </ul> The analysis_scripts.zip contains the following files and folders: <ul> <li>H_Plus folder contains codes relevant for the analysis of H+ ion data. <ul> <li>analyse_full_alignment_scans.m: subtracts background and combines delay scan data sets together, takes account of errors.</li> <li>calculate_resamped_df.m: called by analyse_full_alignment_scans.m to calculate the frequency sampling.</li> <li>unique_mean.m: called by analyse_full_alignment_scans.m when combining data sets. Combines non-unique data points into a single data point.</li> </ul> </li> <li>C_Plus2 folder contains codes for the analysis of C2+ ion data. The file descriptions are identical to those in the H_Plus directory.</li> <li>intensity/calculate_intensity.m: calculates peak intensity of the laser pulse from measured parameters as well as statistical error.</li> <li>intensity/compare_exp_sim.m: fits experimental and theoretical tomography and delay-dependent 2D projection values.</li> <li>intensity/nir2hdf5_kHz.py: converts raw data files (from rawdata_part.z* archive) into hdf5 files.</li> </ul>

Fig 12. A–C. Coletinia mendesi Wygodzinsky, 1980 in Three new species of European Coletinia Wygodzinsky (Zygentoma, Nicoletiidae), with additional records and an updated identification key

Fig 12. A–C. Coletinia mendesi Wygodzinsky, 1980, ♂ from Palenciana (Córdoba) (UCO, Ref. Z2643). A. Micrograph of the male urotergite X, focused dorsally. B. Idem ventrally; while the dorsal focus shows an almost straight hind margin, in the ventral focus a concave shape is visible between the posterolateral lobes. C. Micrograph of a mandible showing the macrochaetae of its outer margin, more numerous than in other species of the genus. D. Coletinia jeanneli (Silvestri, 1938), ♂. Urosternite VIII of the male according to the original design of Silvestri (1938). E. Coletinia tessella Molero, Bach & Gaju, 2013, ♂ from the type locality. Micrograph of urosternite VIII. Scale bars = 0.1 mm.

Fig. 10 in Three new species of European Coletinia Wygodzinsky (Zygentoma, Nicoletiidae), with additional records and an updated identification key

Fig. 10. Coletinia serrata Mendes, Molero-Baltanás, Bach de Roca & Gaju-Ricart sp. nov. Holotype, ♂ (MUHNAC, CZ-5646). A. Labial palp. B. First leg, except coxa. C. Femur and tibia of the second leg. D. Metatibia. E. Urotergite II. Scale bars = 0.1 mm.

Fig. 9 in Three new species of European Coletinia Wygodzinsky (Zygentoma, Nicoletiidae), with additional records and an updated identification key

Fig. 9. Coletinia serrata Mendes, Molero-Baltanás, Bach de Roca & Gaju-Ricart sp. nov. Holotype, ♂ (MUHNAC, CZ-5646). A. Frons, clypeus and labrum. B. Left antenna: scapus, pedicel with apophysis and basal annuli of the flagellum. C. Idem of the right antenna. D. Detail of the apophysis of the left pedicel. E. Micrograph of the apical part of the apophysis of the left pedicel. F. Sensilla of the apical part of the last article of the maxillary palp. G. Maxillary palp. Scale bars: A, D, F–G = 0.1 mm; B–C = 0.2 mm; E = 50 μm.

Fig. 8 in Three new species of European Coletinia Wygodzinsky (Zygentoma, Nicoletiidae), with additional records and an updated identification key

Fig. 8. Coletinia dextra Molero-Baltanás, Bach de Roca & Gaju-Ricart sp. nov. Holotype, ♂ (MNCN_ Ent 283557). A. Urotergite II. B. Urotergite X. C. Detail of the hind margin and posterolateral lobes and pegs of the urotergite X. D. Urosternite V. E. Urosternite VIII. F. Left cercus. G. Paracercus. H. Right cercus. All terminal filaments in dorsal view. Scale bars = 0.1 mm.

Fig. 5 in Three new species of European Coletinia Wygodzinsky (Zygentoma, Nicoletiidae), with additional records and an updated identification key

Fig. 5. Coletinia dalmatica Molero-Baltanás, Fišer, Bach de Roca & Gaju-Ricart sp. nov. A, C–D. Paratype, ♀ (MNCN_Ent 283559). B. Holotype, ♂ (MNCN_Ent 283558). A. Apex of the gonapophysis IX. B. First and second divisions of the cercus. C. First and second divisions of the cercus. D. Detail of the limit between the first and the second division of the cercus. Scale bars = 0.1 mm.

Fig. 4 in Three new species of European Coletinia Wygodzinsky (Zygentoma, Nicoletiidae), with additional records and an updated identification key

Fig. 4. Coletinia dalmatica Molero-Baltanás, Fišer, Bach de Roca & Gaju-Ricart sp. nov. A–B, E–F. Holotype, ♂ (MNCN_Ent 283558). C–D, G. Paratype, ♀ (MNCN_Ent 283559). A. Urotergite X. B. Detail of the posterolateral lobe of the urotergite X, showing pegs. C. Urotergite X. D. Urosternite VII. E. Hind margin of the right half of the urosternite VIII. F. Coxite and styli IX, paramere and penis. G. Subgenital plate. Scale bars = 0.1 mm.

Fig. 3 in Three new species of European Coletinia Wygodzinsky (Zygentoma, Nicoletiidae), with additional records and an updated identification key

Fig. 3. Coletinia dalmatica Molero-Baltanás, Fišer, Bach de Roca & Gaju-Ricart sp. nov. Holotype, ♂ (MNCN_Ent 283558). A. Mandible. B. Maxilla and maxillary palp. C. Labial palps and anterior part of the labium. D. Thoracic nota. E. First leg, excluding apical tarsomeres. F. Femur, tibia, tarsal articles and praetarsus of the third leg. Scale bars: A, C, F = 0.1 mm; B, D–E = 0.2 mm.

Fig. 11 in Three new species of European Coletinia Wygodzinsky (Zygentoma, Nicoletiidae), with additional records and an updated identification key

Fig. 11. Coletinia serrata Mendes, Molero-Baltanás, Bach de Roca & Gaju-Ricart sp. nov. Holotype, ♂ (MUHNAC, CZ-5646). A. Urotergite X. B. Detail of the posterolateral lobe of the urotergite X, with pegs. C. Urosternite V. D. Hind margin of the urosternite VIII. E. Coxite IX, stylus IX and paramere. F. Detail of the apical part of the paramere. G. First and second division of the cercus. H. First and basal divisions of the paracercus. Scale bars = 0.1 mm.

Fig. 1 in Three new species of European Coletinia Wygodzinsky (Zygentoma, Nicoletiidae), with additional records and an updated identification key

Fig. 1. Characters of taxonomic interest in Coletinia Wygodzinsky, 1980. A–C. Coletinia tinauti Molero, Gaju & Bach, 1997, holotype. A. Micrographs of a pedicellar apophysis. B. Urotergite X. C. Basal part of the left cercus. Abbreviations: C1, C2 and C3 = first, second and third divisions of the cercus (the limit between the first and the second is better in focus); D = disc of the urotergite; id = spines or pegs inserted inner dorsal position; the first id spine in the C2 has blunt apex and can be considered as a peg; iL = inner length of the apophysis; iv = spines inserted in inner ventral position; Ms = marginal setae; oL = outer length of the apophysis; P = pedicel; Ss = submarginal setae.

Fig. 13. – Sabicea sanguinosa subsp. viridis O in A synopsis of the Sabicea floribunda group (Rubiaceae) from Central Africa, including three new species

Fig. 13. – Sabicea sanguinosa subsp. viridis O. Lachenaud, Zemagho & Sonké: A. Inflorescence (short-styled flowers); B. Mature infructescence. Sabicea segregata Hiern: C. Flowering stem; D. Detail of inflorescence with short-styled flowers; E. Stem with immature fruits; F. Mature infructescence. [A–B: Lachenaud et al. 1918; C: Dessein et al. 2148; D: Bidault et al. 1316; E: Dessein et al. 1862; F: Sonké & Ikabanga 6139] [Photos: A: O. Lachenaud; B: D.I. Lafferty; C, E: S. Dessein; D: E. Bidault; F: B. Sonké]

Fig. 12. – Sabicea rubiginosa O in A synopsis of the Sabicea floribunda group (Rubiaceae) from Central Africa, including three new species

Fig. 12. – Sabicea rubiginosa O. Lachenaud, Zemagho & Sonké: A. Plant with flowers and fruits; B. Lower side of leaf; C. Inflorescence; D. Infructescence with mature (white) and immature fruits (green). Sabicea sanguinosa subsp. sanguinosa: E. Apex of flowering stem. Sabicea sanguinosa subsp. viridis O. Lachenaud, Zemagho & Sonké: F. Stem with flowers and fruits, note bullate leaves. [A: Sonké & Ikabanga 6155; B, D: Lachenaud et al. 2105; C: Bidault et al. 1329; F: Bidault et al. 1691] [Photos: A: B. Sonké; B, D: O. Lachenaud; C, F: E. Bidault; E: J.-P. Vande weghe]

Fig. 7 in A synopsis of the Sabicea floribunda group (Rubiaceae) from Central Africa, including three new species

Fig. 7. – Sabicea floribunda var. floribunda: A. Inflorescence. Sabicea floribunda var. paucinervis Wernham: B. Fruits. Sabicea nobilis R.D. Good: C. Lower side of leaf; D. Stem with mature infructescence. Sabicea proselyta (N. Hallé) Razafim. et al.: E. Fruiting stem; F. Mature infructescence. [A: near Tchimbélé, Gabon, plant not collected; B: Sonké 5915; C–D: Texier et al. 706; E: Sonké & Zemagho 6329; F: van Valkenburg et al. 3140] [Photos: A: S. Dessein; B: B. Sonké; C–D: N. Texier; E: B. Sonké; F: J. Degreef]

Fig. 2 in Three new species of European Coletinia Wygodzinsky (Zygentoma, Nicoletiidae), with additional records and an updated identification key

Fig. 2. Coletinia dalmatica Molero-Baltanás, Fišer, Bach de Roca & Gaju-Ricart sp. nov. Holotype, ♂ (MNCN_Ent 283558). A. Head and frons. B. Clypeus and labrum. C. Pedicellar apophysis. D. Micrograph of the same apophysis. Scale bars: A–C = 0.1 mm; D = 0.2 mm.

Fig. 6 in Three new species of European Coletinia Wygodzinsky (Zygentoma, Nicoletiidae), with additional records and an updated identification key

Fig. 6. Coletinia dextra Molero-Baltanás, Bach de Roca & Gaju-Ricart sp. nov. Holotype, ♂ (MNCN_ Ent 283557). A. Head. B. Right antenna: pedicel with apophysis and basal annuli of the flagellum. C. Idem, micrograph. D. Left antenna: pedicel with apophysis and basal annuli of the flagellum. Scale bars: A = 0.2 mm; B–D = 0.1 mm.

Raw Data for the article: Changes in the Transcriptome Profiles of Human Amnion-Derived Mesenchymal Stromal/Stem Cells Induced by Three-Dimensional Culture: A Potential Priming Strategy to Improve Their Properties

Mesenchymal stromal/stem cells (MSCs) are believed to function in vivo as a homeostatic tool that shows therapeutic properties for tissue repair/regeneration. Conventionally, these cells are expanded in two-dimensional (2D) cultures, and, in that case, MSCs undergo genotypic/phenotypic changes resulting in a loss of their therapeutic capabilities. Moreover, several clinical trials using MSCs have shown controversial results with moderate/insufficient therapeutic responses. Different priming methods were tested to improve MSC effects, and three-dimensional (3D) culturing techniques were also examined. MSC spheroids display increased therapeutic properties, and, in this context, it is crucial to understand molecular changes underlying spheroid generation. To address these limitations, we performed RNA-seq on human amnion-derived MSCs (hAMSCs) cultured in both 2D and 3D conditions and examined the transcriptome changes associated with hAMSC spheroid formation. We found a large number of 3D culture-sensitive genes and identified selected genes related to 3D hAMSC therapeutic effects. In particular, we observed that these genes can regulate proliferation/differentiation, as well as immunomodulatory and angiogenic processes. We validated RNA-seq results by qRT-PCR and methylome analysis and investigation of secreted factors. Overall, our results showed that hAMSC spheroid culture represents a promising approach to cell-based therapy that could significantly impact hAMSC application in the field of regenerative medicine.