Abstract: The rapid preparation of homogeneous suspensions of micro- or nano-crystals is a crucial step in serial crystallography. We show how additives, such as the crystallophore (TbXo4) that acts as a molecular glue by promoting protein-protein interactions, can facilitate sample preparation for both serial synchrotron crystallography (SSX) and micro electron diffraction (3D ED). This lanthanide complex was used here for its nucleating properties to crystallize hen egg white lysozyme. SAXS monitoring indicates that crystals formed in a few minutes in low salt conditions that would not lead to spontaneous nucleation. Resulting micro- and nano-crystals were successfully used to determine the structure of the lysozyme-TbXo4 complex by SSX and 3D ED, illustrating the diffraction quality of the produced crystals and the usefulness of such compounds in the sample preparation pipeline for serial crystallography

The nucleating agent crystallophore induces instant protein crystallization.;Eric Girard;2024;European Synchrotron Radiation Facility


Abstract:
v1.0 R-Code of Machine learning prediction of element concentration in soil used in

Jones, G. D.; Droz, B.; Greve, P.; Gottschalk, P.; Poffet, D.; McGrath, S. P.; Seneviratne, S. I.; Smith, P.; Winkel, L. H. E., Selenium deficiency risk predicted to increase under future climate change. Proceedings of the National Academy of Sciences 2017, 114, (11).

Droz, B.; Payraudeau, S.; Rodríguez Martín, J. A.; Tóth, G.; Panagos, P.; Montanarella, L.; Borrelli, P.; Imfeld, G., Copper content and export in European vineyard soils influenced by climate and soil properties. Environ. Sci. Technol. 2021, 55, (11), 7327–7334.

A suite of tool and Machine Learning technics and algorythm to predict top soil concentration. Could be used with modification for other continuous data. Files should be used in order 1. variables selections, 2.Models projection, 3.Models prediction and 4.Models averaging

R-Code for "Copper content and export in European vineyard soils influenced by climate and soil properties";Boris Droz;2022;Zenodo


Abstract: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.

CCDC 2313873: Experimental Crystal Structure Determination;Wang, Xin-Yao;2024;Cambridge Crystallographic Data Centre

tetracosakis(mu-4-(trimethylammonio)benzenethiolato)-docosa-silver icosakis(hexafluorophosphate) diethyl ether methanol solvate

Related Article: Xin-Yao Wang, Wei Meng, Hong-Ping Xie, Dan-Na Song, Ming-Hao Du, Jin-Xiang Chen, Pierre Braunstein, Jian-Ping Lang|2024|Inorg.Chem.|63|13014|doi:10.1021/acs.inorgchem.4c01735


CCDC 2313875: Experimental Crystal Structure Determination;Wang, Xin-Yao;2024;Cambridge Crystallographic Data Centre


Abstract: This data set was used to examine changes in demographic rates and population size in a population of Columbian ground squirrels (<i>Urocitellus columbianus</i>) studied over 32 years (1992-2023), in Alberta, Canada. The data stems from a long-term research project initiated by Jan O Murie and later maintained by F Stephen Dobson and Vincent A Viblanc. The study is now part of the long-term Studies in Ecology and Evolution (SEE-Life) program of the CNRS.

<b>The demographic basis of population growth: a 32-year transient life table response experiment </b>;F. Stephen Dobson;2024;figshare

Natural Sciences and Engineering Research Council


Abstract: This dataset reports major and trace elements, Sr and Nd isotopic ratios, carbonate C and O isotopic ratios, and mineral chemistry of Eocene (~35 Ma) magmatic rocks from the Nangqian basin, Eastern Qiangtang, Central Tibet. Samples have microlithic to microphaneritic porphyritic textures. Trachydacites show K-feldspar, plagioclase and amphibole phenocrysts in a matrix of feldspar + amphibole + biotite + quartz + oxides; tranchyandesites show clinopyroxene, apatite and resorbed biotite phenocrysts in a matrix of feldspar + clinopyroxene + oxides. One intrusive outcrop of porphyritic syenite was also sampled, composed of clinopyroxene and biotite phenocrysts in a matrix of feldspar + clinopyroxene + biotite + apatite + oxides. Whole-rock major and trace elements were measured at ISTerre, University Grenoble Alpes. The SARM-CRPG in Nancy and SEDISOR in Brest performed the whole-rock Sr and Nd isotope analyses. In-situ major-element compositions of mineral phases were obtained using the JEOL JXA-8230 Electron Microprobe at ISTerre, University Grenoble Alpes. Stable isotope analysis of carbonates was carried out in the stable isotope laboratory of Geoscience Rennes, CNRS-University of Rennes I. These geochemical data suggest that the source of the Eocene magmas in Nangqian was a H2O- and CO2-enriched lithospheric mantle. A full discussion of the results can be found in the related article.

Whole-rock and mineral chemistry of magmatic rocks from the Nangqian basin (Eastern Tibet);Fanny Goussin;2020;PANGAEA


supplementary publication series of datasets

Abstract: A 601 m long sedimentary sequence was drilled in Lake Acigöl, located in the lakes region of SW Anatolia, near the Denizli travertine from which the oldest hominin of Turkey was unearthed. Among all dating methods applied to the sedimentary sequence, paleomagnetism, through the recognition of geomagnetic chrons, was the most successful and led to a quasi linear age model, with the 601 m long sedimentary record covering the last 2.3 Ma. An attempt to use the atmospherically deposited 10Be as a dating method was not very successful but provides interesting clues on this new method. Long-term lake level changes are depicted through lithological variations, in particular the carbonates and evaporites abundance. This change could be influenced by both long term cooling during the last 2 Ma and tectonic activity, which may in particular be responsible for a maximum water depth at around 1.8 Ma. Despite active tectonic influence, the sedimentary facies description and the magnetic susceptibility record (cleaned from tephra intervals) show that climate fluctuations (i.e., glacial-interglacial alternations) are likely recorded in the sedimentary succession, with warm periods marked by enhanced carbonate precipitation and cold and dry periods characterized by more detrital input linked to reduced vegetation cover and consequently more erosion in the catchment area. Preliminary pollen data, used to interpret magnetic susceptibility fluctuations, show that an average dry and open landscape prevailed around Acigöl lake during the whole record.

Chronostratigraphy, mineralogy, susceptibility and inclination measurements of Quaternary sediment core samples from Lake Acigöl;François Demory;2019;PANGAEA

Supplement to: Demory, François; Rambeau, Claire; Lebatard, Anne-Elisabeth; Perrin, Mireille; Blawal, Syed; Andrieu-Ponel, Valerie; Rochette, Pierre; Alçiçek, Hülya; Boulbes, Nicolas; Bourlès, Didier L; Helvaci, Cahit; Petschick, Rainer; Mayda, Serdar; Moigne, Anne-Marie; Nomade, Sébastien; Ponel, Philippe; Vialet, Amélie; Alçiçek, Mehmet Cihat; Aumaître, Georges; Keddadouche, Karim (2020): Chronostratigraphy, depositional patterns and climatic imprints in Lake Acigöl (SW Anatolia) during the Quaternary. Quaternary Geochronology, 56, 101038


Abstract: The evolution of permeability and its effective stress behavior is related to inelastic deformation and failure mode. This was systematically investigated in Indiana and Purbeck limestones with porosities of 16% and 14%, respectively. High‐pressure compression tests were conducted at room temperature on water‐saturated samples. At relatively high confinement shear‐enhanced compaction was observed to initiate at a critical stress, accompanied by significant permeability reduction of up to a factor of ~3. Overall, the permeability reduction due to inelastic compaction in our limestones is smaller than that observed in sandstones. At relatively low confinement, dilatant failure was observed, which was accompanied by a decrease and increase of permeability in Indiana and Purbeck limestones, respectively. There seems to be a trend for the correlation between porosity and permeability changes to switch from positive to negative with increasing porosity. The void space of both limestones has significant proportions of macropores and micropores. The effective stress behavior of such a limestone with dual porosity has been documented to be different from the prediction for a microscopically homogeneous assemblage, in that its effective stress coefficients for permeability and pore volume change may attain values significantly >1. In contrast, our investigation of damaged samples consistently showed effective stress coefficients for both permeability and pore volume change with values <1. This suggests that the behavior in the damaged samples is akin to that of a microscopically homogeneous assemblage, possibly due to pervasive collapse of macropores that would effectively homogenize the initially bimodal pore size distribution.

The effect of stress on limestone permeability and effective stress behavior of damaged samples - original data used for figures;Fanbao Meng;2018;PANGAEA

Supplement to: Meng, Fanbao; Baud, Patrick; Ge, Hongkui; Wong, Teng-fong (2019): The Effect of Stress on Limestone Permeability and Effective Stress Behavior of Damaged Samples. Journal of Geophysical Research: Solid Earth, 124(1), 376-399


Abstract: Adult and juvenile emperor penguins (Aptenodytes forsteri) were fitted with different type of loggers (GPS, TDR, ARGOS) at Atka Bay colony (Queen Maud Land), Weddell Sea coast, in summer season 2017-2018 & 2018-2019. Capture, handling and deployment techniques are shared through several additional files.

Biologging of emperor penguins - attachment techniques and deployment performance, links to the footage and slideshows;Aymeric Houstin;2022;PANGAEA


CCDC 1949024: Experimental Crystal Structure Determination;Kuzniak, Emilia;2020;Cambridge Crystallographic Data Centre

Related Article: Emilia Kuzniak, James Hooper, Monika Srebro-Hooper, Jedrzej Kobylarczyk, Magdalena Dziurka, Bogdan Musielak, Dawid Pinkowicz, Jesus Raya, Sylvie Ferlay, Robert Podgajny
|2020|Inorg.Chem.Front.|7|1851|doi:10.1039/D0QI00101E


CCDC 1949025: Experimental Crystal Structure Determination;Kuzniak, Emilia;2020;Cambridge Crystallographic Data Centre

bis(tetraphenylphosphonium) tetracyano-platinum(ii) pyrazine-2,3,5,6-tetracarbonitrile dichloromethane solvate


CCDC 1949026: Experimental Crystal Structure Determination;Kuzniak, Emilia;2020;Cambridge Crystallographic Data Centre


CCDC 1949027: Experimental Crystal Structure Determination;Kuzniak, Emilia;2020;Cambridge Crystallographic Data Centre


CCDC 1955627: Experimental Crystal Structure Determination;Pertschi, Romain;2020;Cambridge Crystallographic Data Centre

Related Article: Romain Pertschi, Delphine Hatey, Patrick Pale, Pierre de Frémont, Aurélien Blanc|2020|Organometallics|39|804|doi:10.1021/acs.organomet.9b00850


CCDC 1992570: Experimental Crystal Structure Determination;Verron, Raphaël;2020;Cambridge Crystallographic Data Centre

Related Article: Raphaël Verron,  Thierry Achard,  Cendrine Seguin,  Sylvie Fournel,  Stéphane Bellemin-Laponnaz|2020|Eur.J.Inorg.Chem.|2020|2552|doi:10.1002/ejic.202000329


Related Article: chahra bouchameni|2020|CSD Communication||| Related Article: BOUCHAMENI Chahra, ZEGHOUAN Ouahida, Mahesha, A.H Udaya Kumar, BEGHIDJA Chahrazed, WELTER Richard, N.K. Lokanath|2022|J.Mol.Struct.|1275|134716|doi:10.1016/j.molstruc.2022.134716

CCDC 2050551: Experimental Crystal Structure Determination;bouchameni, chahra;2020;Cambridge Crystallographic Data Centre


Related Article: chahra bouchameni|2021|CSD Communication||| Related Article: BOUCHAMENI Chahra, ZEGHOUAN Ouahida, Mahesha, A.H Udaya Kumar, BEGHIDJA Chahrazed, WELTER Richard, N.K. Lokanath|2022|J.Mol.Struct.|1275|134716|doi:10.1016/j.molstruc.2022.134716

CCDC 2050552: Experimental Crystal Structure Determination;bouchameni, chahra;2021;Cambridge Crystallographic Data Centre


Related Article: Zhao-Bo Hu, Xin Feng, Jing Li, Yi-Quan Zhang, Lei Yin, Zhenxing Wang, Zhongwen Ouyang, Mohamedally Kurmoo, You Song|2020|Dalton Trans.|49|2159|doi:10.1039/C9DT04403E

CCDC 1915925: Experimental Crystal Structure Determination;Hu, Zhao-Bo;2020;Cambridge Crystallographic Data Centre


bis{2,2'-(1-phenylpropane-2,2-diyl)bis[4-isopropyl-4,5-dihydro-1,3-oxazole]}-zinc(ii) bis[tetrafluoroborate] dichloromethane diethyl ether solvate

Related Article: Maya Marinova, Antoine Bonnefont, Thierry Achard, Aline Maisse-François, Stéphane Bellemin-Laponnaz|2020|Chem.Commun.|56|8703|doi:10.1039/D0CC01716G

CCDC 1984727: Experimental Crystal Structure Determination;Marinova, Maya;2020;Cambridge Crystallographic Data Centre


Related Article: Youssef Atoini, Jack Harrowfield, Pierre Thuéry|2024|CrystEngComm|26|3714|doi:10.1039/D4CE00381K

CCDC 2347791: Experimental Crystal Structure Determination;Atoini, Youssef;2024;Cambridge Crystallographic Data Centre


CCDC 2347792: Experimental Crystal Structure Determination;Atoini, Youssef;2024;Cambridge Crystallographic Data Centre


catena-[(4-(azaniumylmethyl)benzoato)-(mu-1,2,2-trimethylcyclopentane-1,3-dicarboxylato)-dioxo-uranium acetonitrile unknown solvate monohydrate]

CCDC 2347793: Experimental Crystal Structure Determination;Atoini, Youssef;2024;Cambridge Crystallographic Data Centre


CCDC 2347794: Experimental Crystal Structure Determination;Atoini, Youssef;2024;Cambridge Crystallographic Data Centre


CCDC 2347795: Experimental Crystal Structure Determination;Atoini, Youssef;2024;Cambridge Crystallographic Data Centre


CCDC 2347796: Experimental Crystal Structure Determination;Atoini, Youssef;2024;Cambridge Crystallographic Data Centre


CCDC 2347797: Experimental Crystal Structure Determination;Atoini, Youssef;2024;Cambridge Crystallographic Data Centre


Abstract: Aim: Novel thiazole hybrids were synthesized via thiazolation of 4-phenylthiosemicarbazone (4). Materials & methods: The anticancer activity against the NCI 60 cancer cell line panel. Results: Methyl 2-(2-((1-(naphthalen-2-yl)ethylidene)hydrazineylidene)-4-oxo-3-phenylthiazolidin-5-ylidene)acetate (6a) showed significant anticancer activity at 10 μM with a mean growth inhibition (GI) of 51.18%. It showed the highest cytotoxic activity against the ovarian cancer OVCAR-4 with an IC50 of 1.569 ± 0.06 μM. Compound 6a inhibited PI3Kα with IC50 = 0.225 ± 0.01 μM. Moreover, compound 6a revealed a decrease of Akt and mTOR phosphorylation in OVCAR-4 cells. In addition, antibacterial activity showed that compounds 11 and 12 were the most active against Staphylococcus aureus. Conclusion: Compound 6a is a promising molecule that could be a lead candidate for further studies. Novel naphthalene-azine-thiazole hybrids 5-12 were synthesized via late-stage thiazolation of the corresponding 4-phenylthiosemicarbazone 4. Compound 6a showed significant anticancer activity at single-dose screening and yielded excellent inhibitory activity with a mean GI of 51.18%. Compound 6a showed the highest cytotoxic activity against OVCAR-4 with an IC50 of 1.569 ± 0.06 μM. Moreover, compound 6a exhibited an IC50 of 31.89 ± 1.19 μM against normal ovarian cell line (OCE1) and a selectivity index of 19.1. Compound 6a inhibited PI3Kα with IC50 = 0.225 ± 0.01 μM compared with alpelisib (IC50 = 0.061 ± 0.003 μM). Moreover, compound 6a revealed a powerful decrease of Akt and mTOR phosphorylation in the OVCAR-4 cell line. The cell cycle analysis showed that compound 6a caused an arrest at the G2/M phase. The compound also increased the total apoptosis by 26.8-fold and raised the level of caspase-3 by 4.34 times in OVCAR-4. In addition, antibacterial activity was estimated against Gram-positive and Gram-negative bacterial strains. Compounds 11 and 12 were the most active derivatives, with MIC value of 256 μg/ml against Staphylococcus aureus. Molecular docking was done and showed that 6a interlocked and fitted well into the ATP binding site of PI3Kα kinase (Protein Data Bank ID: 4JPS) with a fitness value (-119.153 kcal/mol) and forms the key H-bonds with Val851 and Ser854 like the marketed PI3Kα inhibitor alpelisib. Consequently, 6a is the most promising molecule that could be a lead candidate for further studies. A series of naphthalene-azine-thiazole derivatives were synthesized and evaluated for their anticancer and antibacterial activity. These findings propose that compound 6a has cytotoxic properties and is a starting structure for a new generation of PI3Kα kinase inhibitors. A series of naphthalene–azine–thiazole derivatives were synthesized. The characterization of all the synthesized compounds was carried out using several analytical and spectroscopic techniques. The synthesized compounds were tested against various cancer cell lines and antibacterial. Benzenesulfonamide derivative 11 and the coumarin-containing derivative 12 showed the highest antibacterial activity with MIC value of 256 μg/ml against S. aureus. Compound 6a showed the highest activity against the ovarian cancer cell line OVCAR-4 with an IC50 of 1.569 ± 0.06 μM. Compound 6a inhibited PI3Kα with IC50 = 0.225 ± 0.01 μM compared with alpelisib (IC50 = 0.061 ± 0.003 μM). Compound 6a inhibited the growth of OVCAR-4 cells during the G2/M phase and increased total apoptosis by 26.8-fold. Compound 6a interlocked and fitted well into the ATP binding site of PI3Kα kinase (Protein Data Bank ID: 4JPS) with a fitness value (-119,153 kcal/mol).

Chemical Sciences not elsewhere classified

Biological Sciences not elsewhere classified

Thiazolation of phenylthiosemicarbazone to access new thiazoles: anticancer activity and molecular docking;Walid E Elgammal;2024;Taylor & Francis


Related Article: Senthil Kumar Kuppusamy, Asato Mizuno, Lea Kämmerer, Soma Salamon, Benoît Heinrich, Corinne Bailly, Ivan Šalitroš, Heiko Wende, Mario Ruben|2024|Dalton Trans.|53|10851|doi:10.1039/D4DT00429A

CCDC 1988543: Experimental Crystal Structure Determination;Kuppusamy, Senthil Kumar;2024;Cambridge Crystallographic Data Centre


bis[ethyl 2,6-bis(1H-pyrazol-1-yl)pyridine-4-carboxylate]-iron(ii) bis(tetrafluoroborate) acetonitrile solvate

CCDC 2330938: Experimental Crystal Structure Determination;Kuppusamy, Senthil Kumar;2024;Cambridge Crystallographic Data Centre


CCDC 2340087: Experimental Crystal Structure Determination;Kuppusamy, Senthil Kumar;2024;Cambridge Crystallographic Data Centre

bis{[2,6-bis(1H-pyrazol-1-yl)pyridin-4-yl]methyl acetate}-iron(ii) bis(perchlorate) acetonitrile solvate


CCDC 1560719: Experimental Crystal Structure Determination;Kuppusamy, Senthil Kumar;2024;Cambridge Crystallographic Data Centre


CCDC 1913041: Experimental Crystal Structure Determination;Kuppusamy, Senthil Kumar;2024;Cambridge Crystallographic Data Centre


CCDC 1953349: Experimental Crystal Structure Determination;Kuppusamy, Senthil Kumar;2024;Cambridge Crystallographic Data Centre


CCDC 2313287: Experimental Crystal Structure Determination;Kalita, Pankaj;2024;Cambridge Crystallographic Data Centre

Related Article: Pankaj Kalita, Kusum Kumari, Pawan Kumar, Vierandra Kumar, Saurabh Kumar Singh, Guillaume Rogez, Vadapalli Chandrasekhar|2024|Dalton Trans.|53|10521|doi:10.1039/D4DT00803K


CCDC 2313288: Experimental Crystal Structure Determination;Kalita, Pankaj;2024;Cambridge Crystallographic Data Centre


CCDC 2313290: Experimental Crystal Structure Determination;Kalita, Pankaj;2024;Cambridge Crystallographic Data Centre


CCDC 2313286: Experimental Crystal Structure Determination;Kalita, Pankaj;2024;Cambridge Crystallographic Data Centre


Abstract: This data set concerns the paper by Tamian et al. 2024 "Population density and vegetation resources influence demography in a hibernating herbivorous mammal" published in Oecologia. The study examines how forage availability (vegetation assessed through NDVI) and population density affected the functional traits and demographic rates of a population of Columbian ground squirrels (Urocitellus columbianus), over a 32-year period.

<b>Population density and vegetation resources influence demography in a hibernating herbivorous mammal</b>;Anouch Tamian;2024;figshare


Related Article: Youming Huang, Xinghan Li, Binh Khanh Mai, Emily J. Tonogai, Amanda J. Smith, Paul J. Hergenrother, Peng Liu, Amir H. Hoveyda |2024|Nature Chemistry|16|1003|doi:10.1038/s41557-024-01455-7

CCDC 2237819: Experimental Crystal Structure Determination;Huang, Youming;2024;Cambridge Crystallographic Data Centre


CCDC 1968632: Experimental Crystal Structure Determination;Huang, Youming;2024;Cambridge Crystallographic Data Centre


Transfer of sulfur and chalcophile metals via sulfide-volatile compound drops in the Christiana-Santorini-Kolumbo volcanic field;Clifford Patten;2024;figshare


Related Article: Jaison Casas, Stéphane A. Baudron, Antoine Bonnefont, Alain Chaumont, Jérôme Chauvin, Pierre Mobian, Laurent Ruhlmann|2024|Inorg.Chem.|63|10057|doi:10.1021/acs.inorgchem.4c01389

CCDC 2314539: Experimental Crystal Structure Determination;Casas, Jaison;2024;Cambridge Crystallographic Data Centre


CCDC 2314540: Experimental Crystal Structure Determination;Casas, Jaison;2024;Cambridge Crystallographic Data Centre


Related Article: Noah Schwarz, Frederic Krätschmer, Nithin Suryadevara, Sören Schlittenhardt, Mario Ruben, Peter W. Roesky|2024|Inorg.Chem.|63|9520|doi:10.1021/acs.inorgchem.3c03374

CCDC 2295038: Experimental Crystal Structure Determination;Schwarz, Noah;2024;Cambridge Crystallographic Data Centre


CCDC 2295039: Experimental Crystal Structure Determination;Schwarz, Noah;2024;Cambridge Crystallographic Data Centre


CCDC 2295040: Experimental Crystal Structure Determination;Schwarz, Noah;2024;Cambridge Crystallographic Data Centre


CCDC 2295041: Experimental Crystal Structure Determination;Schwarz, Noah;2024;Cambridge Crystallographic Data Centre


CCDC 2295042: Experimental Crystal Structure Determination;Schwarz, Noah;2024;Cambridge Crystallographic Data Centre


CCDC 2295043: Experimental Crystal Structure Determination;Schwarz, Noah;2024;Cambridge Crystallographic Data Centre


CCDC 2295044: Experimental Crystal Structure Determination;Schwarz, Noah;2024;Cambridge Crystallographic Data Centre


CCDC 2295045: Experimental Crystal Structure Determination;Schwarz, Noah;2024;Cambridge Crystallographic Data Centre


CCDC 2295046: Experimental Crystal Structure Determination;Schwarz, Noah;2024;Cambridge Crystallographic Data Centre


CCDC 1904165: Experimental Crystal Structure Determination;Thuéry, Pierre;2019;Cambridge Crystallographic Data Centre

Related Article: Pierre Thuéry, Youssef Atoini, Jack Harrowfield|2019|Inorg.Chem.|58|6550|doi:10.1021/acs.inorgchem.9b00804


CCDC 2253092: Experimental Crystal Structure Determination;Mobian, Pierre;2024;Cambridge Crystallographic Data Centre

Related Article: Pierre Mobian, David-Jérôme Pham, Alain Chaumont, Laurent Barloy, Georges Khalil, Nathalie Kyritsakas|2024|J.Am.Chem.Soc.|146|14067|doi:10.1021/jacs.4c02352


CCDC 2253093: Experimental Crystal Structure Determination;Mobian, Pierre;2024;Cambridge Crystallographic Data Centre


CCDC 2253094: Experimental Crystal Structure Determination;Mobian, Pierre;2024;Cambridge Crystallographic Data Centre


CCDC 2253095: Experimental Crystal Structure Determination;Mobian, Pierre;2024;Cambridge Crystallographic Data Centre


CCDC 2253096: Experimental Crystal Structure Determination;Mobian, Pierre;2024;Cambridge Crystallographic Data Centre


CCDC 2253097: Experimental Crystal Structure Determination;Mobian, Pierre;2024;Cambridge Crystallographic Data Centre


Related Article: Timothée Stoerkler, Gilles Ulrich, Pascal Retailleau, Adèle D. Laurent, Denis Jacquemin, Julien Massue|2024|Chemical Science|15|7206|doi:10.1039/D4SC01937G

CCDC 2260125: Experimental Crystal Structure Determination;Stoerkler, Timothée;2024;Cambridge Crystallographic Data Centre


CCDC 2260126: Experimental Crystal Structure Determination;Stoerkler, Timothée;2024;Cambridge Crystallographic Data Centre


Related Article: Sofia N. Vorobyeva, Sof'ya A. Bautina, Nikita A. Shekhovtsov, Elena B. Nikolaenkova, Taisiya S. Sukhikh, Yuliya A. Golubeva, Lyubov S. Klyushova, Viktor P. Krivopalov, Marianna I. Rakhmanova, Christophe Gourlaouen, Mark B. Bushuev|2024|Dalton Trans.|53|8398|doi:10.1039/D4DT00824C

CCDC 2340271: Experimental Crystal Structure Determination;Vorobyeva, Sofia N.;2024;Cambridge Crystallographic Data Centre


CCDC 2340269: Experimental Crystal Structure Determination;Vorobyeva, Sofia N.;2024;Cambridge Crystallographic Data Centre


CCDC 2340272: Experimental Crystal Structure Determination;Vorobyeva, Sofia N.;2024;Cambridge Crystallographic Data Centre


Abstract: Abstract: Growth at the shoot apical meristem (SAM) is essential for shoot architecture construction. The phytohormones gibberellins (GA) play a pivotal role in coordinating plant growth, but their role in the SAM remainsmostly unknown. Here, we developed a ratiometric GA signaling biosensor by engineering one of the DELLA proteins, to suppress its master regulatory function in GA transcriptional responses while preserving its degradation upon GA sensing. We demonstrate that this degradation-based biosensor accurately reports on cellular changes inGA levels and perception during development.Weused this biosensor to map GA signaling activity in the SAM. We show that high GA signaling is found primarily in cells located between organ primordia that are the precursors of internodes. By gain- and loss-of-function approaches, we further demonstrate that GAs regulate cell division plane orientation to establish the typical cellular organization of internodes, thus contributing to internode specification in the SAM.

Raw Confocal Images for "A quantitative gibberellin signaling biosensor reveals a role for gibberellins in internode specification at the shoot apical meristem";Bihai Shi;2024;Zenodo


CCDC 2319368: Experimental Crystal Structure Determination;Xu, Fan;2024;Cambridge Crystallographic Data Centre

Related Article: Fan Xu, Jinyu Sheng, Charlotte N. Stindt, Stefano Crespi, Wojciech Danowski, Michiel F. Hilbers, Wybren Jan Buma, Ben L. Feringa|2024|Chemical Science|15|6763|doi:10.1039/D4SC00983E


CCDC 2319369: Experimental Crystal Structure Determination;Xu, Fan;2024;Cambridge Crystallographic Data Centre


CCDC 2319370: Experimental Crystal Structure Determination;Xu, Fan;2024;Cambridge Crystallographic Data Centre


CCDC 2322393: Experimental Crystal Structure Determination;Martos, Daniel Carter;2024;Cambridge Crystallographic Data Centre

Related Article: Daniel Carter Martos, Maxime de Abreu, Pascal Hauk, Philipp Fackler, Joanna Wencel-Delord|2024|Chemical Science|15|6770|doi:10.1039/D4SC01234H


CCDC 2322394: Experimental Crystal Structure Determination;Martos, Daniel Carter;2024;Cambridge Crystallographic Data Centre


CCDC 2322395: Experimental Crystal Structure Determination;Martos, Daniel Carter;2024;Cambridge Crystallographic Data Centre


CCDC 2322396: Experimental Crystal Structure Determination;Martos, Daniel Carter;2024;Cambridge Crystallographic Data Centre


Abstract: The bioconcentration factor (BCF), a key parameter required by the REACH regulation, estimates the tendency for a xenobiotic to concentrate inside living organisms. In silico methods can be valid alternatives to costly data measurements. However, in the industrial context, these theoretical approaches may fail to predict BCF with reasonable accuracy. We analyzed whether models built on public data only have adequate performances when challenged to predict industrial compounds. A new set of 1129 compounds has been collected by merging publicly available datasets. Generative Topographic Mapping was employed to compare this chemical space with a set of new compounds issued from the industry. Some new chemotypes absent in the training set (such as siloxanes) have been detected. A new BCF model has been built using ISIDA (In SIlico design and Data Analysis) fragment descriptors, support vector regression and random forest machine-learning methods. It has been externally validated on: (i) collected data from the literature and (ii) industrial data. The latter also served as benchmark for the freely available tools VEGA, EPISuite, TEST, OPERA. New model performs (RMSE of 0.58 log BCF units) comparably to existing ones but benefits of an extended applicability, covering the industrial set chemical space (78% data coverage).

QSPR models for bioconcentration factor (BCF): are they able to predict data of industrial interest?;F. Lunghini;2019;Taylor & Francis

Information Systems not elsewhere classified


Abstract: These are peer-reviewed supplementary materials for the article 'Impact of COVID-19 on chronic pain structures: data from French national survey' published in the Journal of Comparative Effectiveness Research.Supplementary data: Translated survey.Aims: The authors evaluated the impact of the first COVID-19 pandemic wave on French chronic pain structures (CPS). Methods: An online survey assessed CPS resource allocation, workflow and perceived impact on patient care. Results: All CPS workflow was severely impacted by the reallocation of 42% of specialists. In-person appointments were cancelled by 72% of participants. Follow-up was maintained in 91% of participants (telemedicine). Skills in end-of-life decision-making/counseling were rarely solicited. The perceived impact of the crisis on the experience of patients was high (eight out of ten), with a significant increase in access-to-care delay. Conclusion: CPS maintained patient follow-up. Special features of CPS specialists were rarely solicited by COVID-19 teams experiencing a high workload. Recommendations on optimal CPS resource reallocations have to be standardized in crisis conditions.

Supplementary material: Impact of COVID-19 on chronic pain structures: data from French national survey;Meggane Melchior;2024;Becaris


CCDC 2305365: Experimental Crystal Structure Determination;Liu, Haijuan;2024;Cambridge Crystallographic Data Centre

Related Article: Haijuan Liu, Adrien G. Laporte, Daniel Gónzalez Pinardo, Israel Fernández, Damien Hazelard, Philippe Compain|2024|J.Org.Chem.|89|5634|doi:10.1021/acs.joc.4c00134


Abstract: 3D printable part files for the EnderScope

Stl and STEP files from EnderScope: A Low-Cost 3D Printer Based Scanning Microscope for Microplastic Detection;Niamh Burke;2024;The Royal Society


Abstract: Supplementary figure legends uploaded as separate text document

Supplementary Figures from EnderScope: A Low-Cost 3D Printer Based Scanning Microscope for Microplastic Detection;Niamh Burke;2024;The Royal Society


Abstract: Assembly instructions for the EnderScope and relevant control and analysis scripts

Assembly Instructions and Code from EnderScope: A Low-Cost 3D Printer Based Scanning Microscope for Microplastic Detection;Niamh Burke;2024;The Royal Society


CCDC 2298595: Experimental Crystal Structure Determination;Fabisiak, Adrian;2024;Cambridge Crystallographic Data Centre

Related Article: Adrian Fabisiak, Pawel Brzeminski, Rafal R. Sicinski, Natacha Rochel, Ewa Maj, Beata Filip-Psurska, Joanna Wietrzyk, Lori A. Plum, Hector F. DeLuca|2024|Eur.J.Med.Chem.|271|116403|doi:10.1016/j.ejmech.2024.116403


CCDC 2157265: Experimental Crystal Structure Determination;Parker, Megan A.;2024;Cambridge Crystallographic Data Centre

Related Article: Megan A. Parker, Maria Letizia De Marco, Alexander Castro-Grijalba, Anissa Ghoridi, David Portehault, Stanislav Pechev, Elizabeth A. Hillard, Sabrina Lacomme, Aurélie Bessière, Frédérique Cunin, Patrick Rosa, Mathieu Gonidec, Glenna L. Drisko|2024|Nanoscale|16|7958|doi:10.1039/D3NR05793C


Abstract: The samples are cylinders of Adamswiller and Rothbach sandstones of nominal length 80 mm and diameter 40 mm. The average porosities for our Adamswiller and Rothbach sandstone samples are 25.8% and 24.3%, respectively. The permeability and strain were measured under hydrostatic loading.

Bedding anisotropy and effective stress data for the permeability and deformation of Adamswiller and Rothbach sandstones;Fanbao Meng;2020;PANGAEA


Abstract: Data from laboratory experiments in which glass beads flowed, via an opening of a given height $h_g$, into and through a channel at a given incline $\tan \theta$. Over the duration of each experiment, we recorded: 1) the mass outflow from the channel; 2) the voltage outputs of i) a force sensor and ii) accelerometers, fixed to an instrumented plate in the channel's base; and 3) images of the flow, captured through the channel's transparent side wall by a high-speed camera. The analysis of voltage outputs and high-speed camera images was calibrated by i) measuring the force sensor's responses to a fixed vertical load, ii) examining the accelerometers' responses to vertical impacts of individual glass beads, and iii) capturing images of a checked calibration pattern and of static beads. Data here comes from these calibration measurements, an experiment at $h_g = 20$ mm and $\tan \theta = 0.44$, and another at $h_g = 28$ mm and $\tan \theta = 0.52$. The full 340 GB of data, from three experimental repeats at each of 19 combinations of $h_g$ and $\tan \theta$, will be available from the authors until at least 2025, care of Anne Mangeney.

IPGP laboratory data on granular flows' high-frequency seismic signals;Matthew Iain Arran;2020;PANGAEA


Abstract: King penguins are sexually monomorphically ornamented seabirds that perform a complex visual and acoustic courtship display. Coloured beak spots and ear patches contain information about the condition and physiological status of adult males and females, but their role as a signal of age has previously only been studied in young birds. Vocalizations have mainly been studied as signals of individuality and not in the context of courtship. We investigate two multicomponent signals in the context of mate choice by analysing beak spot, ear patch, and call parameters of wild king penguins. We explore the relation between those signals and age as well as age-classes (chicks, juveniles, adults). Ornament parameters were weakly correlated to continuous age in males, but not in females, while acoustic parameters were highly correlated to continuous age in both sexes. The calls' fundamental frequency and energy parameters, and all the beak spot parameters reliably classified individuals into their age-class. Since age-class was redundantly encoded in both acoustic and colour parameters, we hypothesize that calls and ornaments function as back-up signals that increase the chance of accurately conveying the age-class of the sender to receivers. King penguins might sequentially analyse age-class signals during courtship, where acoustic signals serve as long-range communication when sender and receiver are out of sight, and ornamentation signals become important at close range. We show the importance of considering bimodal, multicomponent signals when studying complex behaviour and discuss how signalling environment, the species' life-history and mating system influence the evolution of communication signals.

King penguin ornamentation and acoustics;Hannah Joy Kriesell;2021;PANGAEA


Abstract: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.

CCDC 2092869: Experimental Crystal Structure Determination;Silber, Vincent;2022;Cambridge Crystallographic Data Centre

Related Article: Vincent Silber, Nathalie Gruber, Marion Jean, Nicolas Vanthuyne, Romain Ruppert|2022|Chem.Commun.|58|6012|doi:10.1039/D2CC01475K Related Article: Vincent Silber, Christophe Gourlaouen, Romain Ruppert|2024|RSC Advances|14|11969|doi:10.1039/D4RA02202E


CCDC 2303504: Experimental Crystal Structure Determination;Yang, Zhongzhen;2024;Cambridge Crystallographic Data Centre

Related Article: Zhongzhen Yang, Marion Arnoux, Damien Hazelard, Owen R. Hughes, Joe Nabarro, Adrian C. Whitwood, Martin A. Fascione, Christopher D. Spicer, Philippe Compain, William P. Unsworth|2024|Org.Biomol.Chem.|22|2985|doi:10.1039/D4OB00285G


Abstract: The collective action dilemma inherent to environmental quality problems implies that agri-environmental contracts are best managed collectively. Such collective contracts need to be coordinated, a complex process that in some countries is chaperoned through an associative structure. This research assesses the potential of environmental cooperatives (EC) for the governance of collective agri-environmental contracts. The context in which ECs historically emerged is presented, followed by an analysis across case studies of the factors that can facilitate the role of ECs. These factors are compared to a recent case study on a newly emerged French EC, for which a series of interviews are analysed. This investigation highlights that the role of the EC is above all a facilitating one, mediating between the different interest groups by ensuring three important contract criteria: (1) place-based targets and locally specific measures, (2) a participatory process to contract design, (3) flexibility in the measure’s adaptation.

What role for environmental cooperatives in collective agri-environmental schemes?;Kristin Limbach;2023;Taylor & Francis

Environmental Sciences not elsewhere classified


CCDC 2119376: Experimental Crystal Structure Determination;Li, Jian;2024;Cambridge Crystallographic Data Centre

Related Article: Jian Li, Jia-Xin Wu, Mei-Ling Wei, Chuang Yang, Qiubing Dong, Zheng Yin, Mohamedally Kurmoo, Ming-Hua Zeng|2024|Inorg.Chem.|63|6033|doi:10.1021/acs.inorgchem.4c00350


CCDC 2323839: Experimental Crystal Structure Determination;Li, Jian;2024;Cambridge Crystallographic Data Centre


CCDC 2323840: Experimental Crystal Structure Determination;Li, Jian;2024;Cambridge Crystallographic Data Centre


CCDC 2323841: Experimental Crystal Structure Determination;Li, Jian;2024;Cambridge Crystallographic Data Centre


Abstract: Introduction: Acute myeloid leukemia (AML) is a cancer of the hematopoietic system characterized by hyperproliferation of undifferentiated cells of the myeloid lineage. While most of AML therapies are focused towards tumor debulking, all-trans retinoic acid (ATRA) induces neutrophil differentiation in the AML subtype acute promyelocytic leukemia (APL). Macroautophagy has been extensively investigated in the context of various cancers and is often dysregulated in AML where it can have context-dependent pro- or anti-leukemogenic effects. On the contrary, the implications of chaperone-mediated autophagy (CMA) on the pathophysiology of diseases are still being explored and its role in AML has remains elusive. Methods: We took advantages of human AML primary samples and databases to analyze CMA gene expression and activity. Furthermore, we used ATRA-sensitive (NB4) and -resistant (NB4-R1) cells to further dissect a potential function for CMA in ATRA-mediated neutrophil differentiation. NB4-R1 cells are unique in that they do respond to retinoic acid transcriptionally, but do not mature in response to retinoid signaling alone unless maturation is triggered by adding cAMP. Results: Here, we report that CMA related mRNA transcripts are significantly higher expressed in immature hematopoietic cells as compared to neutrophils, contrasting the macroautophagy gene expression patterns. Accordingly, lysosomal degradation of an mCherry-KFERQ CMA reporter decreases during ATRA-induced differentiation of APL cells. On the other hand, using NB4-R1 cells we found that macroautophagy flux primed ATRA resistant NB4-R1 cells to differentiate upon ATRA treatment, but reduced association of lysosome-associated membrane protein type 2A (LAMP-2A) and heat shock protein family A (Hsp70) member 8 (HSPA8), which are necessary for complete neutrophil maturation. Accordingly, depletion of HSPA8 attenuated CMA activity and facilitated APL cell differentiation. In contrast, maintaining high CMA activity by ectopic expression of LAMP-2A impeded APL differentiation. Conclusion: Overall, our findings suggest that APL neutrophil differentiation requires CMA inactivation and that this pathway predominantly depends on HSPA8 and is possibly assisted by other co-chaperones.

Supplementary Material for: HSPA8 chaperone complex drives chaperone-mediated autophagy regulation in acute promyelocytic leukemia cell differentiation;Rafiq S.;2024;Karger Publishers


Abstract: Additional file 1: Figure S1. Protocol design.

MOESM1 of Thrombomodulin favors leukocyte microvesicle fibrinolytic activity, reduces NETosis and prevents septic shock-induced coagulopathy in rats;Julie Helms;2017;figshare


Abstract: Additional file 2: Figure S1. Physiology of thrombin generation.

MOESM2 of Immunohaemostasis: a new view on haemostasis during sepsis;Xavier Delabranche;2017;figshare


Abstract: Additional file 6: Figure S2. Timing of anticoagulant therapy.

MOESM6 of Immunohaemostasis: a new view on haemostasis during sepsis;Xavier Delabranche;2017;figshare


tetrakis(acetonitrile)-[2-(pyridin-2-yl)acridin-3-yl]-ruthenium(ii) hexafluorophosphate diethyl ether solvate

CCDC 2294182: Experimental Crystal Structure Determination;Ali, Moussa;2024;Cambridge Crystallographic Data Centre

Related Article: Moussa Ali, Yann Cornaton, Jean-Pierre Djukic, Michel Pfeffer|2024|Inorg.Chem.|63|4867|doi:10.1021/acs.inorgchem.3c03671


CCDC 2294183: Experimental Crystal Structure Determination;Ali, Moussa;2024;Cambridge Crystallographic Data Centre


tetrakis(acetonitrile)-[2-(pyridin-2-yl)acridin-1-yl]-ruthenium(ii) hexafluorophosphate diethyl ether solvate

CCDC 2294184: Experimental Crystal Structure Determination;Ali, Moussa;2024;Cambridge Crystallographic Data Centre


Abstract: Abstract Background Non-tunneled hemodialysis catheters are currently used for critically ill patients with acute kidney injury requiring extracorporeal renal replacement therapy. Strategies to prevent catheter dysfunction and infection with catheter locks remain controversial. Methods In a multicenter, randomized, controlled, double-blind trial, we compared two strategies for catheter locking of non-tunneled hemodialysis catheters, namely trisodium citrate at 4% (intervention group) versus unfractionated heparin (control group), in patients aged 18 years or older admitted to the intensive care unit and in whom a first non-tunneled hemodialysis catheter was to be inserted by the jugular or femoral vein. The primary endpoint was length of event-free survival of the first non-tunneled hemodialysis catheter. Secondary endpoints were: rate of fibrinolysis, incidence of catheter dysfunction and incidence of catheter-related bloodstream infection (CRBSI), all per 1000 catheter-days; number of hemorrhagic events requiring transfusion, length of stay in intensive care and in hospital; 28-day mortality. Results Overall, 396 randomized patients completed the trial: 199 in the citrate group and 197 in the heparin group. There was no significant difference in baseline characteristics between groups. The duration of event-free survival of the first non-tunneled hemodialysis catheter was not significantly different between groups: 7 days (IQR 3–10) in the citrate group and 5 days (IQR 3–11) in the heparin group (p = 0.51). Rates of catheter thrombosis, CRBSI, and adverse events were not statistically different between groups. Conclusions In critically ill patients, there was no significant difference in the duration of event-free survival of the first non-tunneled hemodialysis catheter between trisodium citrate 4% and heparin as a locking solution. Catheter thrombosis, catheter-related infection, and adverse events were not statistically different between the two groups. Trial registration Registered with Clinicaltrials.gov under the number NCT01962116. Registered 14 October 2013.

Trisodium citrate 4% versus heparin as a catheter lock for non-tunneled hemodialysis catheters in critically ill patients: a multicenter, randomized clinical trial;Jean-Pierre Quenot;2019;figshare


Abstract: Abstract Background Nephrotoxic drug prescription may contribute to acute kidney injury (AKI) occurrence and worsening among critically ill patients and thus to associated morbidity and mortality. The objectives of this study were to describe nephrotoxic drug prescription in a large intensive-care unit cohort and, through a case–control study nested in the prospective cohort, to evaluate the link of nephrotoxic prescription burden with AKI. Results Six hundred and seventeen patients (62%) received at least one nephrotoxic drug, among which 303 (30%) received two or more. AKI was observed in 609 patients (61%). A total of 351 patients were considered as cases developing or worsening AKI a given index day during the first week in the intensive-care unit. Three hundred and twenty-seven pairs of cases and controls (patients not developing or worsening AKI during the first week in the intensive-care unit, alive the case index day) matched on age, chronic kidney disease, and simplified acute physiology score 2 were analyzed. The nephrotoxic burden prior to the index day was measured in drug.days: each drug and each day of therapy increasing the burden by 1 drug.day. This represents a semi-quantitative evaluation of drug exposure, potentially easy to implement by clinicians. Nephrotoxic burden was significantly higher among cases than controls: odds ratio 1.20 and 95% confidence interval 1.04–1.38. Sensitivity analysis showed that this association between nephrotoxic drug prescription in the intensive-care unit and AKI was predominant among the patients with lower severity of disease (simplified acute physiology score 2 below 48). Conclusions The frequently observed prescription of nephrotoxic drugs to critically ill patients may be evaluated semi-quantitatively through computing drug.day nephrotoxic burden, an index significantly associated with subsequent AKI occurrence, and worsening among patients with lower severity of disease.

Nephrotoxic drug burden among 1001 critically ill patients: impact on acute kidney injury;Stephan Ehrmann;2019;figshare


Abstract: Abstract Background The influence of socioeconomic status on patient outcomes is unclear. We assessed the impact of socioeconomic deprivation on severity of illness at intensive care unit (ICU) admission, and on the risk of death at 3 months after ICU admission. Methods The IVOIRE study was a prospective, observational, multicentre cohort study in the ICU of 8 participating hospitals in France, including patients aged ≥ 18 years admitted to the ICU and receiving at least one life support therapy for organ failure. The primary outcomes were severity at admission (assessed by SAPSII score), and mortality at 3 months. Socioeconomic data were obtained from interviews with patients or family. Deprivation was assessed using the EPICES score. Results Among 1294 patents included between 2013 and 2016, 629 (48.6%) were classed as deprived and differed significantly from non-deprived subjects in terms of sociodemographic characteristics and pre-existing conditions. The mean SAPS II score at admission was 50.1 ± 19.4 in deprived patients and 52.3 ± 17.3 in non-deprived patients, with no significant difference by multivariable analysis (β = − 1.85 [95% CI − 3.86; + 0.16, p = 0.072]). The proportion of death was 31.1% at 3 months, without significant differences between deprived and non-deprived patients, even after adjustment for confounders. Conclusions Deprivation is frequent in patients admitted to the ICU and is not associated with disease severity at admission, or with mortality at 3 months between deprived and non-deprived patients. Trial registration The IVOIRE cohort is registered with ClinicalTrials.gov under the identifier NCT01907581, registration date 17/7/2013

Influence of deprivation on initial severity and prognosis of patients admitted to the ICU: the prospective, multicentre, observational IVOIRE cohort study;Jean-Pierre Quenot;2020;figshare


Abstract: Transcription and processing of 45S rRNAs in the nucleolus are keystones of ribosome biogenesis. While these processes are severely impacted by stress conditions in multiple species, primarily upon heat exposure, we lack information about the molecular mechanisms allowing sessile organisms without a temperature-control system, like plants, to cope with such circumstances. We show that heat stress disturbs nucleolar structure, inhibits pre-rRNA processing and provokes imbalanced ribosome profiles in <i>Arabidopsis thaliana</i> plants. Notably, the accuracy of transcription initiation and cleavage at the primary P site in the 5’ETS (5’ External Transcribed Spacer) are not affected but the levels of primary 45S and 35S transcripts are, respectively, increased and reduced. In contrast, precursors of 18S, 5.8S and 25S RNAs are rapidly undetectable upon heat stress. Remarkably, nucleolar structure, pre-rRNAs from major ITS1 processing pathway and ribosome profiles are restored after returning to optimal conditions, shedding light on the extreme plasticity of nucleolar functions in plant cells. Further genetic and molecular analysis to identify molecular clues implicated in these nucleolar responses indicate that cleavage rate at P site and nucleolin protein expression can act as a checkpoint control towards a productive pre-rRNA processing pathway.

Upon heat stress processing of ribosomal RNA precursors into mature rRNAs is compromised after cleavage at primary P site in <i>Arabidopsis thalian</i>a;T. Darriere;2022;Taylor & Francis


Abstract: Maturation of the HIV-1 viral particles shortly after budding is required for infectivity. During this process, the Pr55Gag precursor undergoes a cascade of proteolytic cleavages, and whilst the structural rearrangements of the viral proteins are well understood, the concomitant maturation of the genomic RNA (gRNA) structure is unexplored, despite evidence that it is required for infectivity. To get insight into this process, we systematically analysed the interactions between Pr55Gag or its maturation products (NCp15, NCp9 and NCp7) and the 5ʹ gRNA region and their structural consequences, in vitro. We show that Pr55Gag and its maturation products mostly bind at different RNA sites and with different contributions of their two zinc knuckle domains. Importantly, these proteins have different transient and permanent effects on the RNA structure, the late NCp9 and NCp7 inducing dramatic structural rearrangements. Altogether, our results reveal the distinct contributions of the different Pr55Gag maturation products on the gRNA structural maturation.

Structural maturation of the HIV-1 RNA 5’ untranslated region by Pr55Gag and its maturation products;Orian Gilmer;2022;Taylor & Francis


Abstract: LAMP1 (lysosomal-associated membrane protein 1) and LAMP2 are the most abundant protein components of lysosome membranes. Both LAMPs have common structures consisting of a large lumenal domain composed of two domains (N-domain and C-domain, which are membrane-distal and -proximal, respectively), both with the β-prism fold, a transmembrane domain, and a short cytoplasmic tail. LAMP2 is involved in various aspects of autophagy, and reportedly forms high-molecular weight complexes at the lysosomal membrane. We previously showed that LAMP2 molecules coimmunoprecipitated with each other, but whether the homophilic interaction is direct or indirect has remained to be elucidated. In the present study, we demonstrated the direct homophilic interaction of mouse LAMP2A molecules, using expanded genetic code technologies that generate photo-crosslinking and/or steric hindrance at specified interfaces. Specifically, the results suggested that LAMP2A molecules assemble by facing each other with one side of the β-prism (defined as side A) of the C-domains. The N-domain truncation, which increased the coimmunoprecipitation of LAMP2A molecules in our previous study, permitted the nonspecific involvement of both sides of the β-prism (side A and side B). Thus, the presence of the N-domain restricts the LAMP2A interactions to side A-specific. The truncation of LAMP2A impaired the recruitment of GAPDH (a CMA-substrate) fused to the HaloTag protein to the surface of late endosomes/lysosomes (LE/Lys) and affected a process that generates LE/Lys. The present study revealed that the homophilic interaction of LAMP2A is direct, and the side A-specific, homophilic interaction of LAMP2A is required for the functional aspects of LAMP2A. Abbreviations: Aloc-Lys: Nε-allyloxycarbonyl-l-lysine; CMA: chaperone-mediated autophagy; FFE: free-flow electrophoresis; GAPDH-HT: glyceraldehyde-3-phosphate dehydrogenase fused to HaloTag protein; LAMP1: lysosomal-associated membrane protein 1; LAMP2A: lysosomal-associated membrane protein 2A; LBPA: lysobisphosphatidic acid; LE/Lys: late endosome/lysosomes; MEFs: mouse embryonic fibroblasts; pBpa: p-benzoyl- l-phenylalanine

Direct homophilic interaction of LAMP2A with the two-domain architecture revealed by site-directed photo-crosslinks and steric hindrances in mammalian cells;Kazue Terasawa;2021;Taylor & Francis


Abstract: Abstract Background Transposable elements (TEs) are common and often present with high copy numbers in cellular genomes. Unlike in cellular organisms, TEs were previously thought to be either rare or absent in viruses. Almost all reported TEs display only one or two copies per viral genome. In addition, the discovery of pandoraviruses with genomes up to 2.5-Mb emphasizes the need for biologists to rethink the fundamental nature of the relationship between viruses and cellular life. Results Herein, we performed the first comprehensive analysis of miniature inverted-repeat transposable elements (MITEs) in the 5170 viral genomes for which sequences are currently available. Four hundred and fifty one copies of ten miniature inverted-repeat transposable elements (MITEs) were found and each MITE had reached relatively large copy numbers (some up to 90) in viruses. Eight MITEs belonging to two DNA superfamilies (hobo/Activator/Tam3 and Chapaev–Mirage–CACTA) were for the first time identified in viruses, further expanding the organismal range of these two superfamilies. TEs may play important roles in shaping the evolution of pandoravirus genomes, which were here found to be very rich in MITEs. We also show that putative autonomous partners of seven MITEs are present in the genomes of viral hosts, suggesting that viruses may borrow the transpositional machinery of their cellular hosts’ autonomous elements to spread MITEs and colonize their own genomes. The presence of seven similar MITEs in viral hosts, suggesting horizontal transfers (HTs) as the major mechanism for MITEs propagation. Conclusions Our discovery highlights that TEs contribute to shape genome evolution of pandoraviruses. We concluded that as for cellular organisms, TEs are part of the pandoraviruses’ diverse mobilome.

Unexpected invasion of miniature inverted-repeat transposable elements in viral genomes;Hua-Hao Zhang;2018;figshare


Abstract: In all eukaryotic cells, the most abundant modification of ribosomal RNA (rRNA) is methylation at the ribose moiety (2ʹ-O-methylation). Ribose methylation at specific rRNA sites is guided by small nucleolar RNAs (snoRNAs) of C/D-box type (C/D snoRNA) and achieved by the methyltransferase Fibrillarin (FIB). Here we used the Illumina-based RiboMethSeq approach for mapping rRNA 2ʹ-O-methylation sites in A. thaliana Col-0 (WT) plants. This analysis detected novel C/D snoRNA-guided rRNA 2ʹ-O-methylation positions and also some orphan sites without a matching C/D snoRNA. Furthermore, immunoprecipitation of Arabidopsis FIB2 identified and demonstrated expression of C/D snoRNAs corresponding to majority of mapped rRNA sites. On the other hand, we show that disruption of Arabidopsis Nucleolin 1 gene (NUC1), encoding a major nucleolar protein, decreases 2ʹ-O-methylation at specific rRNA sites suggesting functional/structural interconnections of 2ʹ-O-methylation with nucleolus organization and plant development. Finally, based on our findings and existent database sets, we introduce a new nomenclature system for C/D snoRNA in Arabidopsis plants.

Mapping rRNA 2’-O-methylations and identification of C/D snoRNAs in Arabidopsis thaliana plants;J. Azevedo-Favory;2021;Taylor & Francis


Abstract: Abstract Background Allogeneic hematopoietic stem cell transplantation (HSCT), the most widely used potentially curable cellular immunotherapeutic approach in the treatment of hematological malignancies, is limited by life-threatening complications: graft versus host disease (GVHD) and infections especially viral infections refractory to antiviral drugs. Adoptive transfer of virus-specific T cells is becoming an alternative treatment for infections following HSCT. We report here the results of a phase I/II multicenter study which includes a series of adenovirus-specific T cell (ADV-VST) infusion either from the HSCT donor or from a third party haploidentical donor for patients transplanted with umbilical cord blood (UCB). Methods Fourteen patients were eligible and 11 patients received infusions of ADV-VST generated by interferon (IFN)-γ-based immunomagnetic isolation from a leukapheresis from their original donor (42.9%) or a third party haploidentical donor (57.1%). One patient resolved ADV infection before infusion, and ADV-VST could not reach release or infusion criteria for two patients. Two patients received cellular immunotherapy alone without antiviral drugs as a pre-emptive treatment. Results One patient with adenovirus infection and ten with adenovirus disease were infused with ADV-VST (mean 5.83 ± 8.23 × 103 CD3+IFN-γ+ cells/kg) up to 9 months after transplantation. The 11 patients showed in vivo expansion of specific T cells up to 60 days post-infusion, associated with adenovirus load clearance in ten of the patients (91%). Neither de novo GVHD nor side effects were observed during the first month post-infusion, but GVHD reactivations occurred in three patients, irrespective of the type of leukapheresis donor. For two of these patients, GVHD reactivation was controlled by immunosuppressive treatment. Four patients died during follow-up, one due to refractory ADV disease. Conclusions Adoptive transfer of rapidly isolated ADV-VST is an effective therapeutic option for achieving in vivo expansion of specific T cells and clearance of viral load, even as a pre-emptive treatment. Our study highlights that third party haploidentical donors are of great interest for ADV-VST generation in the context of UCB transplantation. (N° Clinical trial.gov: NCT02851576, retrospectively registered).

Curative or pre-emptive adenovirus-specific T cell transfer from matched unrelated or third party haploidentical donors after HSCT, including UCB transplantations: a successful phase I/II multicenter clinical trial;Chongsheng Qian;2017;figshare


Abstract: Abstract Background Active transportation has been associated with favorable health outcomes. Previous research highlighted the influence of neighborhood educational level on active transportation. However, little is known regarding the effect of commuting distance on social disparities in active commuting. In this regard, women have been poorly studied. The objective of this paper was to evaluate the relationship between neighborhood educational level and active commuting, and to assess whether the commuting distance modifies this relationship in adult women. Methods This cross-sectional study is based on a subsample of women from the Nutrinet-Santé web-cohort (N = 1169). Binomial, log-binomial and negative binomial regressions were used to assess the associations between neighborhood education level and (i) the likelihood of reporting any active commuting time, and (ii) the share of commuting time made by active transportation modes. Potential effect measure modification of distance to work on the previous associations was assessed both on the additive and the multiplicative scales. Results Neighborhood education level was positively associated with the probability of reporting any active commuting time (relative risk = 1.774; p < 0.05) and the share of commuting time spent active (relative risk = 1.423; p < 0.05). The impact of neighborhood education was greater at long distances to work for both outcomes. Conclusions Our results suggest that neighborhood educational disparities in active commuting tend to increase with commuting distance among women. Further research is needed to provide geographically driven guidance for health promotion intervention aiming at reducing disparities in active transportation among socioeconomic groups.

Neighborhood educational disparities in active commuting among women: the effect of distance between the place of residence and the place of work/study (an ACTI-Cités study);Camille Perchoux;2017;figshare


Abstract: Abstract Background The natural history and disease mechanisms of Alzheimer’s disease and related disorders (ADRD) are still poorly understood. Very few resources are available to scrutinise patients as early as needed and to use integrative approaches combining standardised, repeated clinical investigations and cutting-edge biomarker measurements. Methods In the nationwide French MEMENTO cohort study, participants were recruited in memory clinics and screened for either isolated subjective cognitive complaints (SCCs) or mild cognitive impairment (MCI; defined as test performance 1.5 SD below age, sex and education-level norms) while not demented (Clinical Dementia Rating [CDR] <1). Baseline data collection included neurological and physical examinations as well as extensive neuropsychological testing. To be included in the MEMENTO cohort, participants had to agree to undergo both brain magnetic resonance imaging (MRI) and blood sampling. Cerebral 18F-fluorodeoxyglucose positon emission tomography and lumbar puncture were optional. Automated analyses of cerebral MRI included assessments of volumes of whole-brain, hippocampal and white matter lesions. Results The 2323 participants, recruited from April 2011 to June 2014, were aged 71 years, on average (SD 8.7), and 62% were women. CDR was 0 in 40% of participants, and 30% carried at least one apolipoprotein E ε4 allele. We observed that more than half (52%) of participants had amnestic mild cognitive impairment (17% single-domain aMCI), 32% had non-amnestic mild cognitive impairment (16.9% single-domain naMCI) and 16% had isolated SCCs. Multivariable analyses of neuroimaging markers associations with cognitive categories showed that participants with aMCI had worse levels of imaging biomarkers than the others, whereas participants with naMCI had markers at intermediate levels between SCC and aMCI. The burden of white matter lesions tended to be larger in participants with aMCI. Independently of CDR, all neuroimaging and neuropsychological markers worsened with age, whereas differences were not consistent according to sex. Conclusions MEMENTO is a large cohort with extensive clinical, neuropsychological and neuroimaging data and represents a platform for studying the natural history of ADRD in a large group of participants with different subtypes of MCI (amnestic or not amnestic) or isolated SCCs. Trial registration Clinicaltrials.gov, NCT01926249 . Registered on 16 August 2013.

Cognitive and imaging markers in non-demented subjects attending a memory clinic: study design and baseline findings of the MEMENTO cohort;Carole Dufouil;2017;figshare


Abstract: Abstract Background Septic shock-induced disseminated intravascular coagulation is responsible for increased occurrence of multiple organ dysfunction and mortality. Immunothrombosis-induced coagulopathy may contribute to hypercoagulability. We aimed at determining whether recombinant human thrombomodulin (rhTM) could control exaggerated immunothrombosis by studying procoagulant responses, fibrinolysis activity borne by microvesicles (MVs) and NETosis in septic shock. Methods In a septic shock model after a cecal ligation and puncture-induced peritonitis (H0), rats were treated with rhTM or a placebo at H18, resuscitated and monitored during 4 h. At H22, blood was sampled to perform coagulation tests, to characterize MVs and to detect neutrophils extracellular traps (NETs). Lungs were stained with hematoxylin–eosin for inflammatory injury assessment. Results Coagulopathy was attenuated in rhTM-treated septic rats compared to placebo-treated rats, as attested by a significant decrease in procoagulant annexin A5+-MVs and plasma procoagulant activity of phospholipids and by a significant increase in antithrombin levels (84 ± 8 vs. 64 ± 6%, p < 0.05), platelet count (582 ± 157 vs. 319 ± 91 × 109/L, p < 0.05) and fibrinolysis activity borne by MVs (2.9 ± 0.26 vs. 0.48 ± 0.29 U/mL urokinase, p < 0.05). Lung histological injury score showed significantly less leukocyte infiltration. Decreased procoagulant activity and lung injury were concomitant with decreased leukocyte activation as attested by plasma leukocyte-derived MVs and NETosis reduction after rhTM treatment (neutrophil elastase/DNA: 93 ± 33 vs. 227 ± 48 and citrullinated histones H3/DNA: 96 ± 16 vs. 242 ± 180, mOD for 109 neutrophils/L, p < 0.05). Conclusion Thrombomodulin limits procoagulant responses and NETosis and at least partly restores hemostasis control during immunothrombosis. Neutrophils might thus stand as a promising therapeutic target in septic shock-induced coagulopathy.

Thrombomodulin favors leukocyte microvesicle fibrinolytic activity, reduces NETosis and prevents septic shock-induced coagulopathy in rats;Julie Helms;2017;figshare


Abstract: Abstract Background Generalized tonic-clonic seizures (GTCSs) are the main risk factor for sudden unexpected death in epilepsy (SUDEP). Experimental and clinical data strongly suggest that the majority of SUDEP results from a postictal respiratory dysfunction progressing to terminal apnea. Postictal apnea could partly derive from a seizure-induced massive release of endogenous opioids. The main objective of this study is to evaluate the efficacy of an opioid antagonist, naloxone, administered in the immediate aftermath of a GTCS, in reducing the severity of the postictal central respiratory dysfunction. Methods/design The Efficacy of Naloxone in Reducing Postictal Central Respiratory Dysfunction in Patients with Epilepsy (ENALEPSY) study is a multicenter, double-blind, randomized, placebo-controlled trial conducted in patients with drug-resistant focal epilepsy who are undergoing long-term video-electroencephalogram (EEG) monitoring (LTM) in an epilepsy monitoring unit (EMU). We plan to randomize 166 patients (1:1) to receive intravenous naloxone (0.4 mg) or placebo in the immediate aftermath of a GTCS. Because inclusion in the study needs to take place prior to the occurrence of the GTCS, and because such occurrence is observed in about one-fourth of patients undergoing LTM, we plan to include a maximum of 700 patients upon admission in the EMU. The primary endpoint will be the proportion of patients whose oxygen saturation is <90 % between 1 and 3 min after the end of a GTCS. Secondary outcomes will include the following: the proportion of patients who show postictal apnea, the occurrence and duration of postictal generalized EEG suppression, the total duration of the postictal coma, postictal pain, and the number of patients who have a second GTCS within 120 min after the intravenous injection. Discussion The demonstration of naloxone’s efficacy on the severity of postictal hypoxemia will have two primary consequences. First, naloxone would be the first and only therapeutic approach that could be delivered immediately to reverse postictal apnea. Second, demonstration that an opioid antagonist can effectively reduce postictal apnea would pave the way for an assessment of a preventive therapy for SUDEP targeting the same pathophysiological pathway using oral administration of naltrexone. Trial registration ClinicalTrials.gov identifier: NCT02332447 . Registered on 5 January 2015.

Efficacy of naloxone in reducing postictal central respiratory dysfunction in patients with epilepsy: study protocol for a double-blind, randomized, placebo-controlled trial;Sylvain Rheims;2016;figshare


Abstract: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.

CCDC 2310200: Experimental Crystal Structure Determination;Sun, Qiu;2024;Cambridge Crystallographic Data Centre

Related Article: Qiu Sun, Andreas Eitzinger, Robin Esken, Patrick W. Antoni, Robert J. Mayer, Armin R. Ofial, Max M. Hansmann|2024|Angew.Chem.,Int.Ed.|63|e202318283|doi:10.1002/anie.202318283


CCDC 2310201: Experimental Crystal Structure Determination;Sun, Qiu;2024;Cambridge Crystallographic Data Centre


CCDC 2310202: Experimental Crystal Structure Determination;Sun, Qiu;2024;Cambridge Crystallographic Data Centre


CCDC 2310203: Experimental Crystal Structure Determination;Sun, Qiu;2024;Cambridge Crystallographic Data Centre


CCDC 2310204: Experimental Crystal Structure Determination;Sun, Qiu;2024;Cambridge Crystallographic Data Centre


CCDC 2310205: Experimental Crystal Structure Determination;Sun, Qiu;2024;Cambridge Crystallographic Data Centre


CCDC 2310206: Experimental Crystal Structure Determination;Sun, Qiu;2024;Cambridge Crystallographic Data Centre


CCDC 2310207: Experimental Crystal Structure Determination;Sun, Qiu;2024;Cambridge Crystallographic Data Centre


CCDC 2310208: Experimental Crystal Structure Determination;Sun, Qiu;2024;Cambridge Crystallographic Data Centre


CCDC 2310209: Experimental Crystal Structure Determination;Sun, Qiu;2024;Cambridge Crystallographic Data Centre


CCDC 2310210: Experimental Crystal Structure Determination;Sun, Qiu;2024;Cambridge Crystallographic Data Centre


CCDC 2310211: Experimental Crystal Structure Determination;Sun, Qiu;2024;Cambridge Crystallographic Data Centre


CCDC 2310212: Experimental Crystal Structure Determination;Sun, Qiu;2024;Cambridge Crystallographic Data Centre


CCDC 2310213: Experimental Crystal Structure Determination;Sun, Qiu;2024;Cambridge Crystallographic Data Centre


CCDC 2310214: Experimental Crystal Structure Determination;Sun, Qiu;2024;Cambridge Crystallographic Data Centre


CCDC 2310215: Experimental Crystal Structure Determination;Sun, Qiu;2024;Cambridge Crystallographic Data Centre


Abstract: Like many polar animals, emperor penguin populations are challenging to monitor because of the species' life history and remoteness. Consequently, it has been difficult to establish its global status, a subject important to resolve as polar environments change. To advance our understanding of emperor penguins, we combined remote sensing, validation surveys and using Bayesian modelling, we estimated a comprehensive population trajectory over a recent 10-year period, encompassing the entirety of the species’ range. Reported as indices of abundance, our study indicates with 81% probability that there were fewer emperor adult emperor penguins in 2018 than in 2009, with a posterior median decrease of 9.6% (95% credible interval (CI) −26.4% to +9.4%). The global population trend was −1.3% per year over this period (95% CI = −3.3% to +1.0%) and declines probably occurred in four of eight fast ice regions, irrespective of habitat conditions. Thus far, explanations have yet to be identified regarding trends, especially as we observed an apparent population uptick toward the end of time series. Our work potentially establishes a framework for monitoring other Antarctic coastal species detectable by satellite, while promoting a need for research to better understand factors driving biotic changes in the Southern Ocean ecosystem.

Supplementary material from "Advances in remote sensing of emperor penguins: first multi-year time series documenting trends in the global population";Michelle LaRue;2024;The Royal Society


CCDC 2247241: Experimental Crystal Structure Determination;Figliola, Carlotta;2024;Cambridge Crystallographic Data Centre

Related Article: Carlotta Figliola, Alexandra Sutter, Thomas V. Papineau, Camille Chériaux, Pascal Retailleau, Denis Jacquemin, Gilles Ulrich|2024|J.Org.Chem.|89|3020|doi:10.1021/acs.joc.3c02491


CCDC 2247240: Experimental Crystal Structure Determination;Figliola, Carlotta;2024;Cambridge Crystallographic Data Centre


Cluster target Giraffe HR15N RV precision;S. Randich;2022;Centre de Donnees Strasbourg (CDS)

VizieR online Data Catalogue associated with article published in journal Astronomy and Astrophysics with title 'The Gaia-ESO Public Spectroscopic Survey:implementation, data products, open cluster survey, science and legacy.' (bibcode: 2022A&A...666A.121R)


Abstract: Detailed information of PRC1 components in the green lineage. (XLSX 274 kb)

Additional file 1: of Evolution and conservation of polycomb repressive complex 1 core components and putative associated factors in the green lineage;Yong Huang;2019;figshare


Abstract: Phylogenetic tree of AL1 and ING1 proteins in the green lineage. (JPG 3065 kb)

Additional file 6: of Evolution and conservation of polycomb repressive complex 1 core components and putative associated factors in the green lineage;Yong Huang;2019;figshare


Abstract: Sequence alignment of EMF1 proteins in the green lineage. (JPG 5338 kb)

Additional file 4: of Evolution and conservation of polycomb repressive complex 1 core components and putative associated factors in the green lineage;Yong Huang;2019;figshare


Abstract: Phylogenetic tree of BMI1 and RING1 domain containing proteins in the green lineage. (JPG 2829 kb)

Additional file 2: of Evolution and conservation of polycomb repressive complex 1 core components and putative associated factors in the green lineage;Yong Huang;2019;figshare


Abstract: Sequence alignment of BMI1 and RING1 RAWUL domain in the green lineage. (JPG 2023 kb)

Additional file 3: of Evolution and conservation of polycomb repressive complex 1 core components and putative associated factors in the green lineage;Yong Huang;2019;figshare


Abstract: Phylogenetic tree of VAL1 proteins in the green lineage. (JPG 2607 kb)

Additional file 5: of Evolution and conservation of polycomb repressive complex 1 core components and putative associated factors in the green lineage;Yong Huang;2019;figshare


Abstract: Mark domains of PRC1 components. (XLSX 9 kb)

Additional file 7: of Evolution and conservation of polycomb repressive complex 1 core components and putative associated factors in the green lineage;Yong Huang;2019;figshare


CCDC 1881720: Experimental Crystal Structure Determination;Liu, Jia-Wei;2019;Cambridge Crystallographic Data Centre

Related Article: Jia-Wei Liu, Zhi Wang, Yu-Ming Chai, Mohamedally Kurmoo, Quan-Qin Zhao, Xing-Po Wang, Chen-Ho Tung, Di Sun|2019|Angew.Chem.,Int.Ed.|58|6276|doi:10.1002/anie.201900568


CCDC 2290585: Experimental Crystal Structure Determination;Lee, Young Hoon;2024;Cambridge Crystallographic Data Centre

Related Article: Young Hoon Lee, Sotaro Kusumoto, Youssef Atoini, Yoshihiro Koide, Shinya Hayami, Yang Kim, Jack Harrowfield, Pierre Thuéry|2024|CrystEngComm|26|1278|doi:10.1039/D3CE01176C


CCDC 2290586: Experimental Crystal Structure Determination;Lee, Young Hoon;2024;Cambridge Crystallographic Data Centre


CCDC 2290587: Experimental Crystal Structure Determination;Lee, Young Hoon;2024;Cambridge Crystallographic Data Centre


CCDC 2290588: Experimental Crystal Structure Determination;Lee, Young Hoon;2024;Cambridge Crystallographic Data Centre


CCDC 2290589: Experimental Crystal Structure Determination;Lee, Young Hoon;2024;Cambridge Crystallographic Data Centre


CCDC 2290590: Experimental Crystal Structure Determination;Lee, Young Hoon;2024;Cambridge Crystallographic Data Centre


CCDC 2290591: Experimental Crystal Structure Determination;Lee, Young Hoon;2024;Cambridge Crystallographic Data Centre


CCDC 2290592: Experimental Crystal Structure Determination;Lee, Young Hoon;2024;Cambridge Crystallographic Data Centre


CCDC 2297372: Experimental Crystal Structure Determination;Sicard, Lambert;2024;Cambridge Crystallographic Data Centre

Related Article: Lambert Sicard, Clément Brouillac, Nicolas Leclerc, Sadiara Fall, Nicolas Zimmerman, Olivier Jeannin, Joëlle Rault-Berthelot, Cassandre Quinton, Cyril Poriel|2023|Mater. Chem. Front.|8|1349|doi:10.1039/D3QM01106B


CCDC 2297373: Experimental Crystal Structure Determination;Sicard, Lambert;2024;Cambridge Crystallographic Data Centre


CCDC 2297377: Experimental Crystal Structure Determination;Sicard, Lambert;2024;Cambridge Crystallographic Data Centre


CCDC 2297374: Experimental Crystal Structure Determination;Sicard, Lambert;2024;Cambridge Crystallographic Data Centre


Abstract: Hereditary transthyretin amyloidosis (ATTRv) is an adult-onset autosomal dominant disease resulting from TTR gene pathogenic variants. ATTRv often presents as a progressive polyneuropathy, and effective ATTRv treatments are available. In this 5 year-long (2017–2021) nationwide prospective study, we systematically analysed the TTR gene in French patients with age >50 years with a progressive idiopathic polyneuropathy. 553 patients (70% males) with a mean age of 70 years were included. A TTR gene pathogenic variant was found in 15 patients (2.7%), including the Val30Met TTR variation in 10 cases. In comparison with patients with no TTR gene pathogenic variants (n = 538), patients with TTR pathogenic variants more often presented with orthostatic hypotension (53 vs. 21%, p = .007), significant weight loss (33 vs 11%, p = .024) and rapidly deteriorating nerve conduction studies (26 vs. 8%, p = .03). ATTRv diagnosis led to amyloid cardiomyopathy diagnosis in 11 cases, ATTRv specific treatment in all cases and identification of 15 additional ATTRv cases among relatives. In this nationwide prospective study, we found ATTRv in 2.7% of patients with age >50 years with a progressive polyneuropathy. These results are highly important for the early identification of patients in need of disease-modifying treatments.

Hereditary transthyretin amyloidosis in middle-aged and elderly patients with idiopathic polyneuropathy: a nationwide prospective study;Guillaume Fargeot;2023;Taylor & Francis


Abstract: Mitophagy, which is a conserved cellular process for selectively removing damaged or unwanted mitochondria, is critical for mitochondrial quality control and the maintenance of normal cellular physiology. However, the precise mechanisms underlying mitophagy remain largely unknown. Prior studies on mitophagy focused on the events in the mitochondrial outer membrane. PHB2 (prohibitin 2), which is a highly conserved membrane scaffold protein, was recently identified as a novel inner membrane mitophagy receptor that mediates mitophagy. Here, we report a new signaling pathway for PHB2-mediated mitophagy. Upon mitochondrial membrane depolarization or misfolded protein aggregation, PHB2 depletion destabilizes PINK1 in the mitochondria, which blocks the mitochondrial recruitment of PRKN/Parkin, ubiquitin and OPTN (optineurin), leading to an inhibition of mitophagy. In addition, PHB2 overexpression directly induces PRKN recruitment to the mitochondria. Moreover, PHB2-mediated mitophagy is dependent on the mitochondrial inner membrane protease PARL, which interacts with PHB2 and is activated upon PHB2 depletion. Furthermore, PGAM5, which is processed by PARL, participates in PHB2-mediated PINK1 stabilization. Finally, a ligand of PHB proteins that we synthesized, called FL3, was found to strongly inhibit PHB2-mediated mitophagy and to effectively block cancer cell growth and energy production at nanomolar concentrations. Thus, our findings reveal that the PHB2-PARL-PGAM5-PINK1 axis is a novel pathway of PHB2-mediated mitophagy and that targeting PHB2 with the chemical compound FL3 is a promising strategy for cancer therapy. AIFM1: apoptosis inducing factor mitochondria associated 1; ATP5F1A/ATP5A1: ATP synthase F1 subunit alpha; BAF: bafilomycin A1; CALCOCO2/NDP52: calcium binding and coiled-coil domain 2; CCCP: chemical reagent carbonyl cyanide m-chlorophenyl hydrazine; FL3: flavaglines compound 3; HSPD1/HSP60: heat shock protein family D (Hsp60) member 1; LC3B/MAP1LC3B: microtubule associated protein 1 light chain 3 beta; MEF: mouse embryo fibroblasts; MPP: mitochondrial-processing peptidase; MT-CO2/COX2: mitochondrially encoded cytochrome c oxidase II; MTS: mitochondrial targeting sequence; OA: oligomycin and antimycin A; OPTN: optineurin; OTC: ornithine carbamoyltransferase; PARL: presenilin associated rhomboid like; PBS: phosphate-buffered saline; PGAM5: PGAM family member 5, mitochondrial serine/threonine protein phosphatase; PHB: prohibitin; PHB2: prohibitin 2; PINK1: PTEN induced kinase 1; PRKN/Parkin: parkin RBR E3 ubiquitin protein ligase; Roc-A: rocaglamide A; TOMM20: translocase of outer mitochondrial membrane 20; TUBB: tubulin beta class I.

PHB2 (prohibitin 2) promotes PINK1-PRKN/Parkin-dependent mitophagy by the PARL-PGAM5-PINK1 axis;Chaojun Yan;2019;Taylor & Francis


Abstract: Additional file 1. Raw rock mass characterisation assessment used to derive GSI on a 1-m scale.

MOESM1 of Estimating in situ rock mass strength and elastic modulus of granite from the Soultz-sous-ForĂŞts geothermal reservoir (France);MarlĂ¨ne Villeneuve;2018;figshare


Abstract: Each row represents the ratings of the intensity of 20 emotions associated with the color term given by variable "color", by participant identified by variable "subject"

Data set for the manuscript "A machine learning approach to quantify the specificity of color-emotion associations and their cultural differences".;Domicele Jonauskaite;2019;The Royal Society


Abstract: DR pathways modulated in trout cell lines after inoculation with VHSV. (XLSX 10 kb)

Additional file 2: of Genetic and transcriptomic analyses provide new insights on the early antiviral response to VHSV in resistant and susceptible rainbow trout;Eloi Verrier;2018;figshare


Abstract: Description of genes significantly up- or down- regulated by incubation with attenuated VHSV in B57 or A22 cells (adj. p < 0.01, FC > 2,5 or < 0.4). (XLSX 1214 kb)

Additional file 3: of Genetic and transcriptomic analyses provide new insights on the early antiviral response to VHSV in resistant and susceptible rainbow trout;Eloi Verrier;2018;figshare


Abstract: List of rainbow trout genes significantly induced after incubation with inactivated VHSV (adj. p < 0.01, FC > 2,5 or < 0.4), having human putative homolog(s) registered in the Interferome database (Section type I IFN) [ http://interferome.org/interferome/home.jspx ]. (XLSX 208 kb)

Additional file 4: of Genetic and transcriptomic analyses provide new insights on the early antiviral response to VHSV in resistant and susceptible rainbow trout;Eloi Verrier;2018;figshare


Abstract: Description of genes significantly up- or down- regulated in B57 naïve cells compared to A22 naïve cells. (XLSX 878 kb)

Additional file 5: of Genetic and transcriptomic analyses provide new insights on the early antiviral response to VHSV in resistant and susceptible rainbow trout;Eloi Verrier;2018;figshare


Abstract: Mapping of DEG and innate immune-related genes on the rainbow trout reference genome. (XLSX 17 kb)

Additional file 6: of Genetic and transcriptomic analyses provide new insights on the early antiviral response to VHSV in resistant and susceptible rainbow trout;Eloi Verrier;2018;figshare


Abstract: Mapping of candidates genes and microsatellite/SNP markers on the two versions of the rainbow trout genome. (XLSX 11 kb)

Additional file 7: of Genetic and transcriptomic analyses provide new insights on the early antiviral response to VHSV in resistant and susceptible rainbow trout;Eloi Verrier;2018;figshare


Abstract: Table S2. Nucleotide sequences of twelve elements whose TSD could not be determined. (XLSX 11Â kb)

Additional file 2: of Unexpected invasion of miniature inverted-repeat transposable elements in viral genomes;Hua-Hao Zhang;2018;figshare


Abstract: How interactions between individuals contribute to the emergence of complex societies is a major question in behavioural ecology. Nonetheless, little remains known about the type of immediate social structure (i.e. social network) that emerges from relationships that maximize beneficial interactions (e.g. social attraction towards informed individuals) and minimize costly relationships (e.g. social avoidance of infected group mates). We developed an agent-based model where individuals vary in the degree to which individuals signal benefits versus costs to others and, on this basis, choose with whom to interact depending on simple rules of social attraction (e.g. access to the highest benefits) and social avoidance (e.g. avoiding the highest costs). Our main findings demonstrate that the accumulation of individual decisions to avoid interactions with highly costly individuals, but that are to some extent homogeneously beneficial, leads to more modular networks. On the contrary, individuals favouring interactions with highly beneficial individuals, but that are to some extent homogeneously costly, lead to less modular networks. Interestingly, statistical models also indicate that when individuals have multiple potentially beneficial partners to interact with, and no interaction cost exists, this also leads to more modular networks. Yet, the degree of modularity is contingent upon the variability in benefit levels held by individuals. We discuss the emergence of modularity in the systems and their consequences for understanding social trade-offs.

Optimal Relationship Model from The role of social attraction and social avoidance in shaping modular networks;Valéria Romano;2024;The Royal Society


Sp. follow-up of low-metallicity S-PLUS stars;V.M. Placco;2022;Centre de Donnees Strasbourg (CDS)

VizieR online Data Catalogue associated with article published in journal Astrophysical Journal Supplement Series with title 'Mining S-PLUS for metal-poor stars in the Milky Way.' (bibcode: 2022ApJS..262....8P)


Abstract: Additional file 5: Table S7. Biological functions enriched in 597 up-regulated genes with decreased H3K4me2 levels in 701Ri-1-5.

MOESM5 of H3K4me2 functions as a repressive epigenetic mark in plants;Yuhao Liu;2019;figshare


Abstract: Additional file 3: Table S3. Biological functions enriched in the up- and down-regulated genes in 701Ri-1-5 mutant compared to in the wild-type NIP.

MOESM3 of H3K4me2 functions as a repressive epigenetic mark in plants;Yuhao Liu;2019;figshare


Abstract: Additional file 4: Table S6. Peaks and genes with decreased levels of H3K4me2 or H3K4me3 to more than 1.5-fold in 701Ri-1-5 mutant compared to in the wild-type NIP.

MOESM4 of H3K4me2 functions as a repressive epigenetic mark in plants;Yuhao Liu;2019;figshare


Abstract: Additional file 2: Table S2. Genes up- and down-regulated by more than 1.5-fold in 701Ri-1-5 mutant compared to in the wild-type NIP.

MOESM2 of H3K4me2 functions as a repressive epigenetic mark in plants;Yuhao Liu;2019;figshare


Abstract: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.

CCDC 2225045: Experimental Crystal Structure Determination;Bonnenfant, Chloë;2024;Cambridge Crystallographic Data Centre

Related Article: Chloë Bonnenfant, Nahir Vadra, Mathieu Rouzières, Rodolphe Clérac, Fabio D. Cukiernik, Pablo Alborés|2024|Dalton Trans.|53|2815|doi:10.1039/D3DT03656A


CCDC 2225044: Experimental Crystal Structure Determination;Bonnenfant, Chloë;2024;Cambridge Crystallographic Data Centre


CCDC 2225046: Experimental Crystal Structure Determination;Bonnenfant, Chloë;2024;Cambridge Crystallographic Data Centre


CCDC 2225047: Experimental Crystal Structure Determination;Bonnenfant, Chloë;2024;Cambridge Crystallographic Data Centre


CCDC 2301994: Experimental Crystal Structure Determination;Gommenginger, Clément;2024;Cambridge Crystallographic Data Centre

Related Article: Clément Gommenginger, Maxime Hourtoule, Marco Menghini, Laurence Miesch|2024|Org.Biomol.Chem.|22|940|doi:10.1039/D3OB01859H


CCDC 2296534: Experimental Crystal Structure Determination;Suizu, Rie;2023;Cambridge Crystallographic Data Centre

Related Article: Rie Suizu, Yoshiaki Shuku, Vincent Robert, Pablo Roseiro, Nadia Ben Amor, Zain Khawar, Neil Robertson, Kunio Awaga|2024|Dalton Trans.|53|1961|doi:10.1039/D3DT03601D


CCDC 2296535: Experimental Crystal Structure Determination;Suizu, Rie;2023;Cambridge Crystallographic Data Centre


Abstract: Uncut Western Blot from figure 2C

CaMK4 controls Tfh expansion and function during normal and autoimmune T-dependent B cell response;Marc Scherlinger;2024;figshare


Impacts de l'homme sur l'environnement (démographie, économie, commerce)

Questionner la biodiversité dans les socio-écosystèmes OHM;Davy, Damien;2023;LabEx DRIIHM

Session "Questionner la biodiversité dans les socio-écosystèmes OHM" lors du séminaire 2023 du LabEx DRIIHM à Strasbourg


CCDC 2239532: Experimental Crystal Structure Determination;Muller, Cyprien;2023;Cambridge Crystallographic Data Centre

Related Article: Cyprien Muller|2023|CSD Communication||| Related Article: Cyprien Muller, Filip Horký, Marie Vayer, Andrei Golushko, David Lebœuf, Joseph Moran|2023|Chemical Science|14|2983|doi:10.1039/D2SC06692K


CCDC 2239533: Experimental Crystal Structure Determination;Muller, Cyprien;2023;Cambridge Crystallographic Data Centre


CCDC 2239534: Experimental Crystal Structure Determination;Muller, Cyprien;2023;Cambridge Crystallographic Data Centre


CCDC 2239535: Experimental Crystal Structure Determination;Muller, Cyprien;2023;Cambridge Crystallographic Data Centre


CCDC 2282875: Experimental Crystal Structure Determination;Hauser, Adrian;2023;Cambridge Crystallographic Data Centre

Related Article: Adrian Hauser, Luca Münzfeld, Cedric Uhlmann, Sergei Lebedkin, Sören Schlittenhardt, Ting-Ting Ruan, Manfred M. Kappes, Mario Ruben, Peter W. Roesky|2024|Chemical Science|15|1338|doi:10.1039/D3SC03746K

potassium bis(1,4-bis(tri-isopropylsilyl)cyclo-octatetraenedi-ide)-lanthanum toluene unknown solvate


CCDC 2282876: Experimental Crystal Structure Determination;Hauser, Adrian;2023;Cambridge Crystallographic Data Centre

potassium bis(1,4-bis(tri-isopropylsilyl)cyclo-octatetraenedi-ide)-cerium toluene unknown solvate


CCDC 2282877: Experimental Crystal Structure Determination;Hauser, Adrian;2023;Cambridge Crystallographic Data Centre

potassium bis(1,4-bis(tri-isopropylsilyl)cyclo-octatetraenedi-ide)-praseodymium toluene unknown solvate


CCDC 2282878: Experimental Crystal Structure Determination;Hauser, Adrian;2023;Cambridge Crystallographic Data Centre


CCDC 2282879: Experimental Crystal Structure Determination;Hauser, Adrian;2023;Cambridge Crystallographic Data Centre

potassium bis(1,4-bis(tri-isopropylsilyl)cyclo-octatetraenedi-ide)-cerium diethyl ether solvate


CCDC 2282880: Experimental Crystal Structure Determination;Hauser, Adrian;2023;Cambridge Crystallographic Data Centre


CCDC 2282881: Experimental Crystal Structure Determination;Hauser, Adrian;2023;Cambridge Crystallographic Data Centre


CCDC 2282882: Experimental Crystal Structure Determination;Hauser, Adrian;2023;Cambridge Crystallographic Data Centre

potassium bis(1,4-bis(tri-isopropylsilyl)cyclo-octatetraenedi-ide)-erbium toluene solvate


CCDC 2309731: Experimental Crystal Structure Determination;Hauser, Adrian;2023;Cambridge Crystallographic Data Centre


CCDC 2309732: Experimental Crystal Structure Determination;Hauser, Adrian;2023;Cambridge Crystallographic Data Centre


Related Article: Thi Mo Nguyen, Lucas Popek, David Matchavariani, Nicolas Blanchard, Vincent Bizet, Dominique Cahard|2024|Org.Lett.|26|365|doi:10.1021/acs.orglett.3c04043

CCDC 2307783: Experimental Crystal Structure Determination;Nguyen, Thi Mo;2024;Cambridge Crystallographic Data Centre


CCDC 2307784: Experimental Crystal Structure Determination;Nguyen, Thi Mo;2024;Cambridge Crystallographic Data Centre


CCDC 2307785: Experimental Crystal Structure Determination;Nguyen, Thi Mo;2024;Cambridge Crystallographic Data Centre


Related Article: Jiliang Tian, Zhihao Gao, Yongxin Liu, Pierre Braunstein, Shaofeng Liu, Zhibo Li|2024|Inorg.Chem.Front.|11|613|doi:10.1039/D3QI02128A

CCDC 2280229: Experimental Crystal Structure Determination;Tian, Jiliang;2023;Cambridge Crystallographic Data Centre


trichloro-(2,4-di-t-butyl-6-(((2-(methyl(phenyl)amino)phenyl)imino)methyl)phenolato)-titanium benzene chloroform unknown solvate

CCDC 2280230: Experimental Crystal Structure Determination;Tian, Jiliang;2023;Cambridge Crystallographic Data Centre


CCDC 2280231: Experimental Crystal Structure Determination;Tian, Jiliang;2023;Cambridge Crystallographic Data Centre


CCDC 2280232: Experimental Crystal Structure Determination;Tian, Jiliang;2023;Cambridge Crystallographic Data Centre


DTI readouts for designing a preclinical stem-cell therapy trial in experimental stroke;Joshua GOBE;2024;Openneuro


Abstract: This is an ImageJ macro suitable for quantifying the area and diameter of foraminifera tests that have been embedded in epoxy and polished down to approximately the widest part of the test (using diamond polishing pastes with a final grain size of 0.25 µm) and imaged using backscattered electrons (BSE) SEM.

Foraminifera Test Area and Diameter Analysis macro for ImageJ;Deyanira Cisneros-Lazaro;2021;Interdisciplinary Earth Data Alliance (IEDA)

Deyanira Cisneros-Lazaro, Arthur Adams, Jinming Guo, Sylvain Bernard, Lukas P. Baumgartner, Damien Daval, Alain Baronnet, Olivier Grauby, Torsten Vennemann, Jarosław Stolarski, Stéphane Escrig, Anders Meibom, 2021, "Fast and pervasive diagenetic isotope exchange in foraminifera tests is species-dependent", Nature Communications


Related Article: Ying Jin, Zhiyong Chai, Yoann Rousselin, Jean-Thomas Pouzens, Paul Fleurat-Lessard, Claude P. Gros, Annaëlle Beau, Frédéric Bolze, Hai-Jun Xu|2024|Dyes Pigm.|222|111866|doi:10.1016/j.dyepig.2023.111866

CCDC 2270848: Experimental Crystal Structure Determination;Jin, Ying;2023;Cambridge Crystallographic Data Centre


CCDC 2243734: Experimental Crystal Structure Determination;Labra-Vázquez, Pablo;2023;Cambridge Crystallographic Data Centre

Related Article: Pablo Labra-Vázquez, Vladyslav Mudrak, Marine Tassé, Sonia Mallet-Ladeira, Alix Sournia-Saquet, Jean-Pierre Malval, Pascal G. Lacroix, Isabelle Malfant|2023|Inorg.Chem.|62|20349|doi:10.1021/acs.inorgchem.3c03355


(12,22:26,32-terpyridine)-tris(acetonitrile)-ruthenium(ii) bis(hexafluorophosphate) N,N-dimethylformamide solvate

CCDC 2243735: Experimental Crystal Structure Determination;Labra-Vázquez, Pablo;2023;Cambridge Crystallographic Data Centre


CCDC 2243736: Experimental Crystal Structure Determination;Labra-Vázquez, Pablo;2023;Cambridge Crystallographic Data Centre


CCDC 2243737: Experimental Crystal Structure Determination;Labra-Vázquez, Pablo;2023;Cambridge Crystallographic Data Centre


CCDC 2243738: Experimental Crystal Structure Determination;Labra-Vázquez, Pablo;2023;Cambridge Crystallographic Data Centre


CCDC 2243739: Experimental Crystal Structure Determination;Labra-Vázquez, Pablo;2023;Cambridge Crystallographic Data Centre


CCDC 2243740: Experimental Crystal Structure Determination;Labra-Vázquez, Pablo;2023;Cambridge Crystallographic Data Centre


CCDC 2243741: Experimental Crystal Structure Determination;Labra-Vázquez, Pablo;2023;Cambridge Crystallographic Data Centre


(24-(4-bromophenyl)-12,22:26,32-terpyridine)-(pentane-2,4-dionato)-(nitrosyl)-ruthenium bis(hexafluorophosphate) N,N-dimethylformamide unknown solvate

CCDC 2243742: Experimental Crystal Structure Determination;Labra-Vázquez, Pablo;2023;Cambridge Crystallographic Data Centre


(24-(4-nitrophenyl)-12,22:26,32-terpyridine)-(pentane-2,4-dionato)-(nitrosyl)-ruthenium bis(hexafluorophosphate) acetonitrile unknown solvate

CCDC 2243743: Experimental Crystal Structure Determination;Labra-Vázquez, Pablo;2023;Cambridge Crystallographic Data Centre


CCDC 2243744: Experimental Crystal Structure Determination;Labra-Vázquez, Pablo;2023;Cambridge Crystallographic Data Centre


CCDC 2243745: Experimental Crystal Structure Determination;Labra-Vázquez, Pablo;2023;Cambridge Crystallographic Data Centre


Hierarchical clustering in Vela OB2 complex;X. Pang;2023;Centre de Donnees Strasbourg (CDS)

VizieR online Data Catalogue associated with article published in journal Astronomical Journal (AAS) with title 'Disruption of hierarchical clustering in the Vela OB2 complex and the cluster pair Collinder 135 and UBC 7 with Gaia EDR3: evidence of supernova quenching.' (bibcode: 2021ApJ...923...20P)


Abstract: Vocal communication is widespread in animals, with vocal repertoires of varying complexity. The social complexity hypothesis predicts that species may need high vocal complexity to deal with complex social organization (e.g. have a variety of different interindividual relations). We quantified the vocal complexity of two geographically distant captive colonies of rooks, a corvid species with complex social organization and cognitive performances, but understudied vocal abilities. We quantified the diversity and gradation of their repertoire, as well as the inter-individual similarity at the vocal unit level. We found that males produced call units with lower diversity and gradation than females, while song units did not differ between sexes. Surprisingly, while females produced highly similar call repertoires, even between colonies, each individual male produced almost completely different call repertoires from any other individual. These findings question the way male rooks communicate with their social partners. We suggest that each male may actively seek to remain vocally distinct, which could be an asset in their frequently changing social environment. We conclude that inter-individual similarity, an understudied aspect of vocal repertoires, should also be considered as a measure of vocal complexity.

example_calls_per_individual.zip from Vocal complexity in a socially complex corvid: gradation, diversity and lack of common call repertoire in male rooks;Killian Martin;2023;The Royal Society