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11 results on '"Beniddir, Mehdi A."'

1. Poster

Author

Allard, Pierre-Marie, Da Silva, Alexandre, Bisson, Jonathan, Beniddir, Mehdi, and Genta-Jouve, Gregory

Subjects
poster
Published
2022
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2. On the structures of the penduflorines from Tabernaemontana penduliflora

Author

Beniddir, Mehdi A., Göransson, Ulf, and Robertson, Luke P.

Subjects
Apocynaceae, Pharmacology, Organisk kemi, Structure revision, Monoterpene indole alkaloid, Alkaloid, Organic Chemistry, Drug Discovery, General Medicine, Vobasine
Abstract

The structures of the recently published monoterpene indole alkaloids penduflorines A and B (1a and 1b), isolated from Tabernaemontana penduliflora (Apocynaceae), have been revised. Rather than an inseparable mixture of two compounds, they appear to be the known alkaloid vobasine (2). Although we could not comprehensively revise the structures of penduflorines C-E due to lacking spectral data, since their structural elucidations were based on that of 1a and 1b, their structures should also be treated with caution.

Published
2023

4. Corrigendum to 'Further terpenoids from Euphorbia tirucalli' (vol 135, pg 44, 2019)

Author

Duong, Thuc-Huy, Beniddir, Mehdi A., Genta-Jouve, Grégory, Nguyen, Huu-Hung, Nguyen, Dinh-Phuoc, Nguyen, Thi-Anh-Tuyet, Mac, Dinh-Hung, Boustie, Joel, Nguyen, Kim-Phi-Phung, Chavasiri, Warinthorn, Le Pogam, Pierre, Ton Duc Thang University [Hô-Chi-Minh-City], Biomolécules : Conception, Isolement, Synthèse (BioCIS), Institut de Chimie du CNRS (INC)-Université Paris-Saclay-Centre National de la Recherche Scientifique (CNRS)-CY Cergy Paris Université (CY), Synthèse et structure de molécules d'interet pharmacologique (SSMIP), Université Paris Descartes - Paris 5 (UPD5)-Centre National de la Recherche Scientifique (CNRS), Nguyen Tat Thanh University [Vietnam] (NTTU), Chulalongkorn University [Bangkok], Ho Chi Minh City University of Science (HCMUS), Vietnam National University [Hanoï] (VNU), Institut des Sciences Chimiques de Rennes (ISCR), Université de Rennes (UR)-Institut National des Sciences Appliquées - Rennes (INSA Rennes), Institut National des Sciences Appliquées (INSA)-Institut National des Sciences Appliquées (INSA)-Ecole Nationale Supérieure de Chimie de Rennes (ENSCR)-Institut de Chimie du CNRS (INC)-Centre National de la Recherche Scientifique (CNRS), Vietnam National University - Ho Chi Minh City (VNU-HCM), Centre National de la Recherche Scientifique (CNRS)-Institut de Chimie du CNRS (INC)-Université de Rennes 1 (UR1), Université de Rennes (UNIV-RENNES)-Université de Rennes (UNIV-RENNES)-Ecole Nationale Supérieure de Chimie de Rennes (ENSCR)-Institut National des Sciences Appliquées - Rennes (INSA Rennes), and Institut National des Sciences Appliquées (INSA)-Université de Rennes (UNIV-RENNES)-Institut National des Sciences Appliquées (INSA)

Subjects
[CHIM]Chemical Sciences
Abstract

International audience; The authors regret that the name of the botanist who identified the plant material investigated was wrongly reported. The paragraph Plant Material should read as follows:“4.2. Plant material.Whole plants of Euphorbia tirucalli L. (Euphorbiaceae) were collected from Hong Son village, Ham Thuan Bac, in Binh Thuan province (11.129754° N, 108.143550° E) in July 2014 (wet season). The botanical sample was identified by Dr. Tran Cong Luan, Faculty of Pharmacy and Nursery, Tay Do University, Can Tho, Vietnam. A voucher specimen (No UP002) is deposited in the herbarium of the Department of Organic Chemistry, University of Science, Ho Chi Minh City.”

Published
2021

6. Corynanthean-Epicatechin Flavoalkaloids from Corynanthe pachyceras

Author

Kouamé, Tapé, Okpekon, Aboua Timothée, Bony, Nicaise, N'Tamon, Amon Diane, Gallard, Jean-François, Rharrabti, Somia, Leblanc, Karine, Mouray, Elisabeth, Grellier, Philippe, Champy, Pierre, Beniddir, Mehdi, Le Pogam, Pierre, N’tamon, Amon Diane, Laboratoire de Chimie des Substances Naturelles (LCSN), Université de Limoges (UNILIM)-Génomique, Environnement, Immunité, Santé, Thérapeutique (GEIST FR CNRS 3503), Laboratoire de Chimie Organique et de Substances Naturelles (LCOSN), Université Félix Houphouët-Boigny (UFHB), Biomolécules : Conception, Isolement, Synthèse (BioCIS), Institut de Chimie du CNRS (INC)-Université Paris-Saclay-Centre National de la Recherche Scientifique (CNRS)-CY Cergy Paris Université (CY), Molécules de Communication et Adaptation des Micro-organismes (MCAM), Muséum national d'Histoire naturelle (MNHN)-Centre National de la Recherche Scientifique (CNRS), Institut de Chimie des Substances Naturelles (ICSN), Institut de Chimie du CNRS (INC)-Université Paris-Saclay-Centre National de la Recherche Scientifique (CNRS), Laboratoire d'océanographie et de biogéochimie (LOB), Université de la Méditerranée - Aix-Marseille 2-Institut national des sciences de l'Univers (INSU - CNRS)-Centre National de la Recherche Scientifique (CNRS), Laboratoire de Pharmacognosie (BioCIS), Université Paris-Sud - Paris 11 (UP11)-Centre National de la Recherche Scientifique (CNRS), Centre National de la Recherche Scientifique (CNRS), Université Paris-Sud - Paris 11 (UP11)-Université de Cergy Pontoise (UCP), Université Paris-Seine-Université Paris-Seine-Centre National de la Recherche Scientifique (CNRS), Université de Rennes 1 (UR1), and Université de Rennes (UNIV-RENNES)

Subjects
Magnetic Resonance Spectroscopy, Monoterpene, [SDV]Life Sciences [q-bio], Flavonoid, Pharmaceutical Science, Corynanthean, Corynanthe pachyceras, 01 natural sciences, Catechin, Mass Spectrometry, Indole Alkaloids, Analytical Chemistry, Pausinystalia, Drug Discovery, MESH: Pausinystalia, ComputingMilieux_MISCELLANEOUS, rubiaceae, MESH: Inhibitory Concentration 50, Anthelmintics, chemistry.chemical_classification, 0303 health sciences, molecular networking, MESH: Plant Stems, Molecular Structure, Plant Stems, Chemistry, [SDV.MP]Life Sciences [q-bio]/Microbiology and Parasitology, MESH: Anthelmintics, Chemistry (miscellaneous), Molecular networking, Plant Bark, Molecular Medicine, MESH: Monoterpenes, Two-dimensional nuclear magnetic resonance spectroscopy, MESH: Plant Bark, Stereochemistry, MESH: Catechin, MESH: Molecular Structure, Article, lcsh:QD241-441, Inhibitory Concentration 50, 03 medical and health sciences, lcsh:Organic chemistry, [CHIM]Chemical Sciences, Physical and Theoretical Chemistry, 030304 developmental biology, Flavonoids, monoterpene indole alkaloids, MESH: Mass Spectrometry, Stem bark, Indole alkaloid, 010405 organic chemistry, MESH: Magnetic Resonance Spectroscopy, Organic Chemistry, 0104 chemical sciences, MESH: Indole Alkaloids, flavoalkaloids, Monoterpenes, MESH: Flavonoids
Abstract

International audience; Epicatechocorynantheines A and B, and epicatechocorynantheidine were isolated from the stem bark of Corynanthe pachyceras. These molecules were pinpointed, and their isolation streamlined, by a molecular networking strategy. The structural elucidation was unambiguously accomplished from HRMS and 1D/2D NMR data. These compounds represent the first examples of corynanthean-type alkaloids tethered with a flavonoid. Epicatechocorynantheidine notably instigated two connections between the monoterpene indole alkaloid and the flavonoid, yielding an unprecedented octacyclic appendage. These flavoalkaloids exerted moderate antiplasmodial activities.

Published
2020

7. MIADB: Monoterpene Indole Alkaloid MS/MS Spectral Database

Author

Fox Ramos, Alexander E., Le Pogam, Pierre, Alcover, Charlotte, Otogo N'Nang, Elvis, Cauchie, Gaëla, Hazni, Hazrina, Awang, Kalijah, Bréard, Dimitri, Echavarren, Antonio M., Frederich, Michel, Gaslonde, Thomas, Girardot, Marion, Grougnet, Raphael, Kirillova, Mariia S., Kritsanida, Marina, Lémus, Christelle, Le Ray, Anne-Marie, Lewin, Guy, Litaudon, Marc, Mambu, Lengo, Michel, Sylvie, Miloserdov, Fedor M., Muratore, Michael E., Richomme-Peniguel, Pascal, Roussi, Fanny, Evanno, Laurent, Poupon, Erwan, Champy, Pierre, and Beniddir, Mehdi A.

Abstract

This Data Descriptor announces the submission to public repositories of the monoterpene indole alkaloid database (MIADB), a cumulative collection of 172 tandem mass spectrometry (MS/MS) spectra from multiple research projects conducted in eight natural product chemistry laboratories since the 1960s. All data has been annotated and organized to promote reuse by the community. Being a unique collection of these complex natural products, these data can be used to guide the dereplication and targeting of new related monoterpene indole alkaloids within complex mixtures when applying computer-based approaches, such as molecular networking. Each spectrum has its own accession number from CCMSLIB00004679916 to CCMSLIB00004680087 on the GNPS. The MIADB is available for download from MetaboLights under the identifier: MTBLS142 (https://www.ebi.ac.uk/metabolights/MTBLS142).

Published
2019

8. A database of high-resolution MS/MS spectra for lichen metabolites

Author

Olivier-Jimenez, Damien, Chollet-Krugler, Marylène, Rondeau, David, Beniddir, Mehdi A., Ferron, Solenn, Delhaye, Thomas, Allard, Pierre-Marie, Wolfender, Jean-Luc, Sipman, Harrie J. M., Lücking, Robert, Boustie, Joël, Le Pogam, Pierre, Institut des Sciences Chimiques de Rennes (ISCR), Université de Rennes 1 (UR1), Université de Rennes (UNIV-RENNES)-Université de Rennes (UNIV-RENNES)-Institut National des Sciences Appliquées - Rennes (INSA Rennes), Institut National des Sciences Appliquées (INSA)-Université de Rennes (UNIV-RENNES)-Institut National des Sciences Appliquées (INSA)-Ecole Nationale Supérieure de Chimie de Rennes (ENSCR)-Institut de Chimie du CNRS (INC)-Centre National de la Recherche Scientifique (CNRS), Institut d'Électronique et des Technologies du numéRique (IETR), Nantes Université (NU)-Université de Rennes 1 (UR1), Institut National des Sciences Appliquées (INSA)-Université de Rennes (UNIV-RENNES)-Institut National des Sciences Appliquées (INSA)-CentraleSupélec-Centre National de la Recherche Scientifique (CNRS), Université de Brest (UBO), Molécules bioactives, conception, isolement et synthèse (MBCIS), Université Paris-Sud - Paris 11 (UP11)-Centre National de la Recherche Scientifique (CNRS), Université de Genève (UNIGE), Université de Lausanne (UNIL), Freie Universität Berlin, Université de Rennes (UR)-Institut National des Sciences Appliquées - Rennes (INSA Rennes), Institut National des Sciences Appliquées (INSA)-Institut National des Sciences Appliquées (INSA)-Ecole Nationale Supérieure de Chimie de Rennes (ENSCR)-Institut de Chimie du CNRS (INC)-Centre National de la Recherche Scientifique (CNRS), Université de Nantes (UN)-Université de Rennes (UR)-Institut National des Sciences Appliquées - Rennes (INSA Rennes), Institut National des Sciences Appliquées (INSA)-Institut National des Sciences Appliquées (INSA)-CentraleSupélec-Centre National de la Recherche Scientifique (CNRS), Université de Genève = University of Geneva (UNIGE), Université de Lausanne = University of Lausanne (UNIL), and Université de Nantes (UN)-Université de Rennes 1 (UR1)

Subjects
Statistics and Probability, Data Descriptor, Natural products, Databases, Factual, Lichens, Mass spectrometry, Small molecules, 500 Naturwissenschaften und Mathematik::500 Naturwissenschaften::500 Naturwissenschaften und Mathematik, Library and Information Sciences, Computer Science Applications, Education, Tandem Mass Spectrometry, Metabolomics, [CHIM]Chemical Sciences, lcsh:Q, Statistics, Probability and Uncertainty, Secondary metabolism, lcsh:Science, Information Systems
Abstract

While analytical techniques in natural products research massively shifted to liquid chromatography-mass spectrometry, lichen chemistry remains reliant on limited analytical methods, Thin Layer Chromatography being the gold standard. To meet the modern standards of metabolomics within lichenochemistry, we announce the publication of an open access MS/MS library with 250 metabolites, coined LDB for Lichen DataBase, providing a comprehensive coverage of lichen chemodiversity. These were donated by the Berlin Garden and Botanical Museum from the collection of Siegfried Huneck to be analyzed by LC-MS/MS. Spectra at individual collision energies were submitted to MetaboLights (https://www.ebi.ac.uk/metabolights/MTBLS999) while merged spectra were uploaded to the GNPS platform (CCMSLIB00004751209 to CCMSLIB00004751517). Technical validation was achieved by dereplicating three lichen extracts using a Molecular Networking approach, revealing the detection of eleven unique molecules that would have been missed without LDB implementation to the GNPS. From a chemist’s viewpoint, this database should help streamlining the isolation of formerly unreported metabolites. From a taxonomist perspective, the LDB offers a versatile tool for the chemical profiling of newly reported species., Measurement(s)lichen metaboliteTechnology Type(s)liquid chromatography-tandem mass spectrometryFactor Type(s)organismSample Characteristic - Organismlichen Machine-accessible metadata file describing the reported data: 10.6084/m9.figshare.10265234

Published
2019

9. A ring-distortion strategy from marine natural product ilimaquinone leads to quorum sensing modulators

Author

Evanno, Laurent, Lachkar, David, Lamali, Assia, Boufridi, Asmaa, Seon-Meniel, Blandine, Tintillier, Florent, Saulnier, Denis, Denis, Stephanie, Genta-Jouve, Grégory, Jullian, Jean-Christophe, Leblanc, Karine, Beniddir, Mehdi A., Petek, Sylvain, Debitus, Cécile, Poupon, Erwan, Biomolécules : Conception, Isolement, Synthèse (BioCIS), Université Paris-Sud - Paris 11 (UP11)-Institut de Chimie du CNRS (INC)-Centre National de la Recherche Scientifique (CNRS)-CY Cergy Paris Université (CY), Ecosystèmes Insulaires Océaniens (UMR 241) (EIO), Université de la Polynésie Française (UPF)-Institut Louis Malardé [Papeete] (ILM), Institut de Recherche pour le Développement (IRD)-Institut de Recherche pour le Développement (IRD)-Institut Français de Recherche pour l'Exploitation de la Mer (IFREMER), Institut Louis Malardé [Papeete] (ILM), Institut de Recherche pour le Développement (IRD), Equipe C-TAC (UMR 8638), Chimie Organique, Médicinale et Extractive et Toxicologie Expérimentale (COMETE - UMR 8638), Université Paris Descartes - Paris 5 (UPD5)-Institut de Chimie du CNRS (INC)-Centre National de la Recherche Scientifique (CNRS)-Université Paris Descartes - Paris 5 (UPD5)-Institut de Chimie du CNRS (INC)-Centre National de la Recherche Scientifique (CNRS), Laboratoire des Sciences de l'Environnement Marin (LEMAR) (LEMAR), Institut de Recherche pour le Développement (IRD)-Institut Français de Recherche pour l'Exploitation de la Mer (IFREMER)-Université de Brest (UBO)-Institut Universitaire Européen de la Mer (IUEM), Institut de Recherche pour le Développement (IRD)-Institut national des sciences de l'Univers (INSU - CNRS)-Université de Brest (UBO)-Centre National de la Recherche Scientifique (CNRS)-Institut national des sciences de l'Univers (INSU - CNRS)-Université de Brest (UBO)-Centre National de la Recherche Scientifique (CNRS)-Centre National de la Recherche Scientifique (CNRS), and ANR-11-EBIM-0006,POMARE,Invertébrés benthiques de Polynésie, Martinique et Réunion : interactions et évaluation de la chimiodiversité pour un usage durable de la biodiversité(2011)

Subjects
ozonolysis, Ilimaquinone, acid-catalyzed rearrangements, ACL, sesquiterpene quinones, Quinones, diverse compounds, Quorum sensing, vibrio-harveyi, Synthetic methods, unified synthesis, Molecular diversity, radical decarboxylation, quinone addition-reaction, [SDE.BE]Environmental Sciences/Biodiversity and Ecology, sponge dactylospongia-elegans, Ring-distortion, complex
Abstract

WOS:000434220200016; International audience; We report herein a ring-distortion strategy applied to marine natural substances ilimaquinone and 5-epi-ilimaquinone. A chemically diverse library of molecules was synthesised that included rearrangements of the sesquiterpene moiety and original reorganisations of the quinone ring. Chemoinformatic analyses evaluated the rise of structural diversity and the exploration of chemical space. Some focussed biological activities of this library were also investigated; quorum sensing activity of Vibrio harveyi was envisaged and some of the new compounds were shown to be good quorum sensing inhibitor candidates, whereas others were activators. Toxicities were also evaluated and some products showed micromolar activities against human umbilical vein endothelium, human hepatocellular carcinoma and human lung carcinoma (A549) cells.

Published
2018

10. Beyond the 'Code': A Guide to the Description and Documentation of Biodiversity in Ciliated Protists (Alveolata, Ciliophora)

Author

Fox Ramos, Alexander, Alcover, Charlotte, Evanno, Laurent, Litaudon, Marc, DUPLAIS, Christophe, Bernadat, Guillaume, Gallard, Jean-Francois, Jullian, Christophe, Mouray, Elisabeth, Loiseau, Philippe, Pomel, Sébastien, Poupon, Erwan, Champy, Pierre, Beniddir, Mehdi, Ortiz, Sergio, Dali-Yahia, Kamel, Vásquez-Ocmín, Pedro, Grougnet, Raphäel, Grellier, Philippe, Michel, Sylvie, Maciuk, Alexandre, Boutefnouchet, Sabrina, Warren, Alan, Patterson, David, Dunthorn, Micah, Clamp, John, Achilles-Day, Undine E.M., Aescht, Erna, Al-Farraj, Saleh, Al-Quraishy, Saleh, Al-Rasheid, Khaled, Carr, Martin, Day, John, Dellinger, Marc, El-Serehy, Hamed, Fan, Yangbo, Gao, Feng, Gao, Shan, Gong, Jun, Gupta, Renu, Hu, Xiaozhong, Kamra, Komal, Langlois, Gaytha, Lin, Xiaofeng, Lipscomb, Diana, Lobban, Christopher, Luporini, Pierangelo, Lynn, Denis, Ma, Honggang, Ma, Miroslav, Ma, Jacqueline, Ma, Seema, Ma, Robert, Ma, Mercedes, McMiller, Nettie, Montagnes, David, Nikolaeva, Svetlana, Ong'ondo, Geoffrey Odhiambo, Ma, Blanca, Purushothaman, Jasmine, Ma, Pablo, Rotterová, Johana, Ma, Luciana, Shao, Chen, Shen, Zhuo, Shi, Xinlu, Ma, Weibo, Stoeck, Thorsten, La Terza, Antonietta, Vallesi, Adriana, Ma, Mei, Weisse, Thomas, Wiackowski, Krzysztof, Wu, Lei, Xu, Kuidong, Yi, Zhenzhen, Zufall, Rebecca, Agatha, Sabine, Équipe 'Pharmacognosie-Chimie des Substances Naturelles' BioCIS, Centre National de la Recherche Scientifique (CNRS), Institut de Chimie des Substances Naturelles (ICSN), Centre National de la Recherche Scientifique (CNRS)-Institut de Chimie du CNRS (INC), Équipe 'Molécules Fluorées et Chimie Médicinale' BioCIS, Molécules de Communication et Adaptation des Micro-organismes (MCAM), Muséum national d'Histoire naturelle (MNHN)-Centre National de la Recherche Scientifique (CNRS), Équipe 'Chimiothérapie Antiparasitaire' BioCIS, Universitat d'Alacant, Laboratorios de Investigación y Desarrollo (LID), Universidad Peruana Cayetano Heredia (UPCH), Chimie Organique, Médicinale et Extractive et Toxicologie Expérimentale (COMETE - UMR 8638), Centre National de la Recherche Scientifique (CNRS)-Institut de Chimie du CNRS (INC)-Université Paris Descartes - Paris 5 (UPD5), Equipe Pharmacognosie (UMR 8638), Centre National de la Recherche Scientifique (CNRS)-Institut de Chimie du CNRS (INC)-Université Paris Descartes - Paris 5 (UPD5)-Centre National de la Recherche Scientifique (CNRS)-Institut de Chimie du CNRS (INC)-Université Paris Descartes - Paris 5 (UPD5), National History Museum of London, Department of ecology, Universität Kaiserslautern, Austrian Museum, University of Huddersfield, Computer Science Department [Boston] (Boston University), Boston University [Boston] (BU), Laboratoire de Mecanique des Fluides et d'Acoustique (LMFA), École Centrale de Lyon (ECL), Université de Lyon-Université de Lyon-Université Claude Bernard Lyon 1 (UCBL), Université de Lyon-Institut National des Sciences Appliquées de Lyon (INSA Lyon), Institut National des Sciences Appliquées (INSA)-Université de Lyon-Institut National des Sciences Appliquées (INSA)-Centre National de la Recherche Scientifique (CNRS), Wuhan University [China], Institut Charles Sadron (ICS), Université de Strasbourg (UNISTRA)-Institut de Chimie du CNRS (INC)-Centre National de la Recherche Scientifique (CNRS)-Réseau nanophotonique et optique, Centre National de la Recherche Scientifique (CNRS)-Université de Strasbourg (UNISTRA)-Université de Haute-Alsace (UHA) Mulhouse - Colmar (Université de Haute-Alsace (UHA))-Centre National de la Recherche Scientifique (CNRS)-Université de Strasbourg (UNISTRA)-Université de Haute-Alsace (UHA) Mulhouse - Colmar (Université de Haute-Alsace (UHA))-Matériaux et nanosciences d'Alsace (FMNGE), Institut de Chimie du CNRS (INC)-Université de Strasbourg (UNISTRA)-Université de Haute-Alsace (UHA) Mulhouse - Colmar (Université de Haute-Alsace (UHA))-Institut National de la Santé et de la Recherche Médicale (INSERM)-Centre National de la Recherche Scientifique (CNRS)-Université de Strasbourg (UNISTRA)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Centre National de la Recherche Scientifique (CNRS), School of Biological Sciences [Liverpool], University of Liverpool, Shandong University, Institutions et Dynamiques Historiques de l'Économie et de la Société (IDHES), Ecole Normale Supérieure Paris-Saclay (ENS Paris Saclay)-Université d'Évry-Val-d'Essonne (UEVE)-Centre National de la Recherche Scientifique (CNRS)-Université Paris Nanterre (UPN)-Université Paris 8 Vincennes-Saint-Denis (UP8)-Université Paris 1 Panthéon-Sorbonne (UP1), Universität Salzburg, Institut de Chimie du CNRS (INC)-Centre National de la Recherche Scientifique (CNRS), Université Paris Descartes - Paris 5 (UPD5)-Institut de Chimie du CNRS (INC)-Centre National de la Recherche Scientifique (CNRS), Université Paris Descartes - Paris 5 (UPD5)-Institut de Chimie du CNRS (INC)-Centre National de la Recherche Scientifique (CNRS)-Université Paris Descartes - Paris 5 (UPD5)-Institut de Chimie du CNRS (INC)-Centre National de la Recherche Scientifique (CNRS), Université de Lyon-Institut National des Sciences Appliquées (INSA)-Institut National des Sciences Appliquées (INSA)-Centre National de la Recherche Scientifique (CNRS), Université de Strasbourg (UNISTRA)-Institut de Chimie du CNRS (INC)-Centre National de la Recherche Scientifique (CNRS)-Matériaux et Nanosciences Grand-Est (MNGE), Université de Strasbourg (UNISTRA)-Université de Haute-Alsace (UHA) Mulhouse - Colmar (Université de Haute-Alsace (UHA))-Institut National de la Santé et de la Recherche Médicale (INSERM)-Institut de Chimie du CNRS (INC)-Centre National de la Recherche Scientifique (CNRS)-Université de Strasbourg (UNISTRA)-Université de Haute-Alsace (UHA) Mulhouse - Colmar (Université de Haute-Alsace (UHA))-Institut National de la Santé et de la Recherche Médicale (INSERM)-Centre National de la Recherche Scientifique (CNRS)-Réseau nanophotonique et optique, Université de Strasbourg (UNISTRA)-Université de Haute-Alsace (UHA) Mulhouse - Colmar (Université de Haute-Alsace (UHA))-Centre National de la Recherche Scientifique (CNRS)-Université de Strasbourg (UNISTRA)-Centre National de la Recherche Scientifique (CNRS), Université Paris 1 Panthéon-Sorbonne (UP1)-Université Paris 8 Vincennes-Saint-Denis (UP8)-Université Paris Nanterre (UPN)-Université d'Évry-Val-d'Essonne (UEVE)-Centre National de la Recherche Scientifique (CNRS)-Ecole Normale Supérieure Paris-Saclay (ENS Paris Saclay), Université de Strasbourg (UNISTRA)-Institut de Chimie du CNRS (INC)-Centre National de la Recherche Scientifique (CNRS)-Matériaux et nanosciences d'Alsace (FMNGE), Laboratorio de Enfermedades Infecciosas, Laboratorios de Investigacion y Desarrollo, Universidad Peruana Cayetano Heredia-FACULTAD DE CIENCIAS Y FILOSOFIA, Université Paris Descartes - Paris 5 (UPD5)-Centre National de la Recherche Scientifique (CNRS), Université Paris Descartes - Paris 5 (UPD5)-Centre National de la Recherche Scientifique (CNRS)-Université Paris Descartes - Paris 5 (UPD5)-Centre National de la Recherche Scientifique (CNRS), Université de Strasbourg (UNISTRA)-Centre National de la Recherche Scientifique (CNRS)-Matériaux et nanosciences d'Alsace, Université de Strasbourg (UNISTRA)-Université de Haute-Alsace (UHA) Mulhouse - Colmar (Université de Haute-Alsace (UHA))-Institut National de la Santé et de la Recherche Médicale (INSERM)-Centre National de la Recherche Scientifique (CNRS)-Université de Strasbourg (UNISTRA)-Université de Haute-Alsace (UHA) Mulhouse - Colmar (Université de Haute-Alsace (UHA))-Institut National de la Santé et de la Recherche Médicale (INSERM)-Centre National de la Recherche Scientifique (CNRS)-Réseau nanophotonique et optique, Université de Strasbourg (UNISTRA)-Université de Haute-Alsace (UHA) Mulhouse - Colmar (Université de Haute-Alsace (UHA))-Centre National de la Recherche Scientifique (CNRS)-Université de Strasbourg (UNISTRA), Bio Sci, Univ Liverpool, and École normale supérieure - Cachan (ENS Cachan)-Université Panthéon-Sorbonne (UP1)-Université Paris 8 Vincennes-Saint-Denis (UP8)-Université Paris Nanterre (UPN)-Centre National de la Recherche Scientifique (CNRS)-Université d'Évry-Val-d'Essonne (UEVE)

Subjects
0301 basic medicine, Databases, Factual, Cultivation, Best practice, [SDV]Life Sciences [q-bio], Biodiversity, Invertebrados, [SDV.BID]Life Sciences [q-bio]/Biodiversity, Biology, Q1, Microbiología, Microbiology, GeneralLiterature_MISCELLANEOUS, taxonomy, 03 medical and health sciences, Documentation, morphology, Ciliophora, systematics, QH426, Phylogeny, molecular phylogeny, ComputingMilieux_MISCELLANEOUS, Grand Challenges, International research, Internet, Ecology, business.industry, Online database, Original Articles, Data science, type specimens, phylogenetics, Metadata, 030104 developmental biology, cultivation, Knowledge base, Original Article, nomenclature, business, information resources
Abstract

© 2017 The International Society of Protistologists.Recent advances in molecular technology have revolutionized research on all aspects of the biology of organisms, including ciliates, and created unprecedented opportunities for pursuing a more integrative approach to investigations of biodiversity. However, this goal is complicated by large gaps and inconsistencies that still exist in the foundation of basic information about biodiversity of ciliates. The present paper reviews issues relating to the taxonomy of ciliates and presents specific recommendations for best practice in the observation and documentation of their biodiversity. This effort stems from a workshop that explored ways to implement six Grand Challenges proposed by the International Research Coordination Network for Biodiversity of Ciliates (IRCN-BC). As part of its commitment to strengthening the knowledge base that supports research on biodiversity of ciliates, the IRCN-BC proposes to populate The Ciliate Guide, an online database, with biodiversity-related data and metadata to create a resource that will facilitate accurate taxonomic identifications and promote sharing of data.

Published
2017

11. The value of universally available raw NMR data for transparency, reproducibility, and integrity in natural product research

Author

Jie Li, Ben Shen, Orazio Taglialatela-Scafati, Matthias Niemitz, Sonja Sturm, Jian Min Yue, Andrei G. Kutateladze, Craig M. Williams, Nicholas H. Oberlies, Phillip Crews, Jean-Hugues Renault, Hermann Stuppner, John B. MacMillan, David Coppage, Harald Gross, Bin Gui Wang, Hiroyuki Koshino, Shao-Nong Chen, Bradley S. Moore, Carla M. Saunders, Jonathan Bisson, Andersson Barison, Miaomiao Liu, David G. I. Kingston, Young Hae Choi, Dean J. Tantillo, Mary J. Garson, Christoph Seger, Mehdi A. Beniddir, Hsiau Wei Lee, Wolfgang Robien, Zhengren Xu, Maique W. Biavatti, Tadeusz F. Molinski, David C. Lankin, Stefan Bluml, Damien Jeannerat, Philip G. Williams, José Rivera-Chávez, Julien Wist, Grégory Genta-Jouve, Ram P. Neupane, James B. McAlpine, Chen Zhang, Ronald J. Quinn, Joo-Won Nam, William H. Gerwick, Giovanni Appendino, Fernanda Maria Marins Ocampos, Jean-Marc Nuzillard, Joseph M. Egan, Luke Hunter, Marie Csete, Guohui Pan, Robert Verpoorte, Roger G. Linington, Tyler A. Johnson, Precilia Hermanto, Kerry L. McPhail, Mark S. Butler, Guy Lewin, Charlotte Simmler, Guido F. Pauli, Michael T. Crimmins, Mary Kay Harper, Thomas J. Schmidt, Christoph Steinbeck, James M. Hook, Nai Yun Ji, D. Sai Reddy, Asmaa Boufridi, Robert J. Capon, Pradeep Dewapriya, Jeannerat, Damien, Mcalpine, James B, Chen, Shao-Nong, Kutateladze, Andrei, Macmillan, John B, Appendino, Giovanni, Barison, Andersson, Beniddir, Mehdi A, Biavatti, Maique W, Bluml, Stefan, Boufridi, Asmaa, Butler, Mark S, Capon, Robert J, Choi, Young H, Coppage, David, Crews, Phillip, Crimmins, Michael T, Csete, Marie, Dewapriya, Pradeep, Egan, Joseph M, Garson, Mary J, Genta-Jouve, Grégory, Gerwick, William H, Gross, Harald, Harper, Mary Kay, Hermanto, Precilia, Hook, James M, Hunter, Luke, Nai-Yun, Ji, Johnson, Tyler A, Kingston, David G I, Koshino, Hiroyuki, Lee, Hsiau-Wei, Lewin, Guy, Jie, Li, Linington, Roger G, Liu, Miaomiao, Mcphail, Kerry L, Molinski, Tadeusz F, Moore, Bradley S, Nam, Joo-Won, Neupane, Ram P, Niemitz, Matthia, Nuzillard, Jean-Marc, Oberlies, Nicholas H, Ocampos, Fernanda M M, Pan, Guohui, Quinn, Ronald J, Reddy, D Sai, Renault, Jean-Hugue, Rivera-Chávez, José, Robien, Wolfgang, Saunders, Carla M, Schmidt, Thomas J, Seger, Christoph, Shen, Ben, Steinbeck, Christoph, Stuppner, Hermann, Sturm, Sonja, Taglialatela-Scafati, Orazio, Tantillo, Dean J, Verpoorte, Robert, Wang, Bin-Gui, Williams, Craig M, Williams, Philip G, Wist, Julien, Yue, Jian-Min, Zhang, Chen, Zhengren, Xu, Simmler, Charlotte, Lankin, David C, Bisson, Jonathan, Pauli, Guido F, Thallion Pharmaceuticals Inc., Brunel University London [Uxbridge], Dipartimento di Scienze Chimiche, DIPARTIMENTO DI SCIENZE CHIMICHE, Departamento de Química, Universidade Federal do Paraná (UFPR), Molécules bioactives, conception, isolement et synthèse (MBCIS), Université Paris-Sud - Paris 11 (UP11)-Centre National de la Recherche Scientifique (CNRS), Equipe C-TAC (UMR 8638), Chimie Organique, Médicinale et Extractive et Toxicologie Expérimentale (COMETE - UMR 8638), Université Paris Descartes - Paris 5 (UPD5)-Institut de Chimie du CNRS (INC)-Centre National de la Recherche Scientifique (CNRS)-Université Paris Descartes - Paris 5 (UPD5)-Institut de Chimie du CNRS (INC)-Centre National de la Recherche Scientifique (CNRS), Université Sorbonne Paris Cité (USPC), University of Tübingen, University of New South Wales [Sydney] (UNSW), Department of organic Chemistry - University of Geneva, University of Geneva [Switzerland], Department of Chemistry and Biochemistry, University of California, University of California [Santa Cruz] (UCSC), University of California-University of California, Center for Marine Biotechnology and Biomedicine, University of California, Institut de Chimie Moléculaire de Reims - UMR 7312 (ICMR), SFR Condorcet, Université de Reims Champagne-Ardenne (URCA)-Université de Picardie Jules Verne (UPJV)-Centre National de la Recherche Scientifique (CNRS)-Université de Reims Champagne-Ardenne (URCA)-Université de Picardie Jules Verne (UPJV)-Centre National de la Recherche Scientifique (CNRS)-SFR CAP Santé (Champagne-Ardenne Picardie Santé), Université de Reims Champagne-Ardenne (URCA)-Université de Picardie Jules Verne (UPJV)-Université de Reims Champagne-Ardenne (URCA)-Université de Picardie Jules Verne (UPJV)-Université de Reims Champagne-Ardenne (URCA)-Institut de Chimie du CNRS (INC)-Centre National de la Recherche Scientifique (CNRS), Chinese Academy of Sciences [Beijing] (CAS), University of Münster, European Bioinformatics Institute [Hinxton] (EMBL-EBI), EMBL Heidelberg, University of Innsbruck, Section Metabolomics (DIVISION OF PHARMACOGNOSY), Universiteit Leiden [Leiden]-Institute of Biology, Institut National de l'Environnement Industriel et des Risques (INERIS), Université Paris Descartes - Paris 5 (UPD5)-Centre National de la Recherche Scientifique (CNRS)-Université Paris Descartes - Paris 5 (UPD5)-Centre National de la Recherche Scientifique (CNRS), and Université de Reims Champagne-Ardenne (URCA)-Université de Picardie Jules Verne (UPJV)-Université de Reims Champagne-Ardenne (URCA)-Université de Picardie Jules Verne (UPJV)-Université de Reims Champagne-Ardenne (URCA)-Centre National de la Recherche Scientifique (CNRS)

Subjects
NMR, Natural Products, Raw Data, Reproducibility, Value (ethics), Magnetic Resonance Spectroscopy, Molecular Conformation, [CHIM.INOR]Chemical Sciences/Inorganic chemistry, 010402 general chemistry, Medical and Health Sciences, 01 natural sciences, Biochemistry, Article, [CHIM.ANAL]Chemical Sciences/Analytical chemistry, Component (UML), Drug Discovery, Dissemination, Biological Products, Biological studies, 010405 organic chemistry, Organic Chemistry, Reproducibility of Results, Biological Sciences, Transparency (behavior), Data science, Nmr data, 0104 chemical sciences, Chemical Sciences, ddc:540, Generic health relevance, Natural Product Research, Raw data, [CHIM.CHEM]Chemical Sciences/Cheminformatics
Abstract

International audience; With contributions from the global natural product (NP) research community, and continuing the Raw Data Initiative, this review collects a comprehensive demonstration of the immense scientific value of disseminating raw nuclear magnetic resonance (NMR) data, independently of, and in parallel with, classical publishing outlets. A comprehensive compilation of historic to present-day cases as well as contemporary and future applications show that addressing the urgent need for a repository of publicly accessible raw NMR data has the potential to transform natural products (NPs) and associated fields of chemical and biomedical research. The call for advancing open sharing mechanisms for raw data is intended to enhance the transparency of experimental protocols, augment the reproducibility of reported outcomes, including biological studies, become a regular component of responsible research, and thereby enrich the integrity of NP research and related fields.

Published
2019

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