Computer‐aided Dereplication and Structure Elucidation of Natural Products at the University of Reims

Natural product chemistry began in Reims, France, in a pharmacognosy research laboratory whose main emphasis was the isolation and identification of bioactive molecules, following the guidelines of chemotaxonomy. The structure elucidation of new compounds of steadily increasing complexity favored the emergence of methodological work in nuclear magnetic resonance. As a result, our group was the first to report the use of proton‐detected heteronuclear chemical shift correlation spectra for the computer‐assisted structure elucidation of small organic molecules driven by atom proximity relationships and without relying on databases. The early detection of known compounds appeared as a necessity in order to deal more efficiently with complex plant extracts. This goal was reached by an original combination of mixture fractionation by centrifugal partition chromatography, analysis by 13C NMR, digital data reduction and alignment, hierarchical data clustering, and computer database search.

[1]  Christoph Steinbeck,et al.  NMRShiftDB -- compound identification and structure elucidation support through a free community-built web database. , 2004, Phytochemistry.

[2]  Jean-Marc Nuzillard,et al.  Identification of natural metabolites in mixture: a pattern recognition strategy based on (13)C NMR. , 2014, Analytical chemistry.

[3]  Jean-Marc Nuzillard,et al.  Dereplication of depsides from the lichen Pseudevernia furfuracea by centrifugal partition chromatography combined to 13C nuclear magnetic resonance pattern recognition. , 2014, Analytica chimica acta.

[4]  L. Mueller Sensitivity enhanced detection of weak nuclei using heteronuclear multiple quantum coherence , 1979 .

[5]  J. Nuzillard,et al.  Bio-Guided Isolation of Methanol-Soluble Metabolites of Common Spruce (Picea abies) Bark by-Products and Investigation of Their Dermo-Cosmetic Properties , 2016, Molecules.

[6]  J. Nuzillard,et al.  Computer-assisted structural elucidation. Alkaloids with a novel diaza-adamantane skeleton from the seeds of Acosmium panamense (Fabaceae) , 1999 .

[7]  Antony J. Williams,et al.  Contemporary Computer-Assisted Approaches to Molecular Structure Elucidation , 2011 .

[8]  Denise L. G. Fromanteau,et al.  A Constraints Generator in Structural Determination by Microcomputer , 1993, Comput. Chem..

[9]  J. Nuzillard,et al.  Delevoyin C, a tetranortriterpenoid from Entandrophragma delevoyi. , 2000, Phytochemistry.

[10]  E. M. Mutambi,et al.  Cembranolides from the stem bark of the southern African medicinal plant, Croton gratissimus (Euphorbiaceae). , 2010, Phytochemistry.

[11]  J. Nuzillard,et al.  Limonoid derivatives from Astrotrichilia voamatata. , 2000, Phytochemistry.

[12]  J. Nuzillard,et al.  The structural elucidation of a novel iridoid derivative from Tachiadenus longiflorus (Gentianaceae) using the LSD programme and quantum chemical computations. , 2006, Phytochemical analysis : PCA.

[13]  Computer-aided spectral assignment in nuclear magnetic resonance spectroscopy , 1991 .

[14]  Jean-Marc Nuzillard,et al.  Spectral aliasing: a super zoom for 2D-NMR spectra. Principles and applications. , 2010, Chimia.

[15]  M. Steppe,et al.  Essential oils from Piper cernuum and Piper regnellii: antimicrobial activities and analysis by GC/MS and 13C-NMR. , 2001, Planta medica.

[16]  Kimito Funatsu,et al.  Introduction of two-dimensional NMR spectral information to an automated structure elucidation system, CHEMICS. Utilization of 2D-INADEQUATE information , 1989, J. Chem. Inf. Comput. Sci..

[17]  R. Freeman,et al.  Structure of a photodimer determined by natural-abundance 13C-13C coupling , 1982 .

[18]  Antony J. Williams,et al.  Computer-assisted structure verification and elucidation tools in NMR-based structure elucidation , 2008 .

[19]  Bertrand Plainchont,et al.  Recent advances in the structure elucidation of small organic molecules by the LSD software , 2013, Magnetic resonance in chemistry : MRC.

[20]  C. Steinbeck,et al.  Recent developments of the chemistry development kit (CDK) - an open-source java library for chemo- and bioinformatics. , 2006, Current pharmaceutical design.

[21]  Mara B. Costantin,et al.  Computer-aided method for identification of components in essential oils by 13C NMR spectroscopy , 2001 .

[22]  Shuyan Xu,et al.  From Plasma Sources to Nanoassembly WILEY-VCH Verlag GmbH & Co. KGaA , 2013 .

[23]  N. Nyberg,et al.  Heteronuclear two-bond correlation: suppressing heteronuclear three-bond or higher NMR correlations while enhancing two-bond correlations even for vanishing 2J(CH). , 2005, Journal of the American Chemical Society.

[24]  Mara B. Costantin,et al.  Computer-aided Structure Elucidation of Neolignans , 2010, Natural product communications.

[25]  Ralph E. Hurd,et al.  Gradient-enhanced proton-detected heteronuclear multiple-quantum coherence spectroscopy , 1991 .

[26]  J. Nuzillard,et al.  Exploiting the Complementarity between Dereplication and Computer-Assisted Structure Elucidation for the Chemical Profiling of Natural Cosmetic Ingredients: Tephrosia purpurea as a Case Study. , 2015, Journal of natural products.

[27]  Jesús Martín,et al.  Combined LC/UV/MS and NMR Strategies for the Dereplication of Marine Natural Products , 2016, Planta Medica.

[28]  D. Jeannerat Human‐ and computer‐accessible 2D correlation data for a more reliable structure determination of organic compounds. Future roles of researchers, software developers, spectrometer managers, journal editors, reviewers, publisher and database managers toward artificial‐intelligence analysis of NMR spe , 2017, Magnetic resonance in chemistry : MRC.

[29]  V. Orekhov,et al.  Non‐uniform sampling: post‐Fourier era of NMR data collection and processing , 2015, Magnetic resonance in chemistry : MRC.

[30]  J. Nuzillard,et al.  13C NMR and LC-MS Profiling of Stilbenes from Elicited Grapevine Hairy Root Cultures. , 2016, Journal of natural products.

[31]  G. Massiot,et al.  Identification and sequencing of sugars in saponins using 2D 1H N.M.R. spectroscopy , 1986 .

[32]  M. Munk,et al.  The application of two-dimensional nuclear magnetic resonance spectroscopy in computer-assisted structure elucidation , 1987 .

[33]  J. Nuzillard,et al.  Fast Identification of Radical Scavengers from Securigera varia by Combining 13C-NMR-Based Dereplication to Bioactivity-Guided Fractionation , 2015, Molecules.

[34]  J. Nuzillard,et al.  Logic for structure determination , 1991 .

[35]  J. Nuzillard,et al.  Novel seco-dibenzopyrrocoline alkaloid from Cryptocarya oubatchensis. , 2006, Organic letters.

[36]  T Scior,et al.  Reverse pharmacognosy: another way to harness the generosity of nature. , 2010, Current pharmaceutical design.

[37]  M. Jaspars Computer assisted structure elucidation of natural products using two-dimensional NMR spectroscopy† , 1999 .

[38]  J. Nuzillard,et al.  “Connectivist” approach to organic structure determination Lsd-program assisted Nmr analysis of the insect antifeedant Azadirachtin , 1994 .

[39]  Jean-Marc Nuzillard,et al.  Quick Method for Anti-Bredt Structure Detection , 1994, J. Chem. Inf. Comput. Sci..

[40]  Chris Morley,et al.  Open Babel: An open chemical toolbox , 2011, J. Cheminformatics.

[41]  J. Nuzillard,et al.  Synthesis of new 3-(1-ethylsulfanyl-2-perfluoroalkyl)-5-hydroxy-5-methyl (or 5-phenyl)-1,5-dihydro-pyrrol-2-ones starting from gamma-keto thioesters and amines , 2004 .

[42]  J. Nuzillard,et al.  Structure verification through computer‐assisted spectral assignment of NMR spectra , 2013, Magnetic resonance in chemistry : MRC.

[43]  C. Steinbeck Recent developments in automated structure elucidation of natural products. , 2004, Natural product reports.

[44]  Jean-Marc Nuzillard,et al.  Automatic Structure Determination of Organic Molecules: Principle and Implementation of the LSD Program , 2010 .

[45]  Jean-Marc Nuzillard,et al.  New Improvements in Automatic Structure Elucidation Using the LSD (Logic for Structure Determination) and the SISTEMAT Expert Systems , 2010, Natural product communications.