Publications

The laboratories involved in the DYNAMO programme have produced over 400 publications since 2012, with 20% in high-impact journals (Impact Factor > 11) and a dozen patents and licences. For the 80 publications woth an impact factor > 11, over 60% resulted from international collaborations with over 100 international laboratories (>50 from Europe) including some prestigious institutions like the University of Chicago (USA), University of Cambridge (UK), the Max Plack Institute and the Ludwig Maximilians University Munich (Germany), the National Cancer Institute, NIH (USA), the Icahn School of Medicine at Mount Sinai, New York (USA), the University of Liège (Belgium), Okayama University (Japan), the University of Wisconsin-Madison (USA), the University of British Columbia in Vancouver (Canada)

2021

Abdelkrim, Yosser Zina, Josette Banroques, and N. Kyle Tanner. 2021. “Known Inhibitors of RNA Helicases and Their Therapeutic Potential.” Methods in Molecular Biology (Clifton, N.J.) 2209: 35–52. https://doi.org/10.1007/978-1-0716-0935-4_3.
Boudry, Pierre, Emma Piattelli, Emilie Drouineau, Johann Peltier, Anaïs Boutserin, Maxence Lejars, Eliane Hajnsdorf, et al. 2021. “Identification of RNAs Bound by Hfq Reveals Widespread RNA Partners and a Sporulation Regulator in the Human Pathogen Clostridioides Difficile.” RNA Biology, February, 1–22. https://doi.org/10.1080/15476286.2021.1882180.
BOURASSIN, Nicolas, Florent Barbault, Marc Baaden, and Sophie Sacquin-Mora. 2021. “Between Two Walls: Modeling the Adsorption Behavior of β-Glucosidase A on Bare and SAM-Functionalised Gold Surfaces.” https://doi.org/10.1101/2021.07.02.450859.
Boyer, Benjamin, Benoist Laurent, Charles H. Robert, and Chantal Prévost. 2021. “Modeling Perturbations in Protein Filaments at the Micro and Meso Scale Using NAMD and PTools/Heligeom.” Bio-Protocol 11 (14): e4097. https://doi.org/10.21769/BioProtoc.4097.
Danilowicz, Claudia, Evan Vietorisz, Veronica Godoy-Carter, Chantal Prévost, and Mara Prentiss. 2021. “Influences of SsDNA-RecA Filament Length on the Fidelity of Homologous Recombination.” Journal of Molecular Biology 433 (18): 167143. https://doi.org/10.1016/j.jmb.2021.167143.
Duboué-Dijon, E., and J. Hénin. 2021. “Building Intuition for Binding Free Energy Calculations: Bound State Definition, Restraints, and Symmetry.” The Journal of Chemical Physics 154 (20): 204101. https://doi.org/10.1063/5.0046853.
Durand, Sylvain, and Maude Guillier. 2021. “Transcriptional and Post-Transcriptional Control of the Nitrate Respiration in Bacteria.” Frontiers in Molecular Biosciences 8: 667758. https://doi.org/10.3389/fmolb.2021.667758.
Faivre, Bruno, Murielle Lombard, Soufyan Fakroun, Chau-Duy-Tam Vo, Catherine Goyenvalle, Vincent Guérineau, Ludovic Pecqueur, et al. 2021. “Dihydrouridine Synthesis in TRNAs Is under Reductive Evolution in Mollicutes.” RNA Biology, March, 1–12. https://doi.org/10.1080/15476286.2021.1899653.
Fostier, Corentin R., Laura Monlezun, Farès Ousalem, Shikha Singh, John F. Hunt, and Grégory Boël. 2021. “ABC-F Translation Factors: From Antibiotic Resistance to Immune Response.” FEBS Letters 595 (6): 675–706. https://doi.org/10.1002/1873-3468.13984.
Gato, Alexandre, Marjorie Catala, Carine Tisné, and Pierre Barraud. 2021. “A Method to Monitor the Introduction of Posttranscriptional Modifications in TRNAs with NMR Spectroscopy.” Methods in Molecular Biology (Clifton, N.J.) 2298: 307–23. https://doi.org/10.1007/978-1-0716-1374-0_19.
Gilet, Laetitia, Olivier Pellegrini, Aude Trinquier, Anastasia Tolcan, Delphine Allouche, Frédérique Braun, Sylvain Durand, and Ciarán Condon. 2021. “Analysis of Bacillus Subtilis Ribonuclease Activity In Vivo.” Methods in Molecular Biology (Clifton, N.J.) 2209: 387–401. https://doi.org/10.1007/978-1-0716-0935-4_24.
Hardiagon, Arthur, Samuel Murail, Li-Bo Huang, Arie van der Lee, Fabio Sterpone, Mihail Barboiu, and Marc Baaden. 2021. “Molecular Dynamics Simulations Reveal Statistics and Microscopic Mechanisms of Water Permeation in Membrane-Embedded Artificial Water Channel Nanoconstructs.” The Journal of Chemical Physics 154 (18): 184102. https://doi.org/10.1063/5.0044360.
Hardiagon, Arthur, Samuel Murail, Li-Bo Huang, Arie van der Lee, Fabio Sterpone, Mihail Barboiu, and Marc Baaden. 2021. “Molecular Dynamics Simulations Reveal Statistics and Microscopic Mechanisms of Water Permeation in Membrane-Embedded Artificial Water Channel Nanoconstructs.” The Journal of Chemical Physics 154 (18): 184102. https://doi.org/10.1063/5.0044360.
Huang, Li-Bo, Arthur Hardiagon, Istvan Kocsis, Cristina-Alexandra Jegu, Mihai Deleanu, Arnaud Gilles, Arie van der Lee, Fabio Sterpone, Marc Baaden, and Mihail Barboiu. 2021. “Hydroxy Channels–Adaptive Pathways for Selective Water Cluster Permeation.” Journal of the American Chemical Society 143 (11): 4224–33. https://doi.org/10.1021/jacs.0c11952.
Huang, Li-Bo, Arthur Hardiagon, Istvan Kocsis, Cristina-Alexandra Jegu, Mihai Deleanu, Arnaud Gilles, Arie van der Lee, Fabio Sterpone, Marc Baaden, and Mihail Barboiu. 2021. “Hydroxy Channels–Adaptive Pathways for Selective Water Cluster Permeation.” Journal of the American Chemical Society 143 (11): 4224–33. https://doi.org/10.1021/jacs.0c11952.
Iorio, Antonio, Jennifer Roche, Sylvain Engilberge, Nicolas Coquelle, Eric Girard, Fabio Sterpone, and Dominique Madern. 2021. “Biochemical, Structural and Dynamical Studies Reveal Strong Differences in the Thermal-Dependent Allosteric Behavior of Two Extremophilic Lactate Dehydrogenases.” Journal of Structural Biology 213 (3): 107769. https://doi.org/10.1016/j.jsb.2021.107769.
Laalami, Soumaya, Marina Cavaiuolo, Sylvain Roque, Carine Chagneau, and Harald Putzer. 2021. “Escherichia Coli RNase E Can Efficiently Replace RNase Y in Bacillus Subtilis.” Nucleic Acids Research 49 (8): 4643–54. https://doi.org/10.1093/nar/gkab216.
Makamte, Staëlle, Amira Jabrani, Annick Paquelin, Anne Plessis, Mathieu Sanial, Aurélien Thureau, Olga Rudenko, Francesco Oteri, Marc Baaden, and Valérie Biou. 2021. “A Large Disordered Region Confers a Wide Spanning Volume to Vertebrate Suppressor of Fused as Shown in a Trans-Species Solution Study.” https://doi.org/10.1101/2021.06.14.447554.
Mboukou, Allegra, Vinod Rajendra, Renata Kleinova, Carine Tisné, Michael F. Jantsch, and Pierre Barraud. 2021. “Transportin-1: A Nuclear Import Receptor with Moonlighting Functions.” Frontiers in Molecular Biosciences 8: 638149. https://doi.org/10.3389/fmolb.2021.638149.
Mokdadi, Molka, Yosser Zina Abdelkrim, Josette Banroques, Emmeline Huvelle, Rafeh Oualha, Hilal Yeter-Alat, Ikram Guizani, Mourad Barhoumi, and N. Kyle Tanner. 2021. “The In Silico Identification of Potential Members of the Ded1/DDX3 Subfamily of DEAD-Box RNA Helicases from the Protozoan Parasite Leishmania Infantum and Their Analyses in Yeast.” Genes 12 (2): 212. https://doi.org/10.3390/genes12020212.
Nguyen, Phuong H., Ayyalusamy Ramamoorthy, Bikash R. Sahoo, Jie Zheng, Peter Faller, John E. Straub, Laura Dominguez, et al. 2021. “Amyloid Oligomers: A Joint Experimental/Computational Perspective on Alzheimer’s Disease, Parkinson’s Disease, Type II Diabetes, and Amyotrophic Lateral Sclerosis.” Chemical Reviews 121 (4): 2545–2647. https://doi.org/10.1021/acs.chemrev.0c01122.
Oerum, Stephanie, Marjorie Catala, Maxime Bourguet, Laetitia Gilet, Pierre Barraud, Sarah Cianférani, Ciarán Condon, and Carine Tisné. 2021. “Structural Studies of RNase M5 Reveal Two-Metal-Ion Supported Two-Step DsRNA Cleavage for 5S RRNA Maturation.” RNA Biology, February, 1–11. https://doi.org/10.1080/15476286.2021.1885896.
Oerum, Stephanie, Vincent Meynier, Marjorie Catala, and Carine Tisné. 2021. “A Comprehensive Review of M6A/M6Am RNA Methyltransferase Structures.” Nucleic Acids Research 49 (13): 7239–55. https://doi.org/10.1093/nar/gkab378.
Pellegrini, Olivier, Laetitia Gilet, Aude Trinquier, Anastasia Tolcan, Delphine Allouche, Sylvain Durand, Frédérique Braun, and Ciarán Condon. 2021. “Assay of Bacillus Subtilis Ribonuclease Activity In Vitro.” Methods in Molecular Biology (Clifton, N.J.) 2209: 403–24. https://doi.org/10.1007/978-1-0716-0935-4_25.
Sayegh, Adnan, Luca A. Perego, Marc Arderiu Romero, Louis Escudero, Jérôme Delacotte, Manon Guille-Collignon, Laurence Grimaud, Benjamin Bailleul, and Frédéric Lemaître. 2021. “Finding Adapted Quinones for Harvesting Electrons from Photosynthetic Algae Suspensions.” ChemElectroChem 8 (15): 2968–78. https://doi.org/10.1002/celc.202100757.
Timr, Stepan, and Fabio Sterpone. 2021. “Stabilizing or Destabilizing: Simulations of Chymotrypsin Inhibitor 2 under Crowding Reveal Existence of a Crossover Temperature.” The Journal of Physical Chemistry Letters 12 (6): 1741–46. https://doi.org/10.1021/acs.jpclett.0c03626.
Wu, Xiaojing, Jérôme Hénin, Laura Baciou, Marc Baaden, Fabien Cailliez, and Aurélien de la Lande. 2021. “Mechanistic Insights on Heme-to-Heme Transmembrane Electron Transfer Within NADPH Oxydases From Atomistic Simulations.” Frontiers in Chemistry 9: 650651. https://doi.org/10.3389/fchem.2021.650651.
Yoluç, Yasemin, Gregor Ammann, Pierre Barraud, Manasses Jora, Patrick A. Limbach, Yuri Motorin, Virginie Marchand, Carine Tisné, Kayla Borland, and Stefanie Kellner. 2021. “Instrumental Analysis of RNA Modifications.” Critical Reviews in Biochemistry and Molecular Biology 56 (2): 178–204. https://doi.org/10.1080/10409238.2021.1887807.
Zhou, Jingjing, Marine Lénon, Jean-Luc Ravanat, Nadia Touati, Christophe Velours, Karolina Podskoczyj, Grazyna Leszczynska, Marc Fontecave, Frédéric Barras, and Béatrice Golinelli-Pimpaneau. 2021. “Iron–Sulfur Biology Invades TRNA Modification: The Case of U34 Sulfuration.” Nucleic Acids Research 49 (7): 3997–4007. https://doi.org/10.1093/nar/gkab138.

2020

Alsayyah, Cynthia, Oznur Ozturk, Laetitia Cavellini, Naïma Belgareh-Touzé, and Mickael M. Cohen. 2020. “The Regulation of Mitochondrial Homeostasis by the Ubiquitin Proteasome System.” Biochimica et Biophysica Acta (BBA) – Bioenergetics 1861 (12): 148302. https://doi.org/10.1016/j.bbabio.2020.148302.
Beauzamy, Léna, Jérôme Delacotte, Benjamin Bailleul, Kenya Tanaka, Shuji Nakanishi, Francis-André Wollman, and Frédéric Lemaître. 2020. “Mediator-Microorganism Interaction in Microbial Solar Cell: A Fluo-Electrochemical Insight.” Analytical Chemistry 92 (11): 7532–39. https://doi.org/10.1021/acs.analchem.9b05808.
Beauzamy, Léna, Frédéric Lemaître, and Julien Derr. 2020. “Underlying Mechanisms in Microbial Solar Cells: How Modeling Can Help.” Sustainable Energy & Fuels 4 (12): 6004–10. https://doi.org/10.1039/D0SE01304H.
Bimai, Ornella, Simon Arragain, and Béatrice Golinelli-Pimpaneau. 2020. “Structure-Based Mechanistic Insights into Catalysis by TRNA Thiolation Enzymes.” Current Opinion in Structural Biology 65 (December): 69–78. https://doi.org/10.1016/j.sbi.2020.06.002.
Bujaldon, Sandrine, Natsumi Kodama, Mithun Kumar Rathod, Nicolas Tourasse, Shin-Ichiro Ozawa, Julien Sellés, Olivier Vallon, Yuichiro Takahashi, and Francis-André Wollman. 2020. “The BF4 and P71 Antenna Mutants from Chlamydomonas Reinhardtii.” Biochimica Et Biophysica Acta. Bioenergetics 1861 (4): 148085. https://doi.org/10.1016/j.bbabio.2019.148085.
Cai, Yiming, Ben Usher, Claude Gutierrez, Anastasia Tolcan, Moise Mansour, Peter C. Fineran, Ciarán Condon, Olivier Neyrolles, Pierre Genevaux, and Tim R. Blower. 2020. “A Nucleotidyltransferase Toxin Inhibits Growth of Mycobacterium Tuberculosis through Inactivation of TRNA Acceptor Stems.” Science Advances 6 (31): eabb6651. https://doi.org/10.1126/sciadv.abb6651.
Cai, Yiming, Ben Usher, Claude Gutierrez, Anastasia Tolcan, Moise Mansour, Peter C. Fineran, Ciarán Condon, Olivier Neyrolles, Pierre Genevaux, and Tim R. Blower. 2020. “A Nucleotidyltransferase Toxin Inhibits Growth of Mycobacterium Tuberculosis through Inactivation of TRNA Acceptor Stems.” Science Advances 6 (31): eabb6651. https://doi.org/10.1126/sciadv.abb6651.
Carpentier, Philippe, Chloé Leprêtre, Christian Basset, Thierry Douki, Stéphane Torelli, Victor Duarte, Djemel Hamdane, Marc Fontecave, and Mohamed Atta. 2020. “Structural, Biochemical and Functional Analyses of TRNA-Monooxygenase Enzyme MiaE from Pseudomonas Putida Provide Insights into TRNA/MiaE Interaction.” Nucleic Acids Research 48 (17): 9918–30. https://doi.org/10.1093/nar/gkaa667.
Carpentier, Philippe, Chloé Leprêtre, Christian Basset, Thierry Douki, Stéphane Torelli, Victor Duarte, Djemel Hamdane, Marc Fontecave, and Mohamed Atta. 2020. “Structural, Biochemical and Functional Analyses of TRNA-Monooxygenase Enzyme MiaE from Pseudomonas Putida Provide Insights into TRNA/MiaE Interaction.” Nucleic Acids Research 48 (17): 9918–30. https://doi.org/10.1093/nar/gkaa667.
Caspari, Oliver D. 2020. “Introduction of a Leaky Stop Codon as Molecular Tool in Chlamydomonas Reinhardtii.” PLOS ONE 15 (8): e0237405. https://doi.org/10.1371/journal.pone.0237405.
Catala, Marjorie, Alexandre Gato, Carine Tisné, and Pierre Barraud. 2020. “1H, 15N Chemical Shift Assignments of the Imino Groups of Yeast TRNAPhe: Influence of the Post-Transcriptional Modifications.” Biomolecular NMR Assignments, April. https://doi.org/10.1007/s12104-020-09939-6.
Catala, M., A. Gato, C. Tisné, and P. Barraud. 2020. “Yeast TRNAPhe Samples Preparation for NMR Spectroscopy.” Bio-Protocol In Press.
Catala, Marjorie, Alexandre Gato, Carine Tisné, and Pierre Barraud. 2020. “Preparation of Yeast TRNA Sample for NMR Spectroscopy.” Bio-Protocol 10 (12): e3646. https://doi.org/10.21769/BioProtoc.3646.
Catala, Marjorie, Alexandre Gato, Carine Tisné, and Pierre Barraud. 2020. “1H, 15N Chemical Shift Assignments of the Imino Groups of Yeast TRNAPhe: Influence of the Post-Transcriptional Modifications.” Biomolecular NMR Assignments 14 (2): 169–74. https://doi.org/10.1007/s12104-020-09939-6.
Cavaiuolo, Marina, Carine Chagneau, Soumaya Laalami, and Harald Putzer. 2020. “Impact of RNase E and RNase J on Global MRNA Metabolism in the Cyanobacterium Synechocystis PCC6803.” Frontiers in Microbiology 11. https://doi.org/10.3389/fmicb.2020.01055.
Cavaiuolo, Marina, Carine Chagneau, Soumaya Laalami, and Harald Putzer. 2020. “Impact of RNase E and RNase J on Global MRNA Metabolism in the Cyanobacterium Synechocystis PCC6803.” Frontiers in Microbiology 11: 1055. https://doi.org/10.3389/fmicb.2020.01055.
Carpentier, Félix de, Jeanne Le Peillet, Nicolas D. Boisset, Pierre Crozet, Stéphane D. Lemaire, and Antoine Danon. 2020. “Blasticidin S Deaminase: A New Efficient Selectable Marker for Chlamydomonas Reinhardtii.” Frontiers in Plant Science 11. https://doi.org/10.3389/fpls.2020.00242.
Derreumaux, Philippe, Viet Hoang Man, Junmei Wang, and Phuong H. Nguyen. 2020. “Tau R3–R4 Domain Dimer of the Wild Type and Phosphorylated Ser356 Sequences. I. In Solution by Atomistic Simulations.” The Journal of Physical Chemistry B 124 (15): 2975–83. https://doi.org/10.1021/acs.jpcb.0c00574.
Dezaire, Ambre, Christophe H. Marchand, Marine Vallet, Nathalie Ferrand, Soraya Chaouch, Elisabeth Mouray, Annette K. Larsen, et al. 2020. “Secondary Metabolites from the Culture of the Marine-Derived Fungus Paradendryphiella Salina PC 362H and Evaluation of the Anticancer Activity of Its Metabolite Hyalodendrin.” Marine Drugs 18 (4): 191. https://doi.org/10.3390/md18040191.
Duboué-Dijon, E., M. Javanainen, P. Delcroix, P. Jungwirth, and H. Martinez-Seara. 2020. “A Practical Guide to Biologically Relevant Molecular Simulations with Charge Scaling for Electronic Polarization.” The Journal of Chemical Physics 153 (5): 050901. https://doi.org/10.1063/5.0017775.
Exner, Thomas E., Stefanie Becker, Simon Becker, Audrey Boniface-Guiraud, Philippe Delepelaire, Kay Diederichs, and Wolfram Welte. 2020. “Binding of HasA by Its Transmembrane Receptor HasR Follows a Conformational Funnel Mechanism.” European Biophysics Journal: EBJ 49 (1): 39–57. https://doi.org/10.1007/s00249-019-01411-1.
Falciatore, Angela, Marianne Jaubert, Jean-Pierre Bouly, Benjamin Bailleul, and Thomas Mock. 2020. “Diatom Molecular Research Comes of Age: Model Species for Studying Phytoplankton Biology and Diversity.” The Plant Cell 32 (3): 547–72. https://doi.org/10.1105/tpc.19.00158.
Garrido, Clotilde, Oliver D. Caspari, Yves Choquet, Francis-André Wollman, and Ingrid Lafontaine. 2020. “Evidence Supporting an Antimicrobial Origin of Targeting Peptides to Endosymbiotic Organelles.” Cells 9 (8): 1795. https://doi.org/10.3390/cells9081795.
Gilet, Jules, Romain Conte, Claire Torchet, Lionel Benard, and Ingrid Lafontaine. 2020. “Additional Layer of Regulation via Convergent Gene Orientation in Yeasts.” Molecular Biology and Evolution 37 (2): 365–78. https://doi.org/10.1093/molbev/msz221.
Giusti, Fabrice, Marina Casiraghi, Elodie Point, Marjorie Damian, Jutta Rieger, Christel Le Bon, Alexandre Pozza, Karine Moncoq, Jean-Louis Banères, and Laurent J. Catoire. 2020. “Structure of the Agonist 12–HHT in Its BLT2 Receptor-Bound State.” Scientific Reports 10 (1): 1–13. https://doi.org/10.1038/s41598-020-59571-6.
Hamouche, Lina, Cyrille Billaudeau, Anna Rocca, Arnaud Chastanet, Saravuth Ngo, Soumaya Laalami, and Harald Putzer. 2020. “Dynamic Membrane Localization of RNase Y in Bacillus Subtilis.” MBio 11 (1). https://doi.org/10.1128/mBio.03337-19.
Hamouche, Lina, Cyrille Billaudeau, Anna Rocca, Arnaud Chastanet, Saravuth Ngo, Soumaya Laalami, and Harald Putzer. 2020. “Dynamic Membrane Localization of RNase Y in Bacillus Subtilis.” MBio 11 (1): e03337-19. https://doi.org/10.1128/mBio.03337-19.
Henninger, Erin, and Maria T Teixeira. 2020. “Telomere-Driven Mutational Processes in Yeast.” Current Opinion in Genetics & Development, Cancer Genomics, 60 (February): 99–106. https://doi.org/10.1016/j.gde.2020.02.018.
Ignatov, Dmitriy, Karolis Vaitkevicius, Sylvain Durand, Laty Cahoon, Stefanie S. Sandberg, Xijia Liu, Birgitte H. Kallipolitis, et al. 2020. “An MRNA-MRNA Interaction Couples Expression of a Virulence Factor and Its Chaperone in Listeria Monocytogenes.” Cell Reports 30 (12): 4027-4040.e7. https://doi.org/10.1016/j.celrep.2020.03.006.
Ignatov, Dmitriy, Karolis Vaitkevicius, Sylvain Durand, Laty Cahoon, Stefanie S. Sandberg, Xijia Liu, Birgitte H. Kallipolitis, et al. 2020. “An MRNA-MRNA Interaction Couples Expression of a Virulence Factor and Its Chaperone in Listeria Monocytogenes.” Cell Reports 30 (12): 4027-4040.e7. https://doi.org/10.1016/j.celrep.2020.03.006.
Katava, M., M. Marchi, D. Madern, M. Sztucki, M. Maccarini, and F. Sterpone. 2020. “Temperature Unmasks Allosteric Propensity in a Thermophilic Malate Dehydrogenase via Dewetting and Collapse.” The Journal of Physical Chemistry B 124 (6): 1001–8. https://doi.org/10.1021/acs.jpcb.9b10776.
Kawasaki, Takayasu, Viet Hoang Man, Yasunobu Sugimoto, Nobuyuki Sugiyama, Hiroko Yamamoto, Koichi Tsukiyama, Junmei Wang, Philippe Derreumaux, and Phuong H. Nguyen. 2020. “Infrared Laser-Induced Amyloid Fibril Dissociation: A Joint Experimental/Theoretical Study on the GNNQQNY Peptide.” The Journal of Physical Chemistry B 124 (29): 6266–77. https://doi.org/10.1021/acs.jpcb.0c05385.
Lacoux, Caroline, Ludivine Wacheul, Kritika Saraf, Nicolas Pythoud, Emmeline Huvelle, Sabine Figaro, Marc Graille, Christine Carapito, Denis L. J. Lafontaine, and Valérie Heurgué-Hamard. 2020. “The Catalytic Activity of the Translation Termination Factor Methyltransferase Mtq2-Trm112 Complex Is Required for Large Ribosomal Subunit Biogenesis.” Nucleic Acids Research 48 (21): 12310–25. https://doi.org/10.1093/nar/gkaa972.
Laureanti, Joseph, Juan Brandi, Elvis Offor, David Engel, Robert Rallo, Bojana Ginovska, Xavier Martinez, Marc Baaden, and Nathan A. Baker. 2020. “Visualizing Biomolecular Electrostatics in Virtual Reality with UnityMol-APBS.” Protein Science: A Publication of the Protein Society 29 (1): 237–46. https://doi.org/10.1002/pro.3773.
Lejars, Maxence, and Eliane Hajnsdorf. 2020. “The World of AsRNAs in Gram-Negative and Gram-Positive Bacteria.” Biochimica Et Biophysica Acta. Gene Regulatory Mechanisms 1863 (2): 194489. https://doi.org/10.1016/j.bbagrm.2020.194489.
Lejars, Maxence, and Eliane Hajnsdorf. 2020. “The World of AsRNAs in Gram-Negative and Gram-Positive Bacteria.” Biochimica Et Biophysica Acta. Gene Regulatory Mechanisms 1863 (2): 194489. https://doi.org/10.1016/j.bbagrm.2020.194489.
Marconnet, Anaïs, Baptiste Michon, Christel Le Bon, Fabrice Giusti, Christophe Tribet, and Manuela Zoonens. 2020. “Solubilization and Stabilization of Membrane Proteins by Cycloalkane-Modified Amphiphilic Polymers.” Biomacromolecules, June. https://doi.org/10.1021/acs.biomac.0c00929.
Martinez, Xavier, Matthieu Chavent, and Marc Baaden. 2020. “Visualizing Protein Structures — Tools and Trends.” Biochemical Society Transactions 48 (2): 499–506. https://doi.org/10.1042/BST20190621.
Martinez, Xavier, Arthur Hardiagon, Hubert Santuz, Samuel Murail, Mihail Barboiu, Fabio Sterpone, and Marc Baaden. 2020. “Using Computer Simulations and Virtual Reality to Understand, Design and Optimize Artificial Water Channels.” In Lecture Notes in Bioengineering / Advances in Bionanomaterials IISelected Papers from the 3rd International Conference on Bio and Nanomaterials, BIONAM 2019, September 29 – October 3, 2019, 78–99. https://doi.org/10.1007/978-3-030-47705-9_8.
Martinez, Xavier, Matthieu Chavent, and Marc Baaden. 2020. “Visualizing Protein Structures — Tools and Trends.” Biochemical Society Transactions 48 (2): 499–506. https://doi.org/10.1042/BST20190621.
Martins, Laura, Johannes Knuesting, Laetitia Bariat, Avilien Dard, Sven A. Freibert, Christophe Marchand, David Young, et al. 2020. “Redox Modification of the Fe-S Glutaredoxin GRXS17 Activates Holdase Activity and Protects Plants from Heat Stress.” Plant Physiology, January. https://doi.org/10.1104/pp.20.00906.
Migliore, Mattia, Andrea Bonvicini, Vincent Tognetti, Laure Guilhaudis, Marc Baaden, Hassan Oulyadi, Laurent Joubert, and Isabelle Ségalas-Milazzo. 2020. “Characterization of β-Turns by Electronic Circular Dichroism Spectroscopy: A Coupled Molecular Dynamics and Time-Dependent Density Functional Theory Computational Study.” Physical Chemistry Chemical Physics 22 (3): 1611–23. https://doi.org/10.1039/C9CP05776E.
Navickas, Albertas, Sébastien Chamois, Rénette Saint-Fort, Julien Henri, Claire Torchet, and Lionel Benard. 2020. “No-Go Decay MRNA Cleavage in the Ribosome Exit Tunnel Produces 5′-OH Ends Phosphorylated by Trl1.” Nature Communications 11 (1): 122. https://doi.org/10.1038/s41467-019-13991-9.
Ngo, Son Tung, Phuong H. Nguyen, and Philippe Derreumaux. 2020. “Impact of A2T and D23N Mutations on Tetrameric Aβ42 Barrel within a Dipalmitoylphosphatidylcholine Lipid Bilayer Membrane by Replica Exchange Molecular Dynamics.” The Journal of Physical Chemistry B 124 (7): 1175–82. https://doi.org/10.1021/acs.jpcb.9b11881.
Nguyen, Phuong H., and Philippe Derreumaux. 2020. “Structures of the Intrinsically Disordered Aβ, Tau and α-Synuclein Proteins in Aqueous Solution from Computer Simulations.” Biophysical Chemistry 264 (September): 106421. https://doi.org/10.1016/j.bpc.2020.106421.
Nguyen, Phuong H., Fabio Sterpone, and Philippe Derreumaux. 2020. “Chapter Nine – Aggregation of Disease-Related Peptides.” In Progress in Molecular Biology and Translational Science, edited by Birgit Strodel and Bogdan Barz, 170:435–60. Computational Approaches for Understanding Dynamical Systems: Protein Folding and Assembly. Academic Press. https://doi.org/10.1016/bs.pmbts.2019.12.002.
Oerum, Stephanie, Tom Dendooven, Marjorie Catala, Laetitia Gilet, Clément Dégut, Aude Trinquier, Maxime Bourguet, et al. 2020. “Structures of B. Subtilis Maturation RNases Captured on 50S Ribosome with Pre-RRNAs.” Molecular Cell 80 (2): 227-236.e5. https://doi.org/10.1016/j.molcel.2020.09.008.
Ozawa, Shin-Ichiro, Marina Cavaiuolo, Domitille Jarrige, Richard Kuras, Mark Rutgers, Stephan Eberhard, Dominique Drapier, Francis-André Wollman, and Yves Choquet. 2020. “The OPR Protein MTHI1 Controls the Expression of Two Different Subunits of ATP Synthase CFo in Chlamydomonas Reinhardtii.” The Plant Cell 32 (4): 1179–1203. https://doi.org/10.1105/tpc.19.00770.
Peltier, Johann, Audrey Hamiot, Julian R. Garneau, Pierre Boudry, Anna Maikova, Louis-Charles Fortier, Bruno Dupuy, and Olga Soutourina. 2020. “Type I Toxin-Antitoxin Systems Contribute to Mobile Genetic Elements Maintenance in Clostridioides Difficile and Can Be Used as a Counter-Selectable Marker for Chromosomal Manipulation.” https://doi.org/10.1101/2020.03.04.976019.
Robescu, Marina Simona, Rudy Rubini, Elisa Beneventi, Michele Tavanti, Chiara Lonigro, Francesca Zito, Francesco Filippini, Laura Cendron, and Elisabetta Bergantino. 2020. “From the Amelioration of a NADP+-Dependent Formate Dehydrogenase to the Discovery of a New Enzyme: Round Trip from Theory to Practice.” ChemCatChem n/a (n/a). https://doi.org/10.1002/cctc.201902089.

2019

Asadi-Atoi, Paria, Pierre Barraud, Carine Tisne, and Stefanie Kellner. 2019. “Benefits of Stable Isotope Labeling in RNA Analysis.” Biological Chemistry 400 (7): 847–65. https://doi.org/10.1515/hsz-2018-0447.
Baaden, Marc. 2019. “Visualizing Biological Membrane Organization and Dynamics.” Journal of Molecular Biology 431 (10): 1889–1919. https://doi.org/10.1016/j.jmb.2019.02.018.
Barraud, Pierre, and Carine Tisné. 2019. “To Be or Not to Be Modified: Miscellaneous Aspects Influencing Nucleotide Modifications in TRNAs.” IUBMB Life 71 (8): 1126–40. https://doi.org/10.1002/iub.2041.
Barraud, Pierre, Alexandre Gato, Matthias Heiss, Marjorie Catala, Stefanie Kellner, and Carine Tisné. 2019. “Time-Resolved NMR Monitoring of TRNA Maturation.” Nature Communications 10 (1): 3373. https://doi.org/10.1038/s41467-019-11356-w.
Barroso da Silva, Fernando Luís, Fabio Sterpone, and Philippe Derreumaux. 2019. “OPEP6: A New Constant-PH Molecular Dynamics Simulation Scheme with OPEP Coarse-Grained Force Field.” Journal of Chemical Theory and Computation 15 (6): 3875–88. https://doi.org/10.1021/acs.jctc.9b00202.
Bou-Nader, Charles, Ludovic Pecqueur, Pierre Barraud, Marc Fontecave, Carine Tisné, Sophie Sacquin-Mora, and Djemel Hamdane. 2019. “Conformational Stability Adaptation of a Double-Stranded RNA-Binding Domain to Transfer RNA Ligand.” Biochemistry 58 (20): 2463–73. https://doi.org/10.1021/acs.biochem.9b00111.
Bou-Nader, Charles, Pierre Barraud, Ludovic Pecqueur, Javier Pérez, Christophe Velours, William Shepard, Marc Fontecave, Carine Tisné, and Djemel Hamdane. 2019. “Molecular Basis for Transfer RNA Recognition by the Double-Stranded RNA-Binding Domain of Human Dihydrouridine Synthase 2.” Nucleic Acids Research 47 (6): 3117–26. https://doi.org/10.1093/nar/gky1302.
Boyer, Benjamin, Claudia Danilowicz, Mara Prentiss, and Chantal Prévost. 2019. “Weaving DNA Strands: Structural Insight on ATP Hydrolysis in RecA-Induced Homologous Recombination.” Nucleic Acids Research 47 (15): 7798–7808. https://doi.org/10.1093/nar/gkz667.
Brandner, Astrid, Dario De Vecchis, Marc Baaden, Mickael M. Cohen, and Antoine Taly. 2019. “Physics-Based Oligomeric Models of the Yeast Mitofusin Fzo1 at the Molecular Scale in the Context of Membrane Docking.” Mitochondrion 49: 234–44. https://doi.org/10.1016/j.mito.2019.06.010.
Brandner, Astrid, Dario De Vecchis, Marc Baaden, Mickael M. Cohen, and Antoine Taly. 2019. “Structural Dataset from Microsecond-Long Simulations of Yeast Mitofusin Fzo1 in the Context of Membrane Docking.” Data in Brief 26 (October): 104460. https://doi.org/10.1016/j.dib.2019.104460.
Caillet, Joël, Bruno Baron, Irina V. Boni, Célia Caillet-Saguy, and Eliane Hajnsdorf. 2019. “Identification of Protein-Protein and Ribonucleoprotein Complexes Containing Hfq.” Scientific Reports 9 (1): 14054. https://doi.org/10.1038/s41598-019-50562-w.
Casiraghi, Marina, Elodie Point, Alexandre Pozza, Karine Moncoq, Jean-Louis Banères, and Laurent J. Catoire. 2019. “NMR Analysis of GPCR Conformational Landscapes and Dynamics.” Molecular and Cellular Endocrinology 484: 69–77. https://doi.org/10.1016/j.mce.2018.12.019.
Chiricotto, Mara, Simone Melchionna, Philippe Derreumaux, and Fabio Sterpone. 2019. “Multiscale Aggregation of the Amyloid Aβ16-22 Peptide: From Disordered Coagulation and Lateral Branching to Amorphous Prefibrils.” The Journal of Physical Chemistry Letters 10 (7): 1594–99. https://doi.org/10.1021/acs.jpclett.9b00423.
Dautant, Alain, Julien Henri, Thomas E. Wales, Philippe Meyer, John R. Engen, and Florian Georgescauld. 2019. “Remodeling of the Binding Site of Nucleoside Diphosphate Kinase Revealed by X-Ray Structure and H/D Exchange.” Biochemistry 58 (10): 1440–49. https://doi.org/10.1021/acs.biochem.8b01308.
Carpentier, Félix de, Stéphane D. Lemaire, and Antoine Danon. 2019. “When Unity Is Strength: The Strategies Used by Chlamydomonas to Survive Environmental Stresses.” Cells 8 (11). https://doi.org/10.3390/cells8111307.
De Mia, Marcello, Stéphane D. Lemaire, Yves Choquet, and Francis-André Wollman. 2019. “Nitric Oxide Remodels the Photosynthetic Apparatus upon S-Starvation in Chlamydomonas Reinhardtii.” Plant Physiology 179 (2): 718–31. https://doi.org/10.1104/pp.18.01164.
De Vecchis, Dario, Astrid Brandner, Marc Baaden, Mickael M. Cohen, and Antoine Taly. 2019. “A Molecular Perspective on Mitochondrial Membrane Fusion: From the Key Players to Oligomerization and Tethering of Mitofusin.” The Journal of Membrane Biology 252 (4–5): 293–306. https://doi.org/10.1007/s00232-019-00089-y.
Dégut, Clément, Martine Roovers, Pierre Barraud, Franck Brachet, André Feller, Valéry Larue, Abdalla Al Refaii, Joël Caillet, Louis Droogmans, and Carine Tisné. 2019. “Structural Characterization of B. Subtilis M1A22 TRNA Methyltransferase TrmK: Insights into TRNA Recognition.” Nucleic Acids Research 47 (9): 4736–50. https://doi.org/10.1093/nar/gkz230.
Delepelaire, Philippe. 2019. “Bacterial ABC Transporters of Iron Containing Compounds.” Research in Microbiology 170 (8): 345–57. https://doi.org/10.1016/j.resmic.2019.10.008.
Durand, Sylvain, Adam Callan-Sidat, Josie McKeown, Stephen Li, Gergana Kostova, Juan R. Hernandez-Fernaud, Mohammad Tauqeer Alam, et al. 2019. “Novel Regulation from Novel Interactions: Identification of an RNA Sponge That Controls the Levels, Processing and Efficacy of the RoxS Riboregulator of Central Metabolism in Bacillus Subtilis.” https://doi.org/10.1101/814905.
Eberhard, Stephan, Sona Valuchova, Julie Ravat, Jaroslav Fulneček, Pascale Jolivet, Sandrine Bujaldon, Stéphane D. Lemaire, et al. 2019. “Molecular Characterization of Chlamydomonas Reinhardtii Telomeres and Telomerase Mutants.” Life Science Alliance 2 (3). https://doi.org/10.26508/lsa.201900315.
Esmenjaud, Jean-Baptiste, David Stroebel, Kelvin Chan, Teddy Grand, Mélissa David, Lonnie P. Wollmuth, Antoine Taly, and Pierre Paoletti. 2019. “An Inter-Dimer Allosteric Switch Controls NMDA Receptor Activity.” The EMBO Journal 38 (2). https://doi.org/10.15252/embj.201899894.
F Brandner, Astrid, Stepan Timr, Simone Melchionna, Philippe Derreumaux, Marc Baaden, and Fabio Sterpone. 2019. “Modelling Lipid Systems in Fluid with Lattice Boltzmann Molecular Dynamics Simulations and Hydrodynamics.” Scientific Reports 9 (1): 16450. https://doi.org/10.1038/s41598-019-52760-y.
Fernandez, Marion, and Jacqueline Plumbridge. 2019. “Complex Synergistic Amino Acid-Nucleotide Interactions Contribute to the Specificity of NagC Operator Recognition and Induction.” Microbiology (Reading, England) 165 (7): 792–803. https://doi.org/10.1099/mic.0.000814.
Findinier, Justin, Cédric Delevoye, and Mickael M. Cohen. 2019. “The Dynamin-like Protein Fzl Promotes Thylakoid Fusion and Resistance to Light Stress in Chlamydomonas Reinhardtii.” PLoS Genetics 15 (3): e1008047. https://doi.org/10.1371/journal.pgen.1008047.
Gervason, Sylvain, Djabir Larkem, Amir Ben Mansour, Thomas Botzanowski, Christina S. Müller, Ludovic Pecqueur, Gwenaelle Le Pavec, et al. 2019. “Physiologically Relevant Reconstitution of Iron-Sulfur Cluster Biosynthesis Uncovers Persulfide-Processing Functions of Ferredoxin-2 and Frataxin.” Nature Communications 10 (1): 3566. https://doi.org/10.1038/s41467-019-11470-9.
Gnutt, David, Stepan Timr, Jonas Ahlers, Benedikt König, Emily Manderfeld, Matthias Heyden, Fabio Sterpone, and Simon Ebbinghaus. 2019. “Stability Effect of Quinary Interactions Reversed by Single Point Mutations.” Journal of the American Chemical Society 141 (11): 4660–69. https://doi.org/10.1021/jacs.8b13025.
Gurrieri, Libero, Alessandra Del Giudice, Nicola Demitri, Giuseppe Falini, Nicolae Viorel Pavel, Mirko Zaffagnini, Maurizio Polentarutti, et al. 2019. “Arabidopsis and Chlamydomonas Phosphoribulokinase Crystal Structures Complete the Redox Structural Proteome of the Calvin-Benson Cycle.” Proceedings of the National Academy of Sciences of the United States of America 116 (16): 8048–53. https://doi.org/10.1073/pnas.1820639116.
Hajj Chehade, Mahmoud, Ludovic Pelosi, Cameron David Fyfe, Laurent Loiseau, Bérengère Rascalou, Sabine Brugière, Katayoun Kazemzadeh, et al. 2019. “A Soluble Metabolon Synthesizes the Isoprenoid Lipid Ubiquinone.” Cell Chemical Biology 26 (4): 482-492.e7. https://doi.org/10.1016/j.chembiol.2018.12.001.
Jolivet, Pascale, Kamar Serhal, Marco Graf, Stephan Eberhard, Zhou Xu, Brian Luke, and Maria Teresa Teixeira. 2019. “A Subtelomeric Region Affects Telomerase-Negative Replicative Senescence in Saccharomyces Cerevisiae.” Scientific Reports 9 (1): 1845. https://doi.org/10.1038/s41598-018-38000-9.
Kanonenberg, Kerstin, Jorge Royes, Alexej Kedrov, Gereon Poschmann, Federica Angius, Audrey Solgadi, Olivia Spitz, et al. 2019. “Shaping the Lipid Composition of Bacterial Membranes for Membrane Protein Production.” Microbial Cell Factories 18 (1): 131. https://doi.org/10.1186/s12934-019-1182-1.
Laage, Damien, and Guillaume Stirnemann. 2019. “Effect of Ions on Water Dynamics in Dilute and Concentrated Aqueous Salt Solutions.” The Journal of Physical Chemistry. B 123 (15): 3312–24. https://doi.org/10.1021/acs.jpcb.9b01053.
Lamrabet, Otmane, Jacqueline Plumbridge, Mikaël Martin, Richard E. Lenski, Dominique Schneider, and Thomas Hindré. 2019. “Plasticity of Promoter-Core Sequences Allows Bacteria to Compensate for the Loss of a Key Global Regulatory Gene.” Molecular Biology and Evolution 36 (6): 1121–33. https://doi.org/10.1093/molbev/msz042.
Law-Hine, Didier, Sergii Rudiuk, Audrey Bonestebe, Romain Ienco, Sylvain Huille, and Christophe Tribet. 2019. “Distinctive Low-Resolution Structural Features of Dimers of Antibody-Drug Conjugates and Parent Antibody Determined by Small-Angle X-Ray Scattering.” Molecular Pharmaceutics, October. https://doi.org/10.1021/acs.molpharmaceut.9b00792.
Lejars, Maxence, Asaki Kobayashi, and Eliane Hajnsdorf. 2019. “Physiological Roles of Antisense RNAs in Prokaryotes.” Biochimie 164 (September): 3–16. https://doi.org/10.1016/j.biochi.2019.04.015.
Li, Chastity, Claudia Danilowicz, Tommy F. Tashjian, Veronica G. Godoy, Chantal Prévost, and Mara Prentiss. 2019. “The Positioning of Chi Sites Allows the RecBCD Pathway to Suppress Some Genomic Rearrangements.” Nucleic Acids Research 47 (4): 1836–46. https://doi.org/10.1093/nar/gky1252.
Lipońska, Anna, Farès Ousalem, Daniel P. Aalberts, John F. Hunt, and Grégory Boël. 2019. “The New Strategies to Overcome Challenges in Protein Production in Bacteria.” Microbial Biotechnology 12 (1): 44–47. https://doi.org/10.1111/1751-7915.13338.
Lu, Yan, Xiao-Feng Shi, Phuong H. Nguyen, Fabio Sterpone, Freddie R. Salsbury, and Philippe Derreumaux. 2019. “Amyloid-β(29-42) Dimeric Conformations in Membranes Rich in Omega-3 and Omega-6 Polyunsaturated Fatty Acids.” The Journal of Physical Chemistry. B 123 (12): 2687–96. https://doi.org/10.1021/acs.jpcb.9b00431.
Lu, Daniel, Claudia Danilowicz, Tommy F. Tashjian, Chantal Prévost, Veronica G. Godoy, and Mara Prentiss. 2019. “Slow Extension of the Invading DNA Strand in a D-Loop Formed by RecA-Mediated Homologous Recombination May Enhance Recognition of DNA Homology.” The Journal of Biological Chemistry 294 (21): 8606–16. https://doi.org/10.1074/jbc.RA119.007554.
Ma, Wei, Christophe Tribet, Sylvain Guyot, and Dražen Zanchi. 2019. “Tannin-Controlled Micelles and Fibrils of κ-Casein.” The Journal of Chemical Physics 151 (24): 245103. https://doi.org/10.1063/1.5128057.
Majeran, Wojciech, Katia Wostrikoff, Francis-André Wollman, and Olivier Vallon. 2019. “Role of ClpP in the Biogenesis and Degradation of RuBisCO and ATP Synthase in Chlamydomonas Reinhardtii.” Plants (Basel, Switzerland) 8 (7). https://doi.org/10.3390/plants8070191.
Man, Viet Hoang, Mai Suan Li, Junmei Wang, Philippe Derreumaux, and Phuong H. Nguyen. 2019. “Interaction Mechanism between the Focused Ultrasound and Lipid Membrane at the Molecular Level.” The Journal of Chemical Physics 150 (21): 215101. https://doi.org/10.1063/1.5099008.
Man, Viet Hoang, Xibing He, Philippe Derreumaux, Beihong Ji, Xiang-Qun Xie, Phuong H. Nguyen, and Junmei Wang. 2019. “Effects of All-Atom Molecular Mechanics Force Fields on Amyloid Peptide Assembly: The Case of Aβ16-22 Dimer.” Journal of Chemical Theory and Computation 15 (2): 1440–52. https://doi.org/10.1021/acs.jctc.8b01107.
Man, Viet Hoang, Mai Suan Li, Junmei Wang, Philippe Derreumaux, and Phuong H. Nguyen. 2019. “Nonequilibrium Atomistic Molecular Dynamics Simulation of Tubular Nanomotor Propelled by Bubble Propulsion.” The Journal of Chemical Physics 151 (2): 024103. https://doi.org/10.1063/1.5109101.
Marchand, Christophe H., Simona Fermani, Jacopo Rossi, Libero Gurrieri, Daniele Tedesco, Julien Henri, Francesca Sparla, Paolo Trost, Stéphane D. Lemaire, and Mirko Zaffagnini. 2019. “Structural and Biochemical Insights into the Reactivity of Thioredoxin H1 from Chlamydomonas Reinhardtii.” Antioxidants (Basel, Switzerland) 8 (1). https://doi.org/10.3390/antiox8010010.
Martinez, Xavier, Michael Krone, Naif Alharbi, Alexander S. Rose, Robert S. Laramee, Sean O’Donoghue, Marc Baaden, and Matthieu Chavent. 2019. “Molecular Graphics: Bridging Structural Biologists and Computer Scientists.” Structure (London, England: 1993) 27 (11): 1617–23. https://doi.org/10.1016/j.str.2019.09.001.
Mason, Philip E., Pavel Jungwirth, and Elise Duboué-Dijon. 2019. “Quantifying the Strength of a Salt Bridge by Neutron Scattering and Molecular Dynamics.” The Journal of Physical Chemistry Letters 10 (12): 3254–59. https://doi.org/10.1021/acs.jpclett.9b01309.
Nawrocki, W. J., B. Bailleul, P. Cardol, F. Rappaport, F.-A. Wollman, and P. Joliot. 2019. “Maximal Cyclic Electron Flow Rate Is Independent of PGRL1 in Chlamydomonas.” Biochimica Et Biophysica Acta. Bioenergetics 1860 (5): 425–32. https://doi.org/10.1016/j.bbabio.2019.01.004.
Nawrocki, W. J., B. Bailleul, D. Picot, P. Cardol, F. Rappaport, F.-A. Wollman, and P. Joliot. 2019. “The Mechanism of Cyclic Electron Flow.” Biochimica Et Biophysica Acta. Bioenergetics 1860 (5): 433–38. https://doi.org/10.1016/j.bbabio.2018.12.005.
Ngo, Son Tung, Philippe Derreumaux, and Van V. Vu. 2019. “Probable Transmembrane Amyloid α-Helix Bundles Capable of Conducting Ca2+ Ions.” The Journal of Physical Chemistry. B 123 (12): 2645–53. https://doi.org/10.1021/acs.jpcb.8b10792.

2018

Abdelkrim, Yosser Zina, Emna Harigua-Souiai, Mourad Barhoumi, Josette Banroques, Arnaud Blondel, Ikram Guizani, and N. Kyle Tanner. 2018. “The Steroid Derivative 6-Aminocholestanol Inhibits the DEAD-Box Helicase EIF4A (LieIF4A) from the Trypanosomatid Parasite Leishmania by Perturbing the RNA and ATP Binding Sites.” Molecular and Biochemical Parasitology 226: 9–19. https://doi.org/10.1016/j.molbiopara.2018.10.001.
Angius, Federica, Oana Ilioaia, Amira Amrani, Annabelle Suisse, Lindsay Rosset, Amélie Legrand, Abbas Abou-Hamdan, Marc Uzan, Francesca Zito, and Bruno Miroux. 2018. “A Novel Regulation Mechanism of the T7 RNA Polymerase Based Expression System Improves Overproduction and Folding of Membrane Proteins.” Scientific Reports 8 (1): 8572. https://doi.org/10.1038/s41598-018-26668-y.
Aymé, Laure, Simon Arragain, Michel Canonge, Sébastien Baud, Nadia Touati, Ornella Bimai, Franjo Jagic, et al. 2018. “Arabidopsis Thaliana DGAT3 Is a [2Fe-2S] Protein Involved in TAG Biosynthesis.” Scientific Reports 8 (1): 17254. https://doi.org/10.1038/s41598-018-35545-7.
Baaden, Marc, Olivier Delalande, Nicolas Ferey, Samuela Pasquali, Jérôme Waldispühl, and Antoine Taly. 2018. “Ten Simple Rules to Create a Serious Game, Illustrated with Examples from Structural Biology.” PLOS Computational Biology 14 (3): e1005955. https://doi.org/10.1371/journal.pcbi.1005955.
Barroso da Silva, Fernando Luís, Philippe Derreumaux, and Samuela Pasquali. 2018. “Protein-RNA Complexation Driven by the Charge Regulation Mechanism.” Biochemical and Biophysical Research Communications, Multiscale Modeling, 498 (2): 264–73. https://doi.org/10.1016/j.bbrc.2017.07.027.
Baumgardt, Kathrin, Laetitia Gilet, Sabine Figaro, and Ciarán Condon. 2018. “The Essential Nature of YqfG, a YbeY Homologue Required for 3′ Maturation of Bacillus Subtilis 16S Ribosomal RNA Is Suppressed by Deletion of RNase R.” Nucleic Acids Research. https://doi.org/10.1093/nar/gky488.
Beedle, Amy E. M., Marc Mora, Colin T. Davis, Ambrosius P. Snijders, Guillaume Stirnemann, and Sergi Garcia-Manyes. 2018. “Forcing the Reversibility of a Mechanochemical Reaction.” Nature Communications 9 (1): 3155. https://doi.org/10.1038/s41467-018-05115-6.
Berkovich, Ronen, Vicente I. Fernandez, Guillaume Stirnemann, Jessica Valle-Orero, and Julio M. Fernández. 2018. “Segmentation and the Entropic Elasticity of Modular Proteins.” The Journal of Physical Chemistry Letters 9 (16): 4707–13. https://doi.org/10.1021/acs.jpclett.8b01925.
Bernaschi, Massimo, Simone Melchionna, Philippe Derreumaux, Fabio Sterpone, and Sauro Succi. 2018. “Multilevel Lattice Boltzmann-Particle Dynamics Simulations at the Physics-Biology Interface.” Journal of Physics: Conference Series 1136 (December): 012013. https://doi.org/10.1088/1742-6596/1136/1/012013.
Boniello, Giuseppe, Christophe Tribet, Emmanuelle Marie, Vincent Croquette, and Dražen Zanchi. 2018. “Rolling and Aging in Temperature-Ramp Soft Adhesion.” Physical Review E 97 (1): 012609. https://doi.org/10.1103/PhysRevE.97.012609.
Bou-Nader, Charles, Damien Brégeon, Ludovic Pecqueur, Marc Fontecave, and Djemel Hamdane. 2018. “Electrostatic Potential in the TRNA Binding Evolution of Dihydrouridine Synthases.” Biochemistry, August. https://doi.org/10.1021/acs.biochem.8b00584.
Brosse, Anaïs, and Maude Guillier. 2018. “Bacterial Small RNAs in Mixed Regulatory Networks.” Microbiology Spectrum 6 (3). https://doi.org/10.1128/microbiolspec.RWR-0014-2017.
Caserta, Giorgio, Cecilia Papini, Agnieszka Adamska-Venkatesh, Ludovic Pecqueur, Constanze Sommer, Edward Reijerse, Wolfgang Lubitz, et al. 2018. “Engineering an [FeFe]-Hydrogenase: Do Accessory Clusters Influence O2 Resistance and Catalytic Bias?” Journal of the American Chemical Society 140 (16): 5516–26. https://doi.org/10.1021/jacs.8b01689.
Casiraghi, Marina, Marjorie Damian, Ewen Lescop, Jean-Louis Baneres, and Laurent J Catoire. 2018. “Illuminating the Energy Landscape of GPCRs: The Key Contribution of Solution-State NMR Associated with Escherichia Coli as an Expression Host.” Biochemistry 57 (16): 2297–2307. https://doi.org/10.1021/acs.biochem.8b00035.
Chipot, Christophe, François Dehez, Jason R. Schnell, Nicole Zitzmann, Eva Pebay-Peyroula, Laurent J. Catoire, Bruno Miroux, et al. 2018. “Perturbations of Native Membrane Protein Structure in Alkyl Phosphocholine Detergents: A Critical Assessment of NMR and Biophysical Studies.” Chemical Reviews 118 (7): 3559–3607. https://doi.org/10.1021/acs.chemrev.7b00570.
Cohen, Mickael M, and David Tareste. 2018. “Recent Insights into the Structure and Function of Mitofusins in Mitochondrial Fusion.” F1000Research 7 (December). https://doi.org/10.12688/f1000research.16629.1.
Condon, Ciarán, Jéremie Piton, and Frédérique Braun. 2018. “Distribution of the Ribosome Associated Endonuclease Rae1 and the Potential Role of Conserved Amino Acids in Codon Recognition.” RNA Biology 0 (0): 1–6. https://doi.org/10.1080/15476286.2018.1454250.
Corey, Robin A., Euan Pyle, William J. Allen, Daniel W. Watkins, Marina Casiraghi, Bruno Miroux, Ignacio Arechaga, Argyris Politis, and Ian Collinson. 2018. “Specific Cardiolipin-SecY Interactions Are Required for Proton-Motive Force Stimulation of Protein Secretion.” Proceedings of the National Academy of Sciences of the United States of America 115 (31): 7967–72. https://doi.org/10.1073/pnas.1721536115.
Coutelier, Héloïse, Zhou Xu, Mony Chenda Morisse, Maoussi Lhuillier-Akakpo, Serge Pelet, Gilles Charvin, Karine Dubrana, and Maria Teresa Teixeira. 2018. “Adaptation to DNA Damage Checkpoint in Senescent Telomerase-Negative Cells Promotes Genome Instability.” Genes & Development 32 (23–24): 1499–1513. https://doi.org/10.1101/gad.318485.118.
Crozet, Pierre, Francisco J Navarro, Felix Willmund, Payam Mehrshahi, Kamil Bakowski, Kyle Jonathan Lauersen, Maria-Esther Pérez-Pérez, et al. 2018. “Birth of a Photosynthetic Chassis: A MoClo Toolkit Enabling Synthetic Biology in the Microalga Chlamydomonas Reinhardtii.” ACS Synthetic Biology, August. https://doi.org/10.1021/acssynbio.8b00251.
Dalier, F., G. V. Dubacheva, M. Coniel, D. Zanchi, A. Galtayries, M. Piel, E. Marie, and C. Tribet. 2018. “Mixed Copolymer Adlayers Allowing Reversible Thermal Control of Single Cell Aspect Ratio.” ACS Applied Materials & Interfaces, January. https://doi.org/10.1021/acsami.7b18513.
Dilworth, Marvin V., Mathilde S. Piel, Kim E. Bettaney, Pikyee Ma, Ji Luo, David Sharples, David R. Poyner, et al. 2018. “Microbial Expression Systems for Membrane Proteins.” Methods (San Diego, Calif.) 147 (April): 3–39. https://doi.org/10.1016/j.ymeth.2018.04.009.
Dumas, Louis, Francesca Zito, Pascaline Auroy, Xenie Johnson, Gilles Peltier, and Jean Alric. 2018. “Structure-Function Analysis of Chloroplast Proteins via Random Mutagenesis Using Error-Prone PCR.” Plant Physiology 177 (2): 465–75. https://doi.org/10.1104/pp.17.01618.
El Meshri, Salah Edin, Emmanuel Boutant, Assia Mouhand, Audrey Thomas, Valéry Larue, Ludovic Richert, Valérie Vivet-Boudou, et al. 2018. “The NC Domain of HIV-1 Gag Contributes to the Interaction of Gag with TSG101.” Biochimica et Biophysica Acta (BBA) – General Subjects 1862 (6): 1421–31. https://doi.org/10.1016/j.bbagen.2018.03.020.
Elbahnsi, Ahmad, Romain Retureau, Marc Baaden, Brigitte Hartmann, and Christophe Oguey. 2018. “Holding the Nucleosome Together: A Quantitative Description of the DNA–Histone Interface in Solution.” Journal of Chemical Theory and Computation 14 (2): 1045–58. https://doi.org/10.1021/acs.jctc.7b00936.
Esque, Jérémy, Mark S. P. Sansom, Marc Baaden, and Christophe Oguey. 2018. “Analyzing Protein Topology Based on Laguerre Tessellation of a Pore-Traversing Water Network.” Scientific Reports 8 (1): 13540. https://doi.org/10.1038/s41598-018-31422-5.
Fogeron, Thibault, Pascal Retailleau, Maria Gomez-Mingot, Yun Li, and Marc Fontecave. 2018. “Nickel Complexes Based on Molybdopterin-like Dithiolenes: Catalysts for CO2 Electroreduction.” Organometallics, November. https://doi.org/10.1021/acs.organomet.8b00655.
Fogeron, Thibault, Pascal Retailleau, Lise-Marie Chamoreau, Yun Li, and Marc Fontecave. 2018. “Pyranopterin Related Dithiolene Molybdenum Complexes as Homogeneous Catalysts for CO2 Photoreduction.” Angewandte Chemie 130 (52): 17279–83. https://doi.org/10.1002/ange.201809084.
Fogeron, Thibault, Tanya K. Todorova, jean philippe Porcher, Maria Gomez-Mingot, Lise-Marie Chamoreau, Caroline Mellot-Draznieks, Yun Li, and Marc Fontecave. 2018. “A Bioinspired Nickel(Bis-Dithiolene) Complex as a Homogeneous Catalyst for Carbon Dioxide Electroreduction.” ACS Catalysis, January. https://doi.org/10.1021/acscatal.7b03383.
Guerin, Marcelo E., Guillaume Stirnemann, and David Giganti. 2018. “Conformational Entropy of a Single Peptide Controlled under Force Governs Protease Recognition and Catalysis.” Proceedings of the National Academy of Sciences 115 (45): 11525–30. https://doi.org/10.1073/pnas.1803872115.
Hajnsdorf Eliane, and Kaberdin Vladimir R. 2018. “RNA Polyadenylation and Its Consequences in Prokaryotes.” Philosophical Transactions of the Royal Society B: Biological Sciences 373 (1762): 20180166. https://doi.org/10.1098/rstb.2018.0166.
Hardouin, Pierre, Christophe Velours, Charles Bou-Nader, Nadine Assrir, Soumaya Laalami, Harald Putzer, Dominique Durand, and Béatrice Golinelli-Pimpaneau. 2018. “Dissociation of the Dimer of the Intrinsically Disordered Domain of RNase Y upon Antibody Binding.” Biophysical Journal 115 (11): 2102–13. https://doi.org/10.1016/j.bpj.2018.10.016.
Harigua-Souiai, Emna, Yosser Zina Abdelkrim, Imen Bassoumi-Jamoussi, Ons Zakraoui, Guillaume Bouvier, Khadija Essafi-Benkhadir, Josette Banroques, et al. 2018. “Identification of Novel Leishmanicidal Molecules by Virtual and Biochemical Screenings Targeting Leishmania Eukaryotic Translation Initiation Factor 4A.” PLOS Neglected Tropical Diseases 12 (1): e0006160. https://doi.org/10.1371/journal.pntd.0006160.
Henri, Julien, Marie-Eve Chagot, Maxime Bourguet, Yoann Abel, Guillaume Terral, Chloé Maurizy, Christelle Aigueperse, et al. 2018. “Deep Structural Analysis of RPAP3 and PIH1D1, Two Components of the HSP90 Co-Chaperone R2TP Complex.” Structure 26 (9): 1196-1209.e8. https://doi.org/10.1016/j.str.2018.06.002.
Hitaishi, Vivek, Romain Clement, Nicolas Bourassin, Marc Baaden, Anne de Poulpiquet, Sophie Sacquin-Mora, Alexandre Ciaccafava, et al. 2018. “Controlling Redox Enzyme Orientation at Planar Electrodes.” Catalysts 8 (5): 192. https://doi.org/10.3390/catal8050192.
Joseph, Thomas T., and Jérôme Hénin. 2018. “Molecular Mechanics Parameterization of Anesthetic Molecules.” In , edited by BT  – Methods in Enzymology. Academic Press. https://doi.org/10.1016/bs.mie.2018.01.003.
Kim, Raeyeong, Shuji Kanamaru, Tsutomu Mikawa, Chantal Prévost, Kentaro Ishii, Kentaro Ito, Susumu Uchiyama, et al. 2018. “RecA Requires Two Molecules of Mg2+ Ions for Its Optimal Strand Exchange Activity in Vitro.” Nucleic Acids Research, January. https://doi.org/10.1093/nar/gky048.
Kocsis, Istvan, Mirco Sorci, Heather Vanselous, Samuel Murail, Stephanie E. Sanders, Erol Licsandru, Yves-Marie Legrand, et al. 2018. “Oriented Chiral Water Wires in Artificial Transmembrane Channels.” Science Advances 4 (3): eaao5603. https://doi.org/10.1126/sciadv.aao5603.
Lagarde, Nathalie, Alessandra Carbone, and Sophie Sacquin‐Mora. 2018. “Hidden Partners: Using Cross‐docking Calculations to Predict Binding Sites for Proteins with Multiple Interactions.” Proteins: Structure, Function, and Bioinformatics 86 (7): 723–37. https://doi.org/10.1002/prot.25506.
Languin-Cattoën, Olivier, Simone Melchionna, Philippe Derreumaux, Guillaume Stirnemann, and Fabio Sterpone. 2018. “Three Weaknesses for Three Perturbations: Comparing Protein Unfolding Under Shear, Force, and Thermal Stresses.” The Journal of Physical Chemistry B 122 (50): 11922–30. https://doi.org/10.1021/acs.jpcb.8b08711.
Le Bon, Christel, Anaïs Marconnet, Sandrine Masscheleyn, Jean-Luc Popot, and Manuela Zoonens. 2018. “Folding and Stabilizing Membrane Proteins in Amphipol A8-35.” Methods (San Diego, Calif.) 147 (April): 95–105. https://doi.org/10.1016/j.ymeth.2018.04.012.
Lemaire, Stéphane D., Daniele Tedesco, Pierre Crozet, Laure Michelet, Simona Fermani, Mirko Zaffagnini, and Julien Henri. 2018. “Crystal Structure of Chloroplastic Thioredoxin F2 from Chlamydomonas Reinhardtii Reveals Distinct Surface Properties.” Antioxidants 7 (12): 171. https://doi.org/10.3390/antiox7120171.
Liponska, Anna, Ailar Jamalli, Richard Kuras, Loreto Suay, Enrico Garbe, Francis-André Wollman, Soumaya Laalami, and Harald Putzer. 2018. “Tracking the Elusive 5’ Exonuclease Activity of Chlamydomonas Reinhardtii RNase J.” Plant Molecular Biology, March. https://doi.org/10.1007/s11103-018-0720-2.
Longatte, Guillaume, Adnan Sayegh, Jérôme Delacotte, Fabrice Rappaport, Francis-André Wollman, Manon Guille Collignon, and Frédéric Lemaître. 2018. “Investigation of Photocurrents Resulting from Living Unicellular Algae Suspension with Quinones over Time.” Chemical Science, August. https://doi.org/10.1039/C8SC03058H.
Maes, Alexandre, Xavier Martinez, Karen Druart, Benoist Laurent, Sean Guégan, Christophe H. Marchand, Stéphane D. Lemaire, and Marc Baaden. 2018. “MinOmics, an Integrative and Immersive Tool for Multi-Omics Analysis.” Journal of Integrative Bioinformatics 15 (2). https://doi.org/10.1515/jib-2018-0006.
Maikova, Anna, Johann Peltier, Pierre Boudry, Eliane Hajnsdorf, Nicolas Kint, Marc Monot, Isabelle Poquet, Isabelle Martin-Verstraete, Bruno Dupuy, and Olga Soutourina. 2018. “Discovery of New Type I Toxin–Antitoxin Systems Adjacent to CRISPR Arrays in Clostridium Difficile.” Nucleic Acids Research. https://doi.org/10.1093/nar/gky124.
Mazur, Alexey K., and Eugene Gladyshev. 2018. “Structural Aspects of Homologous DNA-DNA Interactions Revealed by Partitioning of RIP Mutations.” BioRxiv, June, 344036. https://doi.org/10.1101/344036.
Mora, Liliana, Saravuth Ngo, Soumaya Laalami, and Harald Putzer. 2018. “Chapter Fourteen – In Vitro Study of the Major Bacillus Subtilis Ribonucleases Y and J.” In Methods in Enzymology, edited by Agamemnon J. Carpousis, 612:343–59. High-Density Sequencing Applications in Microbial Molecular Genetics. Academic Press. https://doi.org/10.1016/bs.mie.2018.08.004.
Mouhand, Assia, Anissa Belfetmi, Marjorie Catala, Valéry Larue, Loussiné Zargarian, Franck Brachet, Robert J. Gorelick, et al. 2018. “Modulation of the HIV Nucleocapsid Dynamics Finely Tunes Its RNA-Binding Properties during Virion Genesis.” Nucleic Acids Research. https://doi.org/10.1093/nar/gky612.
Murail, Samuel, Tudor Vasiliu, Andrei Neamtu, Mihail Barboiu, Fabio Sterpone, and Marc Baaden. 2018. “Water Permeation across Artificial I-Quartet Membrane Channels: From Structure to Disorder.” Faraday Discussions, May. https://doi.org/10.1039/C8FD00046H.

2017

Aroua, Safwan, Tanya K. Todorova, Victor Mougel, Paul Hommes, Hans-Ulrich Reissig, and Marc Fontecave. 2017. “New Cobalt-Bisterpyridyl Catalysts for Hydrogen Evolution Reaction.” ChemCatChem 9 (12): 2099–2105. https://doi.org/10.1002/cctc.201700428.
Arragain, Simon, Ornella Bimai, Pierre Legrand, Sylvain Caillat, Jean-Luc Ravanat, Nadia Touati, Laurent Binet, Mohamed Atta, Marc Fontecave, and Béatrice Golinelli-Pimpaneau. 2017. “Nonredox Thiolation in TRNA Occurring via Sulfur Activation by a [4Fe-4S] Cluster.” Proceedings of the National Academy of Sciences, June, 201700902. https://doi.org/10.1073/pnas.1700902114.
Barroso da Silva, Fernando Luís, Philippe Derreumaux, and Samuela Pasquali. 2017. “Fast Coarse-Grained Model for RNA Titration.” The Journal of Chemical Physics 146 (3): 035101. https://doi.org/10.1063/1.4972986.
Belgareh-Touze, Naima, Laetitia Cavellini, and Mickael M. Cohen. 2017. “Ubiquitination of ERMES Components by the E3 Ligase Rsp5 Is Involved in Mitophagy.” Autophagy 13 (1): 114–32. https://doi.org/10.1080/15548627.2016.1252889.
Boniello, Giuseppe, Christophe Tribet, Emmanuelle Marie, Vincent Croquette, and Dražen Zanchi. 2017. “Rolling and Ageing in T-Ramp Soft Adhesion.” ArXiv:1709.02971 [Cond-Mat], September. http://arxiv.org/abs/1709.02971.
Bou-Nader, Charles, David Cornu, Vincent Guerineau, Thibault Fogeron, Marc Fontecave, and Djemel Hamdane. 2017. “Enzyme Activation with a Synthetic Catalytic Co-Enzyme Intermediate: Nucleotide Methylation by Flavoenzymes.” Angewandte Chemie (International Ed. in English), August. https://doi.org/10.1002/anie.201706219.
Braun, Frédérique, Sylvain Durand, and Ciarán Condon. 2017. “Initiating Ribosomes and a 5′/3′-UTR Interaction Control Ribonuclease Action to Tightly Couple B. Subtilis Hbs MRNA Stability with Translation.” Nucleic Acids Research 45 (19): 11386–400. https://doi.org/10.1093/nar/gkx793.
Bujaldon, Sandrine, Natsumi Kodama, Fabrice Rappaport, Rajagopal Subramanyam, Catherine de Vitry, Yuichiro Takahashi, and Francis-André Wollman. 2017. “Functional Accumulation of Antenna Proteins in Chlorophyll B-Less Mutants of Chlamydomonas Reinhardtii.” Molecular Plant 10 (1): 115–30. https://doi.org/10.1016/j.molp.2016.10.001.
Carranza, Gerardo, Federica Angius, Oana Ilioaia, Audrey Solgadi, Bruno Miroux, and Ignacio Arechaga. 2017. “Cardiolipin Plays an Essential Role in the Formation of Intracellular Membranes in Escherichia Coli.” Biochimica Et Biophysica Acta 1859 (6): 1124–32. https://doi.org/10.1016/j.bbamem.2017.03.006.
Caserta, Giorgio, Ludovic Pecqueur, Agnieszka Adamska-Venkatesh, Cecilia Papini, Souvik Roy, Vincent Artero, Mohamed Atta, Edward Reijerse, Wolfgang Lubitz, and Marc Fontecave. 2017. “Structural and Functional Characterization of the Hydrogenase-Maturation HydF Protein.” Nature Chemical Biology 13 (7): 779–84. https://doi.org/10.1038/nchembio.2385.
Cavaiuolo, Marina, Richard Kuras, Francis-André Wollman, Yves Choquet, and Olivier Vallon. 2017. “Small RNA Profiling in Chlamydomonas: Insights into Chloroplast RNA Metabolism.” Nucleic Acids Research 45 (18): 10783–99. https://doi.org/10.1093/nar/gkx668.
Cavellini, Laetitia, Julie Meurisse, Justin Findinier, Zoi Erpapazoglou, Naima Belgareh-Touze, Allan M. Weissman, and Mickael M. Cohen. 2017. “An Ubiquitin-Dependent Balance between Mitofusin Turnover and Fatty Acids Desaturation Regulates Mitochondrial Fusion.” Nature Communications 8 (June): 15832. https://doi.org/10.1038/ncomms15832.
Colloc’h, Nathalie, Sophie Sacquin-Mora, Giovanna Avella, Anne-Claire Dhaussy, Thierry Prangé, Beatrice Vallone, and Eric Girard. 2017. “Determinants of Neuroglobin Plasticity Highlighted by Joint Coarse-Grained Simulations and High Pressure Crystallography.” Scientific Reports 7 (1): 1858. https://doi.org/10.1038/s41598-017-02097-1.
Cragnolini, Tristan, Debayan Chakraborty, Jiří Šponer, Philippe Derreumaux, Samuela Pasquali, and David J. Wales. 2017. “Multifunctional Energy Landscape for a DNA G-Quadruplex: An Evolved Molecular Switch.” The Journal of Chemical Physics 147 (15): 152715. https://doi.org/10.1063/1.4997377.
Danilowicz, Claudia, Laura Hermans, Vincent Coljee, Chantal Prévost, and Mara Prentiss. 2017. “ATP Hydrolysis Provides Functions That Promote Rejection of Pairings between Different Copies of Long Repeated Sequences.” Nucleic Acids Research 45 (14): 8448–62. https://doi.org/10.1093/nar/gkx582.
Dautant, Alain, Philippe Meyer, and Florian Georgescauld. 2017. “Hydrogen/Deuterium Exchange Mass Spectrometry Reveals Mechanistic Details of Activation of Nucleoside Diphosphate Kinases by Oligomerization.” Biochemistry 56 (23): 2886–96. https://doi.org/10.1021/acs.biochem.7b00282.
De Vecchis, Dario, Laetitia Cavellini, Marc Baaden, Jérôme Hénin, Mickaël M. Cohen, and Antoine Taly. 2017. “A Membrane-Inserted Structural Model of the Yeast Mitofusin Fzo1.” Scientific Reports 7 (1): 10217. https://doi.org/10.1038/s41598-017-10687-2.
Doig, Andrew J., Maria P. Del Castillo-Frias, Olivia Berthoumieu, Bogdan Tarus, Jessica Nasica-Labouze, Fabio Sterpone, Phuong H. Nguyen, Nigel M. Hooper, Peter Faller, and Philippe Derreumaux. 2017. “Why Is Research on Amyloid-β Failing to Give New Drugs for Alzheimer’s Disease?” ACS Chemical Neuroscience, June. https://doi.org/10.1021/acschemneuro.7b00188.
Dumas, Louis, Francesca Zito, Stéphanie Blangy, Pascaline Auroy, Xenie Johnson, Gilles Peltier, and Jean Alric. 2017. “A Stromal Region of Cytochrome B6f Subunit IV Is Involved in the Activation of the Stt7 Kinase in Chlamydomonas.” Proceedings of the National Academy of Sciences, October, 201713343. https://doi.org/10.1073/pnas.1713343114.
Elgrishi, Noémie, Matthew B. Chambers, Xia Wang, and Marc Fontecave. 2017. “Molecular Polypyridine-Based Metal Complexes as Catalysts for the Reduction of CO2.” Chemical Society Reviews 46 (3): 761–96. https://doi.org/10.1039/C5CS00391A.
Eugene, Sarah, Thibault Bourgeron, and Zhou Xu. 2017. “Effects of Initial Telomere Length Distribution on Senescence Onset and Heterogeneity.” Journal of Theoretical Biology 413 (January): 58–65. https://doi.org/10.1016/j.jtbi.2016.11.010.
Fogeron, Thibault, Pascal Retailleau, Lise-Marie Chamoreau, Marc Fontecave, and Yun Li. 2017. “The Unusual Ring Scission of a Quinoxaline-Pyran-Fused Dithiolene System Related to Molybdopterin.” Dalton Transactions 46 (13): 4161–64. https://doi.org/10.1039/C7DT00377C.
Fu, Han-Yi, Daniel Picot, Yves Choquet, Guillaume Longatte, Adnan Sayegh, Jérôme Delacotte, Manon Guille-Collignon, Frédéric Lemaître, Fabrice Rappaport, and Francis-André Wollman. 2017. “Redesigning the QA Binding Site of Photosystem II Allows Reduction of Exogenous Quinones.” Nature Communications 8 (May): 15274. https://doi.org/10.1038/ncomms15274.
Fu, Haohao, Wensheng Cai, Jérôme Hénin, Benoît Roux, and Christophe Chipot. 2017. “New Coarse Variables for the Accurate Determination of Standard Binding Free Energies.” Journal of Chemical Theory and Computation 13 (11): 5173–78. https://doi.org/10.1021/acs.jctc.7b00791.
Gold, Vicki A. M., Tobias Brandt, Laetitia Cavellini, Mickael M. Cohen, Raffaele Ieva, and Martin van der Laan. 2017. “Analysis of Mitochondrial Membrane Protein Complexes by Electron Cryo-Tomography.” Methods in Molecular Biology (Clifton, N.J.) 1567: 315–36. https://doi.org/10.1007/978-1-4939-6824-4_19.
Graf, Marco, Diego Bonetti, Arianna Lockhart, Kamar Serhal, Vanessa Kellner, André Maicher, Pascale Jolivet, Maria Teresa Teixeira, and Brian Luke. 2017. “Telomere Length Determines TERRA and R-Loop Regulation through the Cell Cycle.” Cell 170 (1): 72-85.e14. https://doi.org/10.1016/j.cell.2017.06.006.
Hamouche, Lina, Soumaya Laalami, Adrian Daerr, Solène Song, I. Barry Holland, Simone J. Séror, Kassem Hamze, and Harald Putzer. 2017. “Bacillus Subtilis Swarmer Cells Lead the Swarm, Multiply, and Generate a Trail of Quiescent Descendants.” MBio 8 (1). https://doi.org/10.1128/mBio.02102-16.
Huan, Tran Ngoc, Philippe Simon, Gwenaëlle Rousse, Isabelle Génois, Vincent Artero, and Marc Fontecave. 2017. “Porous Dendritic Copper: An Electrocatalyst for Highly Selective CO2 Reduction to Formate in Water/Ionic Liquid Electrolyte.” Chemical Science 8 (1): 742–47. https://doi.org/10.1039/c6sc03194c.
Jabrani, Amira, Staëlle Makamte, Emilie Moreau, Yasmine Gharbi, Anne Plessis, Lucia Bruzzone, Matthieu Sanial, and Valérie Biou. 2017. “Biophysical Characterisation of the Novel Zinc Binding Property in Suppressor of Fused.” Scientific Reports 7 (1): 11139. https://doi.org/10.1038/s41598-017-11203-2.
Jagodnik, Jonathan, Anaïs Brosse, Thao Nguyen Le Lam, Claude Chiaruttini, and Maude Guillier. 2017. “Mechanistic Study of Base-Pairing Small Regulatory RNAs in Bacteria.” Methods (San Diego, Calif.) 117 (March): 67–76. https://doi.org/10.1016/j.ymeth.2016.09.012.
Jagodnik, Jonathan, Claude Chiaruttini, and Maude Guillier. 2017. “Stem-Loop Structures within MRNA Coding Sequences Activate Translation Initiation and Mediate Control by Small Regulatory RNAs.” Molecular Cell, September. https://doi.org/10.1016/j.molcel.2017.08.015.
Joyet, Philippe, Abdelhamid Mokhtari, Eliette Riboulet-Bisson, Víctor S. Blancato, Martin Espariz, Christian Magni, Axel Hartke, Josef Deutscher, and Nicolas Sauvageot. 2017. “Enzymes Required for Maltodextrin Catabolism in Enterococcus Faecalis Exhibit Novel Activities.” Applied and Environmental Microbiology 83 (13): e00038-17. https://doi.org/10.1128/AEM.00038-17.
Katava, Marina, Guillaume Stirnemann, Marco Zanatta, Simone Capaccioli, Maria Pachetti, K. L. Ngai, Fabio Sterpone, and Alessandro Paciaroni. 2017. “Critical Structural Fluctuations of Proteins upon Thermal Unfolding Challenge the Lindemann Criterion.” Proceedings of the National Academy of Sciences of the United States of America, August. https://doi.org/10.1073/pnas.1707357114.
Katava, Marina, Marco Maccarini, Guillaume Villain, Alessandro Paciaroni, Michael Sztucki, Oxana Ivanova, Dominique Madern, and Fabio Sterpone. 2017. “Thermal Activation of ‘allosteric-like’ Large-Scale Motions in a Eukaryotic Lactate Dehydrogenase.” Scientific Reports 7 (January): 41092. https://doi.org/10.1038/srep41092.
Laurin, Yoann, Joel Eyer, Charles H. Robert, Chantal Prevost, and Sophie Sacquin-Mora. 2017. “Mobility and Core-Protein Binding Patterns of Disordered C-Terminal Tails in β-Tubulin Isotypes.” Biochemistry 56 (12): 1746–56. https://doi.org/10.1021/acs.biochem.6b00988.
Leroy, Magali, Jérémie Piton, Laetitia Gilet, Olivier Pellegrini, Caroline Proux, Jean-Yves Coppée, Sabine Figaro, and Ciarán Condon. 2017. “Rae1/YacP, a New Endoribonuclease Involved in Ribosome-Dependent MRNA Decay in Bacillus Subtilis.” The EMBO Journal 36 (9): 1167–81. https://doi.org/10.15252/embj.201796540.
Lev, Bogdan, Samuel Murail, Frédéric Poitevin, Brett A. Cromer, Marc Baaden, Marc Delarue, and Toby W. Allen. 2017. “String Method Solution of the Gating Pathways for a Pentameric Ligand-Gated Ion Channel.” Proceedings of the National Academy of Sciences of the United States of America 114 (21): E4158–67. https://doi.org/10.1073/pnas.1617567114.
Loiseau, Laurent, Cameron Fyfe, Laurent Aussel, Mahmoud Hajj Chehade, Sara B. Hernández, Bruno Faivre, Djemel Hamdane, et al. 2017. “The UbiK Protein Is an Accessory Factor Necessary for Bacterial Ubiquinone (UQ) Biosynthesis and Forms a Complex with the UQ Biogenesis Factor UbiJ.” The Journal of Biological Chemistry, May. https://doi.org/10.1074/jbc.M117.789164.
Longatte, Guillaume, Fabrice Rappaport, Francis-Andre Wollman, Manon Guille-Collignon, and Frederic Lemaitre. 2017. “Electrochemical Harvesting of Photosynthetic Electrons from Unicellular Algae Population at the Preparative Scale by Using 2,6-Dichlorobenzoquinone.” Electrochimica Acta 236 (May): 327–32. https://doi.org/10.1016/j.electacta.2017.03.124.
Longatte, Guillaume, Manon Guille‐Collignon, and Frédéric Lemaître. 2017. “Electrocatalytic Mechanism Involving Michaelis–Menten Kinetics at the Preparative Scale: Theory and Applicability to Photocurrents from a Photosynthetic Algae Suspension With Quinones.” ChemPhysChem 18 (19): 2643–50. https://doi.org/10.1002/cphc.201700351.
Ma, Miao, Ines Li de la Sierra-Gallay, Noureddine Lazar, Olivier Pellegrini, Dominique Durand, Anita Marchfelder, Ciarán Condon, and Herman van Tilbeurgh. 2017. “The Crystal Structure of Trz1, the Long Form RNase Z from Yeast.” Nucleic Acids Research 45 (10): 6209–16. https://doi.org/10.1093/nar/gkx216.
Ma, Miao, Ines Li de La Sierra Gallay, Noureddine Lazar, Olivier Pellegrini, Jean Lepault, Ciarán Condon, Dominique Durand, and Herman van Tilbeurgh. 2017. “Trz1, the Long Form RNase Z from Yeast, Forms a Stable Heterohexamer with Endonuclease Nuc1 and Mutarotase.” The Biochemical Journal, September. https://doi.org/10.1042/BCJ20170435.
Maes, Alexandre, Céline Gracia, Nicolas Innocenti, Kaiyang Zhang, Erik Aurell, and Eliane Hajnsdorf. 2017. “Landscape of RNA Polyadenylation in E. Coli.” Nucleic Acids Research 45 (5): 2746–56. https://doi.org/10.1093/nar/gkw894.
Man, Viet Hoang, Phuong H. Nguyen, and Philippe Derreumaux. 2017. “High-Resolution Structures of the Amyloid-β 1-42 Dimers from the Comparison of Four Atomistic Force Fields.” The Journal of Physical Chemistry. B 121 (24): 5977–87. https://doi.org/10.1021/acs.jpcb.7b04689.
Martin, Nicolas, Narciso Costa, Frank Wien, Françoise M. Winnik, Céline Ortega, Amaury Herbet, Didier Boquet, and Christophe Tribet. 2017. “Refolding of Aggregation-Prone ScFv Antibody Fragments Assisted by Hydrophobically Modified Poly(Sodium Acrylate) Derivatives.” Macromolecular Bioscience 17 (2). https://doi.org/10.1002/mabi.201600213.
Mazur, Alexey K. 2017. “Weak Nanoscale Chaos and Anomalous Relaxation in DNA.” Physical Review E 95 (6): 062417. https://doi.org/10.1103/PhysRevE.95.062417.
Mazzanti, Liuba, Sébastien Doutreligne, Cedric Gageat, Philippe Derreumaux, Antoine Taly, Marc Baaden, and Samuela Pasquali. 2017. “What Can Human-Guided Simulations Bring to RNA Folding?” Biophysical Journal, June. https://doi.org/10.1016/j.bpj.2017.05.047.
Nawrocki, Wojciech, Benjamin Bailleul, Pierre Cardol, Fabrice Rappaport, Francis-Andre Wollman, and Pierre Joliot. 2017. “Cyclic Electron Flow in Chlamydomonas Reinhardtii.” BioRxiv, June, 153288. https://doi.org/10.1101/153288.
Pérez-Pérez, María Esther, Adeline Mauriès, Alexandre Maes, Nicolas J. Tourasse, Marion Hamon, Stéphane D. Lemaire, and Christophe H. Marchand. 2017. “The Deep Thioredoxome in Chlamydomonas Reinhardtii: New Insights into Redox Regulation.” Molecular Plant 10 (8): 1107–25. https://doi.org/10.1016/j.molp.2017.07.009.
Rahaman, Obaidur, Maria Kalimeri, Marina Katava, Alessandro Paciaroni, and Fabio Sterpone. 2017. “Configurational Disorder of Water Hydrogen-Bond Network at the Protein Dynamical Transition.” The Journal of Physical Chemistry. B 121 (28): 6792–98. https://doi.org/10.1021/acs.jpcb.7b03888.

2016

Angius, Federica, Oana Ilioaia, Marc Uzan, and Bruno Miroux. 2016. “Membrane Protein Production in Escherichia Coli: Protocols and Rules.” In Heterologous Expression of Membrane Proteins, edited by Isabelle Mus-Veteau, 1432:37–52. New York, NY: Springer New York. http://link.springer.com/10.1007/978-1-4939-3637-3_3.
Bergdoll, Lucie, Felix Ten Brink, Wolfgang Nitschke, Daniel Picot, and Frauke Baymann. 2016. “From Low- to High-Potential Bioenergetic Chains: Thermodynamic Constraints of Q-Cycle Function.” Biochimica Et Biophysica Acta 1857 (9): 1569–79. https://doi.org/10.1016/j.bbabio.2016.06.006.
Berger, Hanna, Marcello De Mia, Samuel Morisse, Christophe H. Marchand, Stephane D. Lemaire, Lutz Wobbe, and Olaf Kruse. 2016. “A Light Switch Based on Protein S-Nitrosylation Fine-Tunes Photosynthetic Light Harvesting in Chlamydomonas.” Plant Physiology 171 (2): 821–32. https://doi.org/10.1104/pp.15.01878.
Brandt, Tobias, Laetitia Cavellini, Werner Kuehlbrandt, and Mickael M. Cohen. 2016. “A Mitofusin-Dependent Docking Ring Complex Triggers Mitochondrial Fusion in Vitro.” Elife 5 (June): e14618. https://doi.org/10.7554/eLife.14618.
Brosse, Anaïs, Anna Korobeinikova, Susan Gottesman, and Maude Guillier. 2016. “Unexpected Properties of SRNA Promoters Allow Feedback Control via Regulation of a Two-Component System.” Nucleic Acids Research 44 (20): 9650–66. https://doi.org/10.1093/nar/gkw642.
Caserta, Giorgio, Agnieszka Adamska-Venkatesh, Ludovic Pecqueur, Mohamed Atta, Vincent Artero, Souvik Roy, Edward Reijerse, Wolfgang Lubitz, and Marc Fontecave. 2016. “Chemical Assembly of Multiple Metal Cofactors: The Heterologously Expressed Multidomain [FeFe]-Hydrogenase from Megasphaera Elsdenii.” Biochimica Et Biophysica Acta 1857 (11): 1734–40. https://doi.org/10.1016/j.bbabio.2016.07.002.
Casiraghi, Marina, Marjorie Damian, Ewen Lescop, Elodie Point, Karine Moncoq, Nelly Morellet, Daniel Levy, et al. 2016. “Functional Modulation of a G Protein-Coupled Receptor Conformational Landscape in a Lipid Bilayer.” Journal of the American Chemical Society 138 (35): 11170–75. https://doi.org/10.1021/jacs.6b04432.
Chiricotto, Mara, Thanh Thuy Tran, Phuong H. Nguyen, Simone Melchionna, Fabio Sterpone, and Philippe Derreumaux. 2016. “Coarse-Grained and All-Atom Simulations towards the Early and Late Steps of Amyloid Fibril Formation.” Israel Journal of Chemistry, August, n/a-n/a. https://doi.org/10.1002/ijch.201600048.
Chiricotto, Mara, Fabio Sterpone, Philippe Derreumaux, and Simone Melchionna. 2016. “Multiscale Simulation of Molecular Processes in Cellular Environments.” Philosophical Transactions. Series A, Mathematical, Physical, and Engineering Sciences 374 (2080). https://doi.org/10.1098/rsta.2016.0225.
Chiricotto, Mara, Simone Melchionna, Philippe Derreumaux, and Fabio Sterpone. 2016. “Hydrodynamic Effects on β-Amyloid (16-22) Peptide Aggregation.” The Journal of Chemical Physics 145 (3): 035102. https://doi.org/10.1063/1.4958323.
Dahmane, Narimane, Danièle Gadelle, Stéphane Delmas, Alexis Criscuolo, Stephan Eberhard, Nicole Desnoues, Sylvie Collin, et al. 2016. “TopIb, a Phylogenetic Hallmark Gene of Thaumarchaeota Encodes a Functional Eukaryote-like Topoisomerase IB.” Nucleic Acids Research 44 (6): 2795–2805. https://doi.org/10.1093/nar/gkw097.
Dalier, F., F. Eghiaian, S. Scheuring, E. Marie, and C. Tribet. 2016. “Temperature-Switchable Control of Ligand Display on Adlayers of Mixed Poly(Lysine)-g-(PEO) and Poly(Lysine)-g-(Ligand-Modified Poly-N-Isopropylacrylamide).” Biomacromolecules 17 (5): 1727–36. https://doi.org/10.1021/acs.biomac.6b00136.
DiChiara, Jeanne M., Bo Liu, Sabine Figaro, Ciarán Condon, and David H. Bechhofer. 2016. “Mapping of Internal Monophosphate 5’ Ends of Bacillus Subtilis Messenger RNAs and Ribosomal RNAs in Wild-Type and Ribonuclease-Mutant Strains.” Nucleic Acids Research 44 (7): 3373–89. https://doi.org/10.1093/nar/gkw073.
Fogeron, Thibault, Jean-Philippe Porcher, Maria Gomez-Mingot, Tanya K. Todorova, Lise-Marie Chamoreau, Caroline Mellot-Draznieks, Yun Li, and Marc Fontecave. 2016. “A Cobalt Complex with a Bioinspired Molybdopterin-like Ligand: A Catalyst for Hydrogen Evolution.” Dalton Transactions 45 (37): 14754–63. https://doi.org/10.1039/C6DT01824F.
Fontaine, Fanette, Elise Gasiorowski, Celine Gracia, Mathieu Ballouche, Joel Caillet, Antonin Marchais, and Eliane Hajnsdorf. 2016. “The Small RNA SraG Participates in PNPase Homeostasis.” RNA (New York, N.Y.) 22 (10): 1560–73. https://doi.org/10.1261/rna.055236.115.
Fortunato, Antonio Emidio, Marianne Jaubert, Gen Enomoto, Jean-Pierre Bouly, Raffaella Raniello, Michael Thaler, Shruti Malviya, et al. 2016. “Diatom Phytochromes Reveal the Existence of Far-Red-Light-Based Sensing in the Ocean.” The Plant Cell 28 (3): 616–28. https://doi.org/10.1105/tpc.15.00928.
Frka-Petesic, B., D. Zanchi, N. Martin, S. Carayon, S. Huille, and C. Tribet. 2016. “Aggregation of Antibody Drug Conjugates at Room Temperature: SAXS and Light Scattering Evidence for Colloidal Instability of a Specific Subpopulation.” Langmuir 32 (19): 4848–61. https://doi.org/10.1021/acs.langmuir.6600653.
Goudy, Violaine, Jérôme Maynadié, Xavier Le Goff, Daniel Meyer, and Marc Fontecave. 2016. “Synthesis, Electrochemical and Spectroscopic Properties of Ruthenium( ii ) Complexes Containing 2,6-Di(1H-Imidazo[4,5-f][1,10]Phenanthrolin-2-Yl)Aryl Ligands.” New Journal of Chemistry 40 (2): 1704–14. https://doi.org/10.1039/C5NJ02280K.
Guetle, Desiree D., Thomas Roret, Stefanie J. Mueller, Jeremy Couturier, Stephane D. Lemaire, Arnaud Hecker, Tiphaine Dhalleine, et al. 2016. “Chloroplast FBPase and SBPase Are Thioredoxin-Linked Enzymes with Similar Architecture but Different Evolutionary Histories.” Proceedings of the National Academy of Sciences of the United States of America 113 (24): 6779–84. https://doi.org/10.1073/pnas.1606241113.
Hamdane, Djemel, Christophe Velours, David Cornu, Magali Nicaise, Murielle Lombard, and Marc Fontecave. 2016. “A Chemical Chaperone Induces Inhomogeneous Conformational Changes in Flexible Proteins.” Physical Chemistry Chemical Physics: PCCP 18 (30): 20410–21. https://doi.org/10.1039/c6cp03635j.
Hamdane, Djemel, Henri Grosjean, and Marc Fontecave. 2016. “Flavin-Dependent Methylation of RNAs: Complex Chemistry for a Simple Modification.” Journal of Molecular Biology 428 (24 Pt B): 4867–81. https://doi.org/10.1016/j.jmb.2016.10.031.
Huan, Tran Ngoc, Philippe Simon, Anass Benayad, Laure Guetaz, Vincent Artero, and Marc Fontecave. 2016. “Cu/Cu2O Electrodes and CO2 Reduction to Formic Acid: Effects of Organic Additives on Surface Morphology and Activity.” Chemistry – A European Journal 22 (39): 14029–35. https://doi.org/10.1002/chem.201602618.
Huan, Tran Ngoc, Praveen Prakash, Philippe Simon, Gwenaëlle Rousse, X. Xu, Vincent Artero, Edmond Gravel, Eric Doris, and Marc Fontecave. 2016. “CO2 Reduction to CO in Water: Carbon Nanotube–Gold Nanohybrid as a Selective and Efficient Electrocatalyst.” ChemSusChem 9 (17): 2317–20. https://doi.org/10.1002/cssc.201600597.
Ismail, Alexandre, Vincent Leroux, Myriam Smadja, Lucie Gonzalez, Murielle Lombard, Fabien Pierrel, Caroline Mellot-Draznieks, and Marc Fontecave. 2016. “Coenzyme Q Biosynthesis: Evidence for a Substrate Access Channel in the FAD-Dependent Monooxygenase Coq6.” PLoS Computational Biology 12 (1): e1004690. https://doi.org/10.1371/journal.pcbi.1004690.
Jagodnik, Jonathan, Denis Thieffry, and Maude Guillier. 2016. “Bacterial Small RNAs in Mixed Regulatory Circuits.” In Stress and Environmental Regulation of Gene Expression and Adaptation in Bacteria, edited by Frans J. de Bruijn, 369–82. John Wiley & Sons, Inc. https://doi.org/10.1002/9781119004813.ch33.
Katava, Marina, Maria Kalimeri, Guillaume Stirnemann, and Fabio Sterpone. 2016. “Stability and Function at High Temperature. What Makes a Thermophilic GTPase Different from Its Mesophilic Homologue.” The Journal of Physical Chemistry. B 120 (10): 2721–30. https://doi.org/10.1021/acs.jpcb.6b00306.
Laurent, Benoist, Samuel Murail, Azadeh Shahsavar, Ludovic Sauguet, Marc Delarue, and Marc Baaden. 2016. “Sites of Anesthetic Inhibitory Action on a Cationic Ligand-Gated Ion Channel.” Structure (London, England: 1993) 24 (4): 595–605. https://doi.org/10.1016/j.str.2016.02.014.
Longatte, G., F. Rappaport, F.-A. Wollman, M. Guille-Collignon, and F. Lemaître. 2016. “Mechanism and Analyses for Extracting Photosynthetic Electrons Using Exogenous Quinones – What Makes a Good Extraction Pathway?” Photochemical & Photobiological Sciences: Official Journal of the European Photochemistry Association and the European Society for Photobiology 15 (8): 969–79. https://doi.org/10.1039/c6pp00076b.
Malinge, Jeremy, Fanny Mousseau, Drazen Zanchi, Geoffrey Brun, Christophe Tribet, and Emmanuelle Marie. 2016. “Tailored Stimuli-Responsive Interaction between Particles Adjusted by Straightforward Adsorption of Mixed Layers of Poly(Lysine)-g-PEG and Poly(Lysine)-g-PNIPAM on Anionic Beads.” Journal of Colloid and Interface Science 461 (January): 50–55. https://doi.org/10.1016/j.jcis.2015.09.016.
Mazur, Alexey K. 2016. “Homologous Pairing between Long DNA Double Helices.” Physical Review Letters 116 (15): 158101. https://doi.org/10.1103/PhysRevLett.116.158101.
Nawrocki, Wojciech J., Stefano Santabarbara, Laura Mosebach, Francis-André Wollman, and Fabrice Rappaport. 2016. “State Transitions Redistribute Rather than Dissipate Energy between the Two Photosystems in Chlamydomonas.” Nature Plants 2 (April): 16031. https://doi.org/10.1038/nplants.2016.31.
Nguyen, Phuong H., Fabio Sterpone, Ramon Pouplana, Philippe Derreumaux, and Josep M. Campanera. 2016. “Dimerization Mechanism of Alzheimer Aβ40 Peptides: The High Content of Intrapeptide-Stabilized Conformations in A2V and A2T Heterozygous Dimers Retards Amyloid Fibril Formation.” The Journal of Physical Chemistry. B 120 (47): 12111–26. https://doi.org/10.1021/acs.jpcb.6b10722.
Nguyen, Phuong H., Fabio Sterpone, Josep M. Campanera, Jessica Nasica-Labouze, and Philippe Derreumaux. 2016. “Impact of the A2V Mutation on the Heterozygous and Homozygous Aβ1-40 Dimer Structures from Atomistic Simulations.” ACS Chemical Neuroscience 7 (6): 823–32. https://doi.org/10.1021/acschemneuro.6b00053.
Nilsson, Håkan, Laurent Cournac, Fabrice Rappaport, Johannes Messinger, and Jérôme Lavergne. 2016. “Estimation of the Driving Force for Dioxygen Formation in Photosynthesis.” Biochimica Et Biophysica Acta 1857 (1): 23–33. https://doi.org/10.1016/j.bbabio.2015.09.011.
Pérez-Pérez, María Esther, Stéphane D. Lemaire, and José L. Crespo. 2016. “Control of Autophagy in Chlamydomonas Is Mediated through Redox-Dependent Inactivation of the ATG4 Protease.” Plant Physiology 172 (4): 2219–34. https://doi.org/10.1104/pp.16.01582.
Porcher, Jean-Philippe, Thibault Fogeron, Maria Gomez-Mingot, Lise-Marie Chamoreau, Yun Li, and Marc Fontecave. 2016. “Synthesis and Reactivity of a Bio-Inspired Dithiolene Ligand and Its Mo Oxo Complex.” Chemistry (Weinheim an Der Bergstrasse, Germany) 22 (13): 4447–53. https://doi.org/10.1002/chem.201504373.
Ruiz-Larrabeiti, Olatz, Ander Hernández Plágaro, Celine Gracia, Elena Sevillano, Lucía Gallego, Eliane Hajnsdorf, and Vladimir R. Kaberdin. 2016. “A New Custom Microarray for SRNA Profiling in Escherichia Coli.” FEMS Microbiology Letters 363 (13). https://doi.org/10.1093/femsle/fnw131.
Stadlbauer, Petr, Liuba Mazzanti, Tristan Cragnolini, David J. Wales, Philippe Derreumaux, Samuela Pasquali, and Jiří Šponer. 2016. “Coarse-Grained Simulations Complemented by Atomistic Molecular Dynamics Provide New Insights into Folding and Unfolding of Human Telomeric G-Quadruplexes.” Journal of Chemical Theory and Computation 12 (12): 6077–97. https://doi.org/10.1021/acs.jctc.6b00667.
Takahashi, Hiroko, Stefan Schmollinger, Jae-Hyeok Lee, Michael Schroda, Fabrice Rappaport, Francis-André Wollman, and Olivier Vallon. 2016. “PETO Interacts with Other Effectors of Cyclic Electron Flow in Chlamydomonas.” Molecular Plant 9 (4): 558–68. https://doi.org/10.1016/j.molp.2015.12.017.
Tourasse, Nicolas J., Tommaso Barbi, Janet C. Waterhouse, Nastassia Shtaida, Stefan Leu, Sammy Boussiba, Saul Purton, and Olivier Vallon. 2016. “The Complete Sequence of the Chloroplast Genome of the Green Microalga Lobosphaera (Parietochloris) Incisa.” Mitochondrial DNA. Part A, DNA Mapping, Sequencing, and Analysis 27 (3): 2073–75. https://doi.org/10.3109/19401736.2014.982562.
Tran, Thanh Thuy, Phuong H. Nguyen, and Philippe Derreumaux. 2016. “Lattice Model for Amyloid Peptides: OPEP Force Field Parametrization and Applications to the Nucleus Size of Alzheimer’s Peptides.” The Journal of Chemical Physics 144 (20): 205103. https://doi.org/10.1063/1.4951739.
Verméglio, André, Jérôme Lavergne, and Fabrice Rappaport. 2016. “Connectivity of the Intracytoplasmic Membrane of Rhodobacter Sphaeroides: A Functional Approach.” Photosynthesis Research 127 (1): 13–24. https://doi.org/10.1007/s11120-014-0068-7.
Warnet, Xavier L., Marwa Laadhari, Alexandre A. Arnold, Isabelle Marcotte, and Dror E. Warschawski. 2016. “A (2)H Magic-Angle Spinning Solid-State NMR Characterisation of Lipid Membranes in Intact Bacteria.” Biochimica Et Biophysica Acta 1858 (1): 146–52. https://doi.org/10.1016/j.bbamem.2015.10.020.
Wollman, Francis-André. 2016. “An Antimicrobial Origin of Transit Peptides Accounts for Early Endosymbiotic Events.” Traffic (Copenhagen, Denmark) 17 (12): 1322–28. https://doi.org/10.1111/tra.12446.
Zaffagnini, M., M. De Mia, S. Morisse, N. Di Giacinto, C. H. Marchand, A. Maes, S. D. Lemaire, and P. Trost. 2016. “Protein S-Nitrosylation in Photosynthetic Organisms: A Comprehensive Overview with Future Perspectives.” Biochimica Et Biophysica Acta-Proteins and Proteomics 1864 (8): 952–66. https://doi.org/10.1016/j.bbapap.2016.02.006.
Zambolin, Silvia, Bernard Clantin, Mohamed Chami, Sylviane Hoos, Ahmed Haouz, Vincent Villeret, and Philippe Delepelaire. 2016. “Structural Basis for Haem Piracy from Host Haemopexin by Haemophilus Influenzae.” Nature Communications 7 (May): 11590. https://doi.org/10.1038/ncomms11590.
Zito, Francesca, and Jean Alric. 2016. “Heme Ci or Cn of the Cytochrome B6f Complex, A Short Retrospective.” In Cytochrome Complexes: Evolution, Structures, Energy Transduction, and Signaling, 295–306. Advances in Photosynthesis and Respiration. Springer, Dordrecht. https://doi.org/10.1007/978-94-017-7481-9_15.

2015

Adamska-Venkatesh, Agnieszka, Souvik Roy, Judith F. Siebel, Trevor R. Simmons, Marc Fontecave, Vincent Artero, Edward Reijerse, and Wolfgang Lubitz. 2015. “Spectroscopic Characterization of the Bridging Amine in the Active Site of [FeFe] Hydrogenase Using Isotopologues of the H-Cluster.” Journal of the American Chemical Society 137 (40): 12744–47. https://doi.org/10.1021/jacs.5b06240.
Adamska-Venkatesh, Agnieszka, Trevor R. Simmons, Judith F. Siebel, Vincent Artero, Marc Fontecave, Edward Reijerse, and Wolfgang Lubitz. 2015. “Artificially Maturated [FeFe] Hydrogenase from Chlamydomonas Reinhardtii: A HYSCORE and ENDOR Study of a Non-Natural H-Cluster.” Physical Chemistry Chemical Physics: PCCP 17 (7): 5421–30. https://doi.org/10.1039/c4cp05426a.
Artero, Vincent, Gustav Berggren, Mohamed Atta, Giorgio Caserta, Souvik Roy, Ludovic Pecqueur, and Marc Fontecave. 2015. “From Enzyme Maturation to Synthetic Chemistry: The Case of Hydrogenases.” Accounts of Chemical Research 48 (8): 2380–87. https://doi.org/10.1021/acs.accounts.5b00157.
Bailleul, Benjamin, Nicolas Berne, Omer Murik, Dimitris Petroutsos, Judit Prihoda, Atsuko Tanaka, Valeria Villanova, et al. 2015. “Energetic Coupling between Plastids and Mitochondria Drives CO2 Assimilation in Diatoms.” Nature 524 (7565): 366–69. https://doi.org/10.1038/nature14599.
Banroques, Josette, and N. Kyle Tanner. 2015. “Bioinformatics and Biochemical Methods to Study the Structural and Functional Elements of DEAD-Box RNA Helicases.” Methods in Molecular Biology (Clifton, N.J.) 1259: 165–81. https://doi.org/10.1007/978-1-4939-2214-7_11.
Berthoumieu, Olivia, Phuong H. Nguyen, Maria P. Del Castillo-Frias, Sabrina Ferre, Bogdan Tarus, Jessica Nasica-Labouze, Sabrina Noël, et al. 2015. “Combined Experimental and Simulation Studies Suggest a Revised Mode of Action of the Anti-Alzheimer Disease Drug NQ-Trp.” Chemistry (Weinheim an Der Bergstrasse, Germany) 21 (36): 12657–66. https://doi.org/10.1002/chem.201500888.
Bizebard, Thierry, and Marc Dreyfus. 2015. “A FRET-Based, Continuous Assay for the Helicase Activity of DEAD-Box Proteins.” Methods in Molecular Biology (Clifton, N.J.) 1259: 199–209. https://doi.org/10.1007/978-1-4939-2214-7_13.
Blaby, Ian K., Crysten E. Blaby-Haas, Maria Esther Perez-Perez, Stefan Schmollinger, Sorel Fitz-Gibbon, Stephane D. Lemaire, and Sabeeha S. Merchant. 2015. “Genome-Wide Analysis on Chlamydomonas Reinhardtii Reveals the Impact of Hydrogen Peroxide on Protein Stress Responses and Overlap with Other Stress Transcriptomes.” Plant Journal 84 (5): 974–88. https://doi.org/10.1111/tpj.13053.
Bou-Nader, Charles, Ludovic Pecqueur, Damien Bregeon, Amina Kamah, Vincent Guérineau, Béatrice Golinelli-Pimpaneau, Beatriz G. Guimarães, Marc Fontecave, and Djemel Hamdane. 2015. “An Extended DsRBD Is Required for Post-Transcriptional Modification in Human TRNAs.” Nucleic Acids Research 43 (19): 9446–56. https://doi.org/10.1093/nar/gkv989.
Boulouis, Alix, Dominique Drapier, Hélène Razafimanantsoa, Katia Wostrikoff, Nicolas J. Tourasse, Kevin Pascal, Jacqueline Girard-Bascou, Olivier Vallon, Francis-André Wollman, and Yves Choquet. 2015. “Spontaneous Dominant Mutations in Chlamydomonas Highlight Ongoing Evolution by Gene Diversification.” The Plant Cell 27 (4): 984–1001. https://doi.org/10.1105/tpc.15.00010.
Bourgeron, Thibault, Zhou Xu, Marie Doumic, and Maria Teresa Teixeira. 2015. “The Asymmetry of Telomere Replication Contributes to Replicative Senescence Heterogeneity.” Scientific Reports 5 (October): 15326. https://doi.org/10.1038/srep15326.
Boyer, Benjamin, Johann Ezelin, Pierre Poulain, Adrien Saladin, Martin Zacharias, Charles H. Robert, and Chantal Prévost. 2015. “An Integrative Approach to the Study of Filamentous Oligomeric Assemblies, with Application to RecA.” PloS One 10 (3): e0116414. https://doi.org/10.1371/journal.pone.0116414.
Bréchemier-Baey, Dominique, Lenin Domínguez-Ramírez, Jacques Oberto, and Jacqueline Plumbridge. 2015. “Operator Recognition by the ROK Transcription Factor Family Members, NagC and Mlc.” Nucleic Acids Research 43 (1): 361–72. https://doi.org/10.1093/nar/gku1265.
Caserta, Giorgio, Souvik Roy, Mohamed Atta, Vincent Artero, and Marc Fontecave. 2015. “Artificial Hydrogenases: Biohybrid and Supramolecular Systems for Catalytic Hydrogen Production or Uptake.” Current Opinion in Chemical Biology 25 (April): 36–47. https://doi.org/10.1016/j.cbpa.2014.12.018.
Chakraborty, Debashree, Antoine Taly, and Fabio Sterpone. 2015. “Stay Wet, Stay Stable? How Internal Water Helps the Stability of Thermophilic Proteins.” The Journal of Physical Chemistry. B 119 (40): 12760–70. https://doi.org/10.1021/acs.jpcb.5b05791.
Chambers, Matthew B., Xia Wang, Noémie Elgrishi, Christopher H. Hendon, Aron Walsh, Jonathan Bonnefoy, Jérôme Canivet, et al. 2015. “Photocatalytic Carbon Dioxide Reduction with Rhodium‐based Catalysts in Solution and Heterogenized within Metal–Organic Frameworks.” ChemSusChem 8 (4): 603–8. https://doi.org/10.1002/cssc.201403345.
Clowez, Sophie, Damien Godaux, Pierre Cardol, Francis-André Wollman, and Fabrice Rappaport. 2015. “The Involvement of Hydrogen-Producing and ATP-Dependent NADPH-Consuming Pathways in Setting the Redox Poise in the Chloroplast of Chlamydomonas Reinhardtii in Anoxia.” The Journal of Biological Chemistry 290 (13): 8666–76. https://doi.org/10.1074/jbc.M114.632588.
Condon, Ciarán. 2015. “Airpnp: Auto- and Integrated Regulation of Polynucleotide Phosphorylase.” Journal of Bacteriology 197 (24): 3748–50. https://doi.org/10.1128/JB.00794-15.
Cragnolini, Tristan, Philippe Derreumaux, and Samuela Pasquali. 2015. “Ab Initio RNA Folding.” Journal of Physics. Condensed Matter: An Institute of Physics Journal 27 (23): 233102. https://doi.org/10.1088/0953-8984/27/23/233102.
Cragnolini, Tristan, Yoann Laurin, Philippe Derreumaux, and Samuela Pasquali. 2015. “Coarse-Grained HiRE-RNA Model for Ab Initio RNA Folding beyond Simple Molecules, Including Noncanonical and Multiple Base Pairings.” Journal of Chemical Theory and Computation 11 (7): 3510–22. https://doi.org/10.1021/acs.jctc.5b00200.
Cubellis, Maria Vittoria, Marc Baaden, and Giuseppina Andreotti. 2015. “Taming Molecular Flexibility to Tackle Rare Diseases.” Biochimie 113 (June): 54–58. https://doi.org/10.1016/j.biochi.2015.03.018.
Damodaran, Shima P., Stephan Eberhard, Laurent Boitard, Jairo Garnica Rodriguez, Yuxing Wang, Nicolas Bremond, Jean Baudry, Jérôme Bibette, and Francis-André Wollman. 2015. “A Millifluidic Study of Cell-to-Cell Heterogeneity in Growth-Rate and Cell-Division Capability in Populations of Isogenic Cells of Chlamydomonas Reinhardtii.” PloS One 10 (3): e0118987. https://doi.org/10.1371/journal.pone.0118987.
Danilowicz, Claudia, Darren Yang, Craig Kelley, Chantal Prévost, and Mara Prentiss. 2015. “The Poor Homology Stringency in the Heteroduplex Allows Strand Exchange to Incorporate Desirable Mismatches without Sacrificing Recognition in Vivo.” Nucleic Acids Research 43 (13): 6473–85. https://doi.org/10.1093/nar/gkv610.
Doig, Andrew J., and Philippe Derreumaux. 2015. “Inhibition of Protein Aggregation and Amyloid Formation by Small Molecules.” Current Opinion in Structural Biology 30 (February): 50–56. https://doi.org/10.1016/j.sbi.2014.12.004.
Durand, Sylvain, Frédérique Braun, Efthimia Lioliou, Cédric Romilly, Anne-Catherine Helfer, Laurianne Kuhn, Noé Quittot, Pierre Nicolas, Pascale Romby, and Ciarán Condon. 2015. “A Nitric Oxide Regulated Small RNA Controls Expression of Genes Involved in Redox Homeostasis in Bacillus Subtilis.” PLoS Genetics 11 (2): e1004957. https://doi.org/10.1371/journal.pgen.1004957.
Durand, Sylvain, Arnaud Tomasini, Frédérique Braun, Ciarán Condon, and Pascale Romby. 2015. “SRNA and MRNA Turnover in Gram-Positive Bacteria.” FEMS Microbiology Reviews 39 (3): 316–30. https://doi.org/10.1093/femsre/fuv007.
Elgrishi, Noémie, Sophie Griveau, Matthew B. Chambers, Fethi Bedioui, and Marc Fontecave. 2015. “Versatile Functionalization of Carbon Electrodes with a Polypyridine Ligand: Metallation and Electrocatalytic H+ and CO2 Reduction.” Chemical Communications 51 (14): 2995–98. https://doi.org/10.1039/C4CC10027A.
Elgrishi, Noémie, Matthew B. Chambers, and Marc Fontecave. 2015. “Turning It off! Disfavouring Hydrogen Evolution to Enhance Selectivity for CO Production during Homogeneous CO 2 Reduction by Cobalt–Terpyridine Complexes.” Chemical Science 6 (4): 2522–31. https://doi.org/10.1039/C4SC03766A.
Gilet, Laetitia, Jeanne M. DiChiara, Sabine Figaro, David H. Bechhofer, and Ciarán Condon. 2015. “Small Stable RNA Maturation and Turnover in Bacillus Subtilis.” Molecular Microbiology 95 (2): 270–82. https://doi.org/10.1111/mmi.12863.
Giusti, Fabrice, Pascal Kessler, Randi Westh Hansen, Eduardo Antonio Della Pia, Christel Le Bon, Gilles Mourier, Jean-Luc Popot, Karen Laurence Martinez, and Manuela Zoonens. 2015. “Synthesis of a Polyhistidine-Bearing Amphipol and Its Use for Immobilizing Membrane Proteins.” Biomacromolecules, October. https://doi.org/10.1021/acs.biomac.5b01010.
Hamdane, Djemel, Charles Bou-Nader, David Cornu, Gaston Hui-Bon-Hoa, and Marc Fontecave. 2015. “Flavin-Protein Complexes: Aromatic Stacking Assisted by a Hydrogen Bond.” Biochemistry 54 (28): 4354–64. https://doi.org/10.1021/acs.biochem.5b00501.
Hattab, Georges, Dror E. Warschawski, Karine Moncoq, and Bruno Miroux. 2015. “Escherichia Coli as Host for Membrane Protein Structure Determination: A Global Analysis.” Scientific Reports 5 (July): 12097. https://doi.org/10.1038/srep12097.
Hotto, Amber M., Benoît Castandet, Laetitia Gilet, Andrea Higdon, Ciarán Condon, and David B. Stern. 2015. “Arabidopsis Chloroplast Mini-Ribonuclease III Participates in RRNA Maturation and Intron Recycling.” The Plant Cell 27 (3): 724–40. https://doi.org/10.1105/tpc.114.134452.
Huan, Tran Ngoc, Eugen S. Andreiadis, Jonathan Heidkamp, Philippe Simon, Etienne Derat, Saioa Cobo, Guy Royal, et al. 2015. “From Molecular Copper Complexes to Composite Electrocatalytic Materials for Selective Reduction of CO2 to Formic Acid.” Journal of Materials Chemistry A 3 (7): 3901–7. https://doi.org/10.1039/C4TA07022D.
Indrisiunaite, Gabriele, Michael Y. Pavlov, Valérie Heurgué-Hamard, and Måns Ehrenberg. 2015. “On the PH Dependence of Class-1 RF-Dependent Termination of MRNA Translation.” Journal of Molecular Biology 427 (9): 1848–60. https://doi.org/10.1016/j.jmb.2015.01.007.
Jalal, Abdullah, Christian Schwarz, Christian Schmitz-Linneweber, Olivier Vallon, Jörg Nickelsen, and Alexandra-Viola Bohne. 2015. “A Small Multifunctional Pentatricopeptide Repeat Protein in the Chloroplast of Chlamydomonas Reinhardtii.” Molecular Plant 8 (3): 412–26. https://doi.org/10.1016/j.molp.2014.11.019.
Kalimeri, Maria, Philippe Derreumaux, and Fabio Sterpone. 2015. “Are Coarse-Grained Models Apt to Detect Protein Thermal Stability? The Case of OPEP Force Field.” Journal of Non-Crystalline Solids 407 (January): 494–501. https://doi.org/10.1016/j.jnoncrysol.2014.07.005.
Laurent, Benoist, Matthieu Chavent, Tristan Cragnolini, Anna Caroline E. Dahl, Samuela Pasquali, Philippe Derreumaux, Mark S. P. Sansom, and Marc Baaden. 2015. “Epock: Rapid Analysis of Protein Pocket Dynamics.” Bioinformatics (Oxford, England) 31 (9): 1478–80. https://doi.org/10.1093/bioinformatics/btu822.
Laurin, Yoann, Philippe Savarin, Charles H. Robert, Masayuki Takahashi, Joel Eyer, Chantal Prevost, and Sophie Sacquin-Mora. 2015. “Investigating the Structural Variability and Binding Modes of the Glioma Targeting NFL-TBS.40-63 Peptide on Tubulin.” Biochemistry 54 (23): 3660–69. https://doi.org/10.1021/acs.biochem.5b00146.
Longatte, Guillaume, Han-Yi Fu, Olivier Buriez, Eric Labbé, Francis-André Wollman, Christian Amatore, Fabrice Rappaport, Manon Guille-Collignon, and Frédéric Lemaître. 2015. “Evaluation of Photosynthetic Electrons Derivation by Exogenous Redox Mediators.” Biophysical Chemistry 205 (October): 1–8. https://doi.org/10.1016/j.bpc.2015.05.003.
Martin, Nicolas, Juliette Ruchmann, and Christophe Tribet. 2015. “Prevention of Aggregation and Renaturation of Carbonic Anhydrase via Weak Association with Octadecyl- or Azobenzene-Modified Poly(Acrylate) Derivatives.” Langmuir 31 (1): 338–49. https://doi.org/10.1021/la503643q.
Mazur, Alexey K., and D. L. Shepelyansky. 2015. “Algebraic Statistics of Poincaré Recurrences in a DNA Molecule.” Physical Review Letters 115 (18): 188104. https://doi.org/10.1103/PhysRevLett.115.188104.
Moraga-Cid, Gustavo, Ludovic Sauguet, Christèle Huon, Laurie Malherbe, Christine Girard-Blanc, Stéphane Petres, Samuel Murail, et al. 2015. “Allosteric and Hyperekplexic Mutant Phenotypes Investigated on an Α1 Glycine Receptor Transmembrane Structure.” Proceedings of the National Academy of Sciences of the United States of America 112 (9): 2865–70. https://doi.org/10.1073/pnas.1417864112.
Nasica-Labouze, Jessica, Phuong H. Nguyen, Fabio Sterpone, Olivia Berthoumieu, Nicolae-Viorel Buchete, Sébastien Coté, Alfonso De Simone, et al. 2015. “Amyloid β Protein and Alzheimer’s Disease: When Computer Simulations Complement Experimental Studies.” Chemical Reviews 115 (9): 3518–63. https://doi.org/10.1021/cr500638n.
Nawrocki, Wojciech J., Nicolas J. Tourasse, Antoine Taly, Fabrice Rappaport, and Francis-André Wollman. 2015. “The Plastid Terminal Oxidase: Its Elusive Function Points to Multiple Contributions to Plastid Physiology.” Annual Review of Plant Biology 66: 49–74. https://doi.org/10.1146/annurev-arplant-043014-114744.
Ozeir, Mohammad, Ludovic Pelosi, Alexandre Ismail, Caroline Mellot-Draznieks, Marc Fontecave, and Fabien Pierrel. 2015. “Coq6 Is Responsible for the C4-Deamination Reaction in Coenzyme Q Biosynthesis in Saccharomyces Cerevisiae.” The Journal of Biological Chemistry 290 (40): 24140–51. https://doi.org/10.1074/jbc.M115.675744.
Pérez, Serge, Thibault Tubiana, Anne Imberty, and Marc Baaden. 2015. “Three-Dimensional Representations of Complex Carbohydrates and Polysaccharides–SweetUnityMol: A Video Game-Based Computer Graphic Software.” Glycobiology 25 (5): 483–91. https://doi.org/10.1093/glycob/cwu133.
Plumbridge, Jacqueline. 2015. “Regulation of the Utilization of Amino Sugars by Escherichia Coli and Bacillus Subtilis: Same Genes, Different Control.” Journal of Molecular Microbiology and Biotechnology 25 (2–3): 154–67. https://doi.org/10.1159/000369583.
Porcher, Jean-Philippe, Thibault Fogeron, Maria Gomez-Mingot, Etienne Derat, Lise-Marie Chamoreau, Yun Li, and Marc Fontecave. 2015. “A Bioinspired Molybdenum Complex as a Catalyst for the Photo- and Electroreduction of Protons.” Angewandte Chemie (International Ed. in English) 54 (47): 14090–93. https://doi.org/10.1002/anie.201505607.
Rahaman, Obaidur, Maria Kalimeri, Simone Melchionna, Jérôme Hénin, and Fabio Sterpone. 2015. “Role of Internal Water on Protein Thermal Stability: The Case of Homologous G Domains.” The Journal of Physical Chemistry. B 119 (29): 8939–49. https://doi.org/10.1021/jp507571u.

2014

Aussel, Laurent, Fabien Pierrel, Laurent Loiseau, Murielle Lombard, Marc Fontecave, and Frédéric Barras. 2014. “Biosynthesis and Physiology of Coenzyme Q in Bacteria.” Biochimica Et Biophysica Acta 1837 (7): 1004–11. https://doi.org/10.1016/j.bbabio.2014.01.015.
Benbahouche, Nour El Houda, Ioannis Iliopoulos, István Török, Joachim Marhold, Julien Henri, Andrey V. Kajava, Robert Farkaš, et al. 2014. “Drosophila Spag Is the Homolog of RNA Polymerase II-Associated Protein 3 (RPAP3) and Recruits the Heat Shock Proteins 70 and 90 (Hsp70 and Hsp90) during the Assembly of Cellular Machineries.” The Journal of Biological Chemistry 289 (9): 6236–47. https://doi.org/10.1074/jbc.M113.499608.
Boudry, P., C. Gracia, M. Monot, J. Caillet, L. Saujet, E. Hajnsdorf, B. Dupuy, I. Martin-Verstraete, and O. Soutourina. 2014. “Pleiotropic Role of the RNA Chaperone Protein Hfq in the Human Pathogen Clostridium Difficile.” Journal of Bacteriology 196 (18): 3234–48. https://doi.org/10.1128/JB.01923-14.
Caillet, Joel, Céline Gracia, Fanette Fontaine, and Eliane Hajnsdorf. 2014. “Clostridium Difficile Hfq Can Replace Escherichia Coli Hfq for Most of Its Function.” RNA (New York, N.Y.) 20 (10): 1567–78. https://doi.org/10.1261/rna.043372.113.
Catoire, Laurent J., Xavier L. Warnet, and Dror E. Warschawski. 2014. “Micelles, Bicelles, Amphipols, Nanodiscs, Liposomes, or Intact Cells: The Hitchhiker’s Guide to the Study of Membrane Proteins by NMR.” In Membrane Proteins Production for Structural Analysis, edited by Isabelle Mus-Veteau, 315–45. Springer New York. http://link.springer.com/chapter/10.1007/978-1-4939-0662-8_12.
Delan-Forino, Clementine, Jules Deforges, Lionel Benard, Bruno Sargueil, Marie-Christine Maurel, and Claire Torchet. 2014. “Structural Analyses of Avocado Sunblotch Viroid Reveal Differences in the Folding of Plus and Minus RNA Strands.” Viruses-Basel 6 (2): 489–506. https://doi.org/10.3390/v6020489.
Della Pia, Eduardo Antonio, Randi Westh Hansen, Manuela Zoonens, and Karen L. Martinez. 2014. “Functionalized Amphipols: A Versatile Toolbox Suitable for Applications of Membrane Proteins in Synthetic Biology.” The Journal of Membrane Biology 247 (9–10): 815–26. https://doi.org/10.1007/s00232-014-9663-y.
Della Pia, Eduardo Antonio, Jeppe V. Holm, Noemie Lloret, Christel Le Bon, Jean-Luc Popot, Manuela Zoonens, Jesper Nygård, and Karen Laurence Martinez. 2014. “A Step Closer to Membrane Protein Multiplexed Nanoarrays Using Biotin-Doped Polypyrrole.” ACS Nano 8 (2): 1844–53. https://doi.org/10.1021/nn406252h.
Dreher, Matthieu, Jessica Prevoteau-Jonquet, Mikael Trellet, Marc Piuzzi, Marc Baaden, Bruno Raffin, Nicolas Ferey, Sophie Robert, and Sébastien Limet. 2014. “ExaViz: A Flexible Framework to Analyse, Steer and Interact with Molecular Dynamics Simulations.” Faraday Discussions 169: 119–42. https://doi.org/10.1039/c3fd00142c.
Elgrishi, Noemie, Matthew B. Chambers, Vincent Artero, and Marc Fontecave. 2014. “Terpyridine Complexes of First Row Transition Metals and Electrochemical Reduction of CO2 to CO.” Physical Chemistry Chemical Physics 16 (27): 13635–44. https://doi.org/10.1039/c4cp00451e.
Eric Feinstein, H., Delia Tifrea, Guifeng Sun, Jean-Luc Popot, Luis M. de la Maza, and Melanie J. Cocco. 2014. “Long-Term Stability of a Vaccine Formulated with the Amphipol-Trapped Major Outer Membrane Protein from Chlamydia Trachomatis.” The Journal of Membrane Biology 247 (9–10): 1053–65. https://doi.org/10.1007/s00232-014-9693-5.
Fallet, Emilie, Pascale Jolivet, Julien Soudet, Michael Lisby, Eric Gilson, and Maria Teresa Teixeira. 2014. “Length-Dependent Processing of Telomeres in the Absence of Telomerase.” Nucleic Acids Research 42 (6): 3648–65. https://doi.org/10.1093/nar/gkt1328.
Fernandez, A., C. Le Bon, N. Baumlin, F. Giusti, G. Crémel, J.-L. Popot, and D. Bagnard. 2014. “In Vivo Characterization of the Biodistribution Profile of Amphipol A8-35.” The Journal of Membrane Biology 247 (9–10): 1043–51. https://doi.org/10.1007/s00232-014-9682-8.
Ferrandez, Yann, Manuela Dezi, Mickael Bosco, Agathe Urvoas, Marie Valerio-Lepiniec, Christel Le Bon, Fabrice Giusti, et al. 2014. “Amphipol-Mediated Screening of Molecular Orthoses Specific for Membrane Protein Targets.” The Journal of Membrane Biology 247 (9–10): 925–40. https://doi.org/10.1007/s00232-014-9707-3.
Gaugué, Isabelle, Jacques Oberto, and Jacqueline Plumbridge. 2014. “Regulation of Amino Sugar Utilization in Bacillus Subtilis by the GntR Family Regulators, NagR and GamR.” Molecular Microbiology 92 (1): 100–115. https://doi.org/10.1111/mmi.12544.
Giusti, Fabrice, Jutta Rieger, Laurent J. Catoire, Shuo Qian, Antonio N. Calabrese, Thomas G. Watkinson, Marina Casiraghi, Sheena E. Radford, Alison E. Ashcroft, and Jean-Luc Popot. 2014. “Synthesis, Characterization and Applications of a Perdeuterated Amphipol.” The Journal of Membrane Biology 247 (9–10): 909–24. https://doi.org/10.1007/s00232-014-9656-x.
Hamdane, Djemel, Amandine Guelorget, Vincent Guérineau, and Béatrice Golinelli-Pimpaneau. 2014. “Dynamics of RNA Modification by a Multi-Site-Specific TRNA Methyltransferase.” Nucleic Acids Research 42 (18): 11697–706. https://doi.org/10.1093/nar/gku820.
Hattab, Georges, Annabelle Y. T. Suisse, Oana Ilioaia, Marina Casiraghi, Manuela Dezi, Xavier L. Warnet, Dror E. Warschawski, Karine Moncoq, Manuela Zoonens, and Bruno Miroux. 2014. “Membrane Protein Production in Escherichia Coli: Overview and Protocols.” In Membrane Proteins Production for Structural Analysis, edited by Isabelle Mus-Veteau, 87–106. Springer New York. http://link.springer.com/chapter/10.1007/978-1-4939-0662-8_4.
Hirst, Jonathan D., David R. Glowacki, and Marc Baaden. 2014. “Molecular Simulations and Visualization: Introduction and Overview.” Faraday Discussions 169: 9–22. https://doi.org/10.1039/c4fd90024c.
Jamalli, Ailar, Agnès Hébert, Léna Zig, and Harald Putzer. 2014. “Control of Expression of the RNases J1 and J2 in Bacillus Subtilis.” Journal of Bacteriology 196 (2): 318–24. https://doi.org/10.1128/JB.01053-13.
Johnson, Xenie, Janina Steinbeck, Rachel M. Dent, Hiroko Takahashi, Pierre Richaud, Shin-Ichiro Ozawa, Laura Houille-Vernes, et al. 2014. “Proton Gradient Regulation 5-Mediated Cyclic Electron Flow under ATP- or Redox-Limited Conditions: A Study of ΔATpase Pgr5 and ΔrbcL Pgr5 Mutants in the Green Alga Chlamydomonas Reinhardtii.” Plant Physiology 165 (1): 438–52. https://doi.org/10.1104/pp.113.233593.
Kalimeri, Maria, Eric Girard, Dominique Madern, and Fabio Sterpone. 2014. “Interface Matters: The Stiffness Route to Stability of a Thermophilic Tetrameric Malate Dehydrogenase.” PloS One 9 (12): e113895. https://doi.org/10.1371/journal.pone.0113895.
Laalami, Soumaya, Léna Zig, and Harald Putzer. 2014. “Initiation of MRNA Decay in Bacteria.” Cellular and Molecular Life Sciences: CMLS 71 (10): 1799–1828. https://doi.org/10.1007/s00018-013-1472-4.
Le Bon, Christel, Eduardo Antonio Della Pia, Fabrice Giusti, Noémie Lloret, Manuela Zoonens, Karen L. Martinez, and Jean-Luc Popot. 2014. “Synthesis of an Oligonucleotide-Derivatized Amphipol and Its Use to Trap and Immobilize Membrane Proteins.” Nucleic Acids Research 42 (10): e83. https://doi.org/10.1093/nar/gku250.
Le Bon, Christel, Jean-Luc Popot, and Fabrice Giusti. 2014. “Labeling and Functionalizing Amphipols for Biological Applications.” The Journal of Membrane Biology 247 (9–10): 797–814. https://doi.org/10.1007/s00232-014-9655-y.
Létoquart, Juliette, Emmeline Huvelle, Ludivine Wacheul, Gabrielle Bourgeois, Christiane Zorbas, Marc Graille, Valérie Heurgué-Hamard, and Denis L. J. Lafontaine. 2014. “Structural and Functional Studies of Bud23-Trm112 Reveal 18S RRNA N7-G1575 Methylation Occurs on Late 40S Precursor Ribosomes.” Proceedings of the National Academy of Sciences of the United States of America 111 (51): E5518-5526. https://doi.org/10.1073/pnas.1413089111.
Ma, Dewang, Nicolas Martin, Christophe Tribet, and Francoise M. Winnik. 2014. “Quantitative Characterization by Asymmetrical Flow Field-Flow Fractionation of IgG Thermal Aggregation with and without Polymer Protective Agents.” Analytical and Bioanalytical Chemistry 406 (29): 7539–47. https://doi.org/10.1007/s00216-014-8200-2.
Malnoë, Alizée, Fei Wang, Jacqueline Girard-Bascou, Francis-André Wollman, and Catherine de Vitry. 2014. “Thylakoid FtsH Protease Contributes to Photosystem II and Cytochrome B6f Remodeling in Chlamydomonas Reinhardtii under Stress Conditions.” The Plant Cell 26 (1): 373–90. https://doi.org/10.1105/tpc.113.120113.
Marie, E., S. Sagan, S. Cribier, and C. Tribet. 2014. “Amphiphilic Macromolecules on Cell Membranes: From Protective Layers to Controlled Permeabilization.” Journal of Membrane Biology 247 (9–10): 861–81. https://doi.org/10.1007/s00232-014-9679-3.
Martin, Nicolas, Dewang Ma, Amaury Herbet, Didier Boquet, Francoise M. Winnik, and Christophe Tribet. 2014. “Prevention of Thermally Induced Aggregation of IgG Antibodies by Noncovalent Interaction with Poly(Acrylate) Derivatives.” Biomacromolecules 15 (8): 2952–62. https://doi.org/10.1021/bm5005756.
Molza, A.-E., N. Férey, M. Czjzek, E. Le Rumeur, J.-F. Hubert, A. Tek, B. Laurent, M. Baaden, and O. Delalande. 2014. “Innovative Interactive Flexible Docking Method for Multi-Scale Reconstruction Elucidates Dystrophin Molecular Assembly.” Faraday Discussions 169: 45–62. https://doi.org/10.1039/c3fd00134b.
Morisse, Samuel, Mirko Zaffagnini, Xing-Huang Gao, Stephane D. Lemaire, and Christophe H. Marchand. 2014. “Insight into Protein S-Nitrosylation in Chlamydomonas Reinhardtii.” Antioxidants & Redox Signaling 21 (9): 1271–84. https://doi.org/10.1089/ars.2013.5632.
Morisse, Samuel, Laure Michelet, Mariette Bedhomme, Christophe H. Marchand, Matteo Calvaresi, Paolo Trost, Simona Fermani, Mirko Zaffagnini, and Stephane D. Lemaire. 2014. “Thioredoxin- Dependent Redox Regulation of Chloroplastic Phosphoglycerate Kinase from Chlamydomonas Reinhardtii.” Journal of Biological Chemistry 289 (43): 30012–24. https://doi.org/10.1074/jbc.M114.597997.
Nguyen, Phuong H., Bogdan Tarus, and Philippe Derreumaux. 2014. “Familial Alzheimer A2 V Mutation Reduces the Intrinsic Disorder and Completely Changes the Free Energy Landscape of the Aβ1-28 Monomer.” The Journal of Physical Chemistry. B 118 (2): 501–10. https://doi.org/10.1021/jp4115404.
Nguyen, Phuong H., Mai Suan Li, and Philippe Derreumaux. 2014. “Amyloid Oligomer Structure Characterization from Simulations: A General Method.” The Journal of Chemical Physics 140 (9): 094105. https://doi.org/10.1063/1.4866902.
Nilsson, Håkan, Fabrice Rappaport, Alain Boussac, and Johannes Messinger. 2014. “Substrate-Water Exchange in Photosystem II Is Arrested before Dioxygen Formation.” Nature Communications 5 (July): 4305. https://doi.org/10.1038/ncomms5305.
Opačić, Milena, Fabrice Giusti, Jean-Luc Popot, and Jaap Broos. 2014. “Isolation of Escherichia Coli Mannitol Permease, EII(Mtl), Trapped in Amphipol A8-35 and Fluorescein-Labeled A8-35.” The Journal of Membrane Biology 247 (9–10): 1019–30. https://doi.org/10.1007/s00232-014-9691-7.
Opačić, Milena, Grégory Durand, Michael Bosco, Ange Polidori, and Jean-Luc Popot. 2014. “Amphipols and Photosynthetic Light-Harvesting Pigment-Protein Complexes.” The Journal of Membrane Biology 247 (9–10): 1031–41. https://doi.org/10.1007/s00232-014-9712-6.
Oteri, Francesco, Alexandre Ciaccafava, Anne de Poulpiquet, Marc Baaden, Elisabeth Lojou, and Sophie Sacquin-Mora. 2014. “The Weak, Fluctuating, Dipole Moment of Membrane-Bound Hydrogenase from Aquifex Aeolicus Accounts for Its Adaptability to Charged Electrodes.” Physical Chemistry Chemical Physics: PCCP 16 (23): 11318–22. https://doi.org/10.1039/c4cp00510d.
Oteri, Francesco, Marc Baaden, Elisabeth Lojou, and Sophie Sacquin-Mora. 2014. “Multiscale Simulations Give Insight into the Hydrogen in and out Pathways of [NiFe]-Hydrogenases from Aquifex Aeolicus and Desulfovibrio Fructosovorans.” The Journal of Physical Chemistry. B 118 (48): 13800–811. https://doi.org/10.1021/jp5089965.
Perez-Martin, Marta, Maria Esther Perez-Perez, Stephane D. Lemaire, and Jose L. Crespo. 2014. “Oxidative Stress Contributes to Autophagy Induction in Response to Endoplasmic Reticulum Stress in Chlamydomonas Reinhardtii.” Plant Physiology 166 (2): 997-U829. https://doi.org/10.1104/pp.114.243659.
Perez-Perez, Maria Esther, Mirko Zaffagnini, Christophe H. Marchand, Jose L. Crespo, and Stephane D. Lemaire. 2014. “The Yeast Autophagy Protease Atg4 Is Regulated by Thioredoxin.” Autophagy 10 (11): 1953–64. https://doi.org/10.4161/auto.34396.
Planchard, Noelya, Elodie Point, Tassadite Dahmane, Fabrice Giusti, Marie Renault, Christel Le Bon, Grégory Durand, et al. 2014. “The Use of Amphipols for Solution NMR Studies of Membrane Proteins: Advantages and Constraints as Compared to Other Solubilizing Media.” The Journal of Membrane Biology 247 (9–10): 827–42. https://doi.org/10.1007/s00232-014-9654-z.
Plumbridge, Jacqueline, Lionello Bossi, Jacques Oberto, Joseph T. Wade, and Nara Figueroa-Bossi. 2014. “Interplay of Transcriptional and Small RNA-Dependent Control Mechanisms Regulates Chitosugar Uptake in Escherichia Coli and Salmonella.” Molecular Microbiology 92 (4): 648–58. https://doi.org/10.1111/mmi.12573.
Polovinkin, V., I. Gushchin, M. Sintsov, E. Round, T. Balandin, P. Chervakov, V. Schevchenko, et al. 2014. “High-Resolution Structure of a Membrane Protein Transferred from Amphipol to a Lipidic Mesophase.” The Journal of Membrane Biology 247 (9–10): 997–1004. https://doi.org/10.1007/s00232-014-9700-x.
Polovinkin, V., T. Balandin, O. Volkov, E. Round, V. Borshchevskiy, P. Utrobin, D. von Stetten, et al. 2014. “Nanoparticle Surface-Enhanced Raman Scattering of Bacteriorhodopsin Stabilized by Amphipol A8-35.” The Journal of Membrane Biology 247 (9–10): 971–80. https://doi.org/10.1007/s00232-014-9701-9.
Senissar, Meriem, Agnès Le Saux, Naïma Belgareh-Touzé, Céline Adam, Josette Banroques, and N. Kyle Tanner. 2014. “The DEAD-Box Helicase Ded1 from Yeast Is an MRNP Cap-Associated Protein That Shuttles between the Cytoplasm and Nucleus.” Nucleic Acids Research 42 (15): 10005–22. https://doi.org/10.1093/nar/gku584.
Soudet, Julien, Pascale Jolivet, and Maria Teresa Teixeira. 2014. “Elucidation of the DNA End-Replication Problem in Saccharomyces Cerevisiae.” Molecular Cell 53 (6): 954–64. https://doi.org/10.1016/j.molcel.2014.02.030.
Sterpone, Fabio, Simone Melchionna, Pierre Tuffery, Samuela Pasquali, Normand Mousseau, Tristan Cragnolini, Yassmine Chebaro, et al. 2014. “The OPEP Protein Model: From Single Molecules, Amyloid Formation, Crowding and Hydrodynamics to DNA/RNA Systems.” Chemical Society Reviews 43 (13): 4871–93. https://doi.org/10.1039/c4cs00048j.
Sugiura, Miwa, Yui Ozaki, Masato Nakamura, Nicholas Cox, Fabrice Rappaport, and Alain Boussac. 2014. “The D1-173 Amino Acid Is a Structural Determinant of the Critical Interaction between D1-Tyr161 (TyrZ) and D1-His190 in Photosystem II.” Biochimica Et Biophysica Acta 1837 (12): 1922–31. https://doi.org/10.1016/j.bbabio.2014.08.008.

2013

Baaden, Marc, and Siewert J. Marrink. 2013. “Coarse-Grain Modelling of Protein-Protein Interactions.” Current Opinion in Structural Biology 23 (6): 878–86. https://doi.org/10.1016/j.sbi.2013.09.004.
Cragnolini, Tristan, Philippe Derreumaux, and Samuela Pasquali. 2013. “Coarse-Grained Simulations of RNA and DNA Duplexes.” The Journal of Physical Chemistry. B 117 (27): 8047–60. https://doi.org/10.1021/jp400786b.
Elgrishi, Noémie. 2013. “Activation du dioxyde de carbone.” L’Actualité Chimique 371–372: 95–100.
Figaro, Sabine, Sylvain Durand, Laetitia Gilet, Nadège Cayet, Martin Sachse, and Ciarán Condon. 2013. “Bacillus Subtilis Mutants with Knockouts of the Genes Encoding Ribonucleases RNase Y and RNase J1 Are Viable, with Major Defects in Cell Morphology, Sporulation, and Competence.” Journal of Bacteriology 195 (10): 2340–48. https://doi.org/10.1128/JB.00164-13.
Hamdane, Djemel, Eduardo Bruch, Sun Un, Martin Field, and Marc Fontecave. 2013. “Activation of a Unique Flavin-Dependent TRNA-Methylating Agent.” Biochemistry 52 (49): 8949–56. https://doi.org/10.1021/bi4013879.
Kalimeri, Maria, Obaidur Rahaman, Simone Melchionna, and Fabio Sterpone. 2013. “How Conformational Flexibility Stabilizes the Hyperthermophilic Elongation Factor G-Domain.” The Journal of Physical Chemistry. B 117 (44): 13775–85. https://doi.org/10.1021/jp407078z.
Michelet, Laure, Mirko Zaffagnini, Samuel Morisse, Francesca Sparla, Maria Esther Perez-Perez, Francesco Francia, Antoine Danon, et al. 2013. “Redox Regulation of the Calvin-Benson Cycle: Something Old, Something New.” Frontiers in Plant Science 4 (November): 470. https://doi.org/10.3389/fpls.2013.00470.
Sterpone, Fabio, Phuong H. Nguyen, Maria Kalimeri, and Philippe Derreumaux. 2013. “Importance of the Ion-Pair Interactions in the OPEP Coarse-Grained Force Field: Parametrization and Validation.” Journal of Chemical Theory and Computation 9 (10): 4574–84. https://doi.org/10.1021/ct4003493.
Takahashi, Hiroko, Sophie Clowez, Francis-André Wollman, Olivier Vallon, and Fabrice Rappaport. 2013. “Cyclic Electron Flow Is Redox-Controlled but Independent of State Transition.” Nature Communications 4: 1954. https://doi.org/10.1038/ncomms2954.
Tourasse, Nicolas J., Yves Choquet, and Olivier Vallon. 2013. “PPR Proteins of Green Algae.” RNA Biology 10 (9): 1526–42. https://doi.org/10.4161/rna.26127.
Zaffagnini, Mirko, Simona Fermani, Alex Costa, Stephane D. Lemaire, and Paolo Trost. 2013. “Plant Cytoplasmic GAPDH: Redox Post-Translational Modifications and Moonlighting Properties.” Frontiers in Plant Science 4 (November): 450. https://doi.org/10.3389/fpls.2013.00450.
Zaffagnini, Mirko, Samuel Morisse, Mariette Bedhomme, Christophe H. Marchand, Margherita Festa, Nicolas Rouhier, Stephane D. Lemaire, and Paolo Trost. 2013. “Mechanisms of Nitrosylation and Denitrosylation of Cytoplasmic Glyceraldehyde-3-Phosphate Dehydrogenase from Arabidopsis Thaliana.” Journal of Biological Chemistry 288 (31): 22777–89. https://doi.org/10.1074/jbc.M113.475467.
Zoonens, Manuela, Jeffrey Comer, Sandrine Masscheleyn, Eva Pebay-Peyroula, Christophe Chipot, Bruno Miroux, and François Dehez. 2013. “Dangerous Liaisons between Detergents and Membrane Proteins. The Case of Mitochondrial Uncoupling Protein 2.” Journal of the American Chemical Society 135 (40): 15174–82. https://doi.org/10.1021/ja407424v.