Thème 2: Dynamique membranaire

1.         Angius, F., Ilioaia, O., Amrani, A., Suisse, A., Rosset, L., Legrand, A., Abou-Hamdan, A., Uzan, M., Zito, F. and Miroux, B. (2018) A novel regulation mechanism of the T7 RNA polymerase based expression system improves overproduction and folding of membrane proteins. Sci Rep, 8, 8572.

2.         Angius, F., Ilioaia, O., Uzan, M. and Miroux, B. (2016) In Mus-Veteau, I. (ed.), In Heterologous Expression of Membrane Proteins. Springer New York, Vol. 1432, pp. 37-52.

3.         Belgareh-Touze, N., Cavellini, L. and Cohen, M.M. (2017) Ubiquitination of ERMES components by the E3 ligase Rsp5 is involved in mitophagy. Autophagy, 13, 114-132.

4.         Boniello, G., Tribet, C., Marie, E., Croquette, V. and Zanchi, D. (2018) Rolling and Ageing in T-Ramp Soft Adhesion. Phys Rev. E 97, 012609.

5.         Brandt, T., Cavellini, L., Kuhlbrandt, W. and Cohen, M.M. (2016) A mitofusin-dependent docking ring complex triggers mitochondrial fusion in vitro. Elife, 5.

6.         Bujaldon, S., Kodama, N., Rappaport, F., Subramanyam, R., de Vitry, C., Takahashi, Y. and Wollman, F.A. (2017) Functional Accumulation of Antenna Proteins in Chlorophyll b-Less Mutants of Chlamydomonas reinhardtii. Mol Plant, 10, 115-130.

7.         Carranza, G., Angius, F., Ilioaia, O., Solgadi, A., Miroux, B. and Arechaga, I. (2017) Cardiolipin plays an essential role in the formation of intracellular membranes in Escherichia coli. Biochim Biophys Acta, 1859, 1124-1132.

8.         Casiraghi, M., Damian, M., Lescop, E., Baneres, J.L. and Catoire, L.J. (2018) Illuminating the Energy Landscape of GPCRs: The Key Contribution of Solution-State NMR Associated with Escherichia coli as an Expression Host. Biochemistry, 57, 2297-2307.

9.         Casiraghi, M., Damian, M., Lescop, E., Point, E., Moncoq, K., Morellet, N., Levy, D., Marie, J., Guittet, E., Baneres, J.L. et al. (2016) Functional Modulation of a G Protein-Coupled Receptor Conformational Landscape in a Lipid Bilayer. J Am Chem Soc, 138, 11170-11175.

10.       Catoire, L.J., Warnet, X.L. and Warschawski, D.E. (2014) In Mus-Veteau, I. (ed.), Membrane Proteins Production for Structural Analysis. Springer New York, pp. 315-345.

11.       Cavellini, L., Meurisse, J., Findinier, J., Erpapazoglou, Z., Belgareh-Touze, N., Weissman, A.M. and Cohen, M.M. (2017) An ubiquitin-dependent balance between mitofusin turnover and fatty acids desaturation regulates mitochondrial fusion. Nat Commun, 8, 15832.

12.       Chipot, C., Dehez, F., Schnell, J.R., Zitzmann, N., Pebay-Peyroula, E., Catoire, L.J., Miroux, B., Kunji, E.R.S., Veglia, G., Cross, T.A. et al. (2018) Perturbations of Native Membrane Protein Structure in Alkyl Phosphocholine Detergents: A Critical Assessment of NMR and Biophysical Studies. Chem Rev, 118, 3559-3607.

13.       Corey, R.A., Pyle, E., Allen, W.J., Watkins, D.W., Casiraghi, M., Miroux, B., Arechaga, I., Politis, A. and Collinson, I. (2018) Specific cardiolipin-SecY interactions are required for proton-motive force stimulation of protein secretion. Proc Natl Acad Sci U S A, 115, 7967-7972.

14.       Dalier, F., Dubacheva, G.V., Coniel, M., Zanchi, D., Galtayries, A., Piel, M., Marie, E. and Tribet, C. (2018) Mixed Copolymer Adlayers Allowing Reversible Thermal Control of Single Cell Aspect Ratio. ACS Appl Mater Interfaces, 10, 2253-2258.

15.       Dalier, F., Eghiaian, F., Scheuring, S., Marie, E. and Tribet, C. (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, 1727-1736.

16.       Damodaran, S.P., Eberhard, S., Boitard, L., Rodriguez, J.G., Wang, Y., Bremond, N., Baudry, J., Bibette, J. and Wollman, F.A. (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, e0118987.

17.       De Vecchis, D., Cavellini, L., Baaden, M., Henin, J., Cohen, M.M. and Taly, A. (2017) A membrane-inserted structural model of the yeast mitofusin Fzo1. Sci Rep, 7, 10217.

18.       Della Pia, E.A., Hansen, R.W., Zoonens, M. and Martinez, K.L. (2014) Functionalized amphipols: a versatile toolbox suitable for applications of membrane proteins in synthetic biology. J Membr Biol, 247, 815-826.

19.       Della Pia, E.A., Holm, J.V., Lloret, N., Le Bon, C., Popot, J.L., Zoonens, M., Nygard, J. and Martinez, K.L. (2014) A step closer to membrane protein multiplexed nanoarrays using biotin-doped polypyrrole. ACS Nano, 8, 1844-1853.

20.       Dilworth, M.V., Piel, M.S., Bettaney, K.E., Ma, P., Luo, J., Sharples, D., Poyner, D.R., Gross, S.R., Moncoq, K., Henderson, P.J.F. et al. (2018) Microbial expression systems for membrane proteins. Methods.

21.       Dreher, M., Prevoteau-Jonquet, J., Trellet, M., Piuzzi, M., Baaden, M., Raffin, B., Ferey, N., Robert, S. and Limet, S. (2014) ExaViz: a flexible framework to analyse, steer and interact with molecular dynamics simulations. Faraday Discuss, 169, 119-142.

22.       Feinstein, H.E., Tifrea, D., Sun, G., Popot, J.L., de la Maza, L.M. and Cocco, M.J. (2014) Long-term stability of a vaccine formulated with the amphipol-trapped major outer membrane protein from Chlamydia trachomatis. J Membr Biol, 247, 1053-1065.

23.       Fernandez, A., Le Bon, C., Baumlin, N., Giusti, F., Cremel, G., Popot, J.L. and Bagnard, D. (2014) In vivo characterization of the biodistribution profile of amphipol A8-35. J Membr Biol, 247, 1043-1051.

24.       Ferrandez, Y., Dezi, M., Bosco, M., Urvoas, A., Valerio-Lepiniec, M., Le Bon, C., Giusti, F., Broutin, I., Durand, G., Polidori, A. et al. (2014) Amphipol-mediated screening of molecular orthoses specific for membrane protein targets. J Membr Biol, 247, 925-940.

25.       Frka-Petesic, B., Zanchi, D., Martin, N., Carayon, S., Huille, S. and Tribet, C. (2016) Aggregation of Antibody Drug Conjugates at Room Temperature: SAXS and Light Scattering Evidence for Colloidal Instability of a Specific Subpopulation. Langmuir, 32, 4848-4861.

26.       Giusti, F., Kessler, P., Hansen, R.W., Della Pia, E.A., Le Bon, C., Mourier, G., Popot, J.L., Martinez, K.L. and Zoonens, M. (2015) Synthesis of a Polyhistidine-bearing Amphipol and its Use for Immobilizing Membrane Proteins. Biomacromolecules, 16, 3751-3761.

27.       Giusti, F., Rieger, J., Catoire, L.J., Qian, S., Calabrese, A.N., Watkinson, T.G., Casiraghi, M., Radford, S.E., Ashcroft, A.E. and Popot, J.L. (2014) Synthesis, characterization and applications of a perdeuterated amphipol. J Membr Biol, 247, 909-924.

28.       Gold, V.A., Brandt, T., Cavellini, L., Cohen, M.M., Ieva, R. and van der Laan, M. (2017) Analysis of Mitochondrial Membrane Protein Complexes by Electron Cryo-tomography. Methods Mol Biol, 1567, 315-336.

29.       Hattab, G., Suisse, A.Y.T., Ilioaia, O., Casiraghi, M., Dezi, M., Warnet, X.L., Warschawski, D.E., Moncoq, K., Zoonens, M. and Miroux, B. (2014) In Mus-Veteau, I. (ed.), Membrane Proteins Production for Structural Analysis. Springer, New York, pp. 87-106.

30.       Hattab, G., Warschawski, D.E., Moncoq, K. and Miroux, B. (2015) Escherichia coli as host for membrane protein structure determination: a global analysis. Scientific Reports, 5, 12097.

31.       Hirst, J.D., Glowacki, D.R. and Baaden, M. (2014) Molecular simulations and visualization: introduction and overview. Faraday Discuss, 169, 9-22.

32.       Jabrani, A., Makamte, S., Moreau, E., Gharbi, Y., Plessis, A., Bruzzone, L., Sanial, M. and Biou, V. (2017) Biophysical characterisation of the novel zinc binding property in Suppressor of Fused. Sci Rep, 7, 11139.

33.       Kocsis, I., Sorci, M., Vanselous, H., Murail, S., Sanders, S.E., Licsandru, E., Legrand, Y.M., van der Lee, A., Baaden, M., Petersen, P.B. et al. (2018) Oriented chiral water wires in artificial transmembrane channels. Sci Adv, 4, eaao5603.

34.       Laurent, B., Chavent, M., Cragnolini, T., Dahl, A.C., Pasquali, S., Derreumaux, P., Sansom, M.S. and Baaden, M. (2015) Epock: rapid analysis of protein pocket dynamics. Bioinformatics, 31, 1478-1480.

35.       Laurent, B., Murail, S., Shahsavar, A., Sauguet, L., Delarue, M. and Baaden, M. (2016) Sites of Anesthetic Inhibitory Action on a Cationic Ligand-Gated Ion Channel. Structure, 24, 595-605.

36.       Le Bon, C., Della Pia, E.A., Giusti, F., Lloret, N., Zoonens, M., Martinez, K.L. and Popot, J.L. (2014) Synthesis of an oligonucleotide-derivatized amphipol and its use to trap and immobilize membrane proteins. Nucleic Acids Res, 42, e83.

37.       Le Bon, C., Marconnet, A., Masscheleyn, S., Popot, J.L. and Zoonens, M. (2018) Folding and stabilizing membrane proteins in amphipol A8-35. Methods.

38.       Le Bon, C., Popot, J.L. and Giusti, F. (2014) Labeling and functionalizing amphipols for biological applications. J Membr Biol, 247, 797-814.

39.       Lev, B., Murail, S., Poitevin, F., Cromer, B.A., Baaden, M., Delarue, M. and Allen, T.W. (2017) String method solution of the gating pathways for a pentameric ligand-gated ion channel. Proc Natl Acad Sci U S A, 114, E4158-E4167.

40.       Ma, D., Martin, N., Tribet, C. and Winnik, F.M. (2014) Quantitative characterization by asymmetrical flow field-flow fractionation of IgG thermal aggregation with and without polymer protective agents. Anal Bioanal Chem, 406, 7539-7547.

41.       Malinge, J., Mousseau, F., Zanchi, D., Brun, G., Tribet, C. and Marie, E. (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. J Colloid Interface Sci, 461, 50-55.

42.       Marie, E., Sagan, S., Cribier, S. and Tribet, C. (2014) Amphiphilic macromolecules on cell membranes: from protective layers to controlled permeabilization. J Membr Biol, 247, 861-881.

43.       Martin, N., Costa, N., Wien, F., Winnik, F.M., Ortega, C., Herbet, A., Boquet, D. and Tribet, C. (2017) Refolding of Aggregation-Prone ScFv Antibody Fragments Assisted by Hydrophobically Modified Poly(sodium acrylate) Derivatives. Macromol Biosci, 17.

44.       Martin, N., Ma, D., Herbet, A., Boquet, D., Winnik, F.M. and Tribet, C. (2014) Prevention of thermally induced aggregation of IgG antibodies by noncovalent interaction with poly(acrylate) derivatives. Biomacromolecules, 15, 2952-2962.

45.       Martin, N., Ruchmann, J. and Tribet, C. (2015) Prevention of aggregation and renaturation of carbonic anhydrase via weak association with octadecyl- or azobenzene-modified poly(acrylate) derivatives. Langmuir, 31, 338-349.

46.       Opacic, M., Durand, G., Bosco, M., Polidori, A. and Popot, J.L. (2014) Amphipols and photosynthetic light-harvesting pigment-protein complexes. J Membr Biol, 247, 1031-1041.

47.       Opacic, M., Giusti, F., Popot, J.L. and Broos, J. (2014) Isolation of Escherichia coli mannitol permease, EIImtl, trapped in amphipol A8-35 and fluorescein-labeled A8-35. J Membr Biol, 247, 1019-1030.

48.       Ozeir, M., Pelosi, L., Ismail, A., Mellot-Draznieks, C., Fontecave, M. and Pierrel, F. (2015) Coq6 is responsible for the C4-deamination reaction in coenzyme Q biosynthesis in Saccharomyces cerevisiae. J Biol Chem, 290, 24140-24151.

49.       Pérez-Martin, M., Pérez-Pérez, M.E., Lemaire, S.D. and Crespo, J.L. (2014) Oxidative stress contributes to autophagy induction in response to endoplasmic reticulum stress in Chlamydomonas reinhardtii. Plant Physiol, 166, 997-1008.

50.       Pérez-Pérez, M.E., Lemaire, S.D. and Crespo, J.L. (2016) Control of Autophagy in Chlamydomonas Is Mediated through Redox-Dependent Inactivation of the ATG4 Protease. Plant Physiol, 172, 2219-2234.

51.       Pérez-Pérez, M.E., Zaffagnini, M., Marchand, C.H., Crespo, J.L. and Lemaire, S.D. (2014) The yeast autophagy protease Atg4 is regulated by thioredoxin. Autophagy, 10, 1953-1964.

52.       Planchard, N., Point, E., Dahmane, T., Giusti, F., Renault, M., Le Bon, C., Durand, G., Milon, A., Guittet, E., Zoonens, M. et al. (2014) The use of amphipols for solution NMR studies of membrane proteins: advantages and constraints as compared to other solubilizing media. J Membr Biol, 247, 827-842.

53.       Polovinkin, V., Balandin, T., Volkov, O., Round, E., Borshchevskiy, V., Utrobin, P., von Stetten, D., Royant, A., Willbold, D., Arzumanyan, G. et al. (2014) Nanoparticle surface-enhanced Raman scattering of bacteriorhodopsin stabilized by amphipol A8-35. J Membr Biol, 247, 971-980.

54.       Polovinkin, V., Gushchin, I., Sintsov, M., Round, E., Balandin, T., Chervakov, P., Shevchenko, V., Utrobin, P., Popov, A., Borshchevskiy, V. et al. (2014) High-resolution structure of a membrane protein transferred from amphipol to a lipidic mesophase. J Membr Biol, 247, 997-1004.

55.       Puvanendran, D., Cece, Q. and Picard, M. (2017) Reconstitution of the activity of RND efflux pumps: a "bottom-up" approach. Res Microbiol.

56.       Sauvageot, N., Mokhtari, A., Joyet, P., Budin-Verneuil, A., Blancato, V.S., Repizo, G.D., Henry, C., Pikis, A., Thompson, J., Magni, C. et al. (2017) Enterococcus faecalis Uses a Phosphotransferase System Permease and a Host Colonization-Related ABC Transporter for Maltodextrin Uptake. J Bacteriol, 199.

57.       Serra-Batiste, M., Tolchard, J., Giusti, F., Zoonens, M. and Carulla, N. (2018) Stabilization of a Membrane-Associated Amyloid-beta Oligomer for Its Validation in Alzheimer's Disease. Front Mol Biosci, 5, 38.

58.       Shai, N., Yifrach, E., van Roermund, C.W.T., Cohen, N., Bibi, C., Ijlst, L., Cavellini, L., Meurisse, J., Schuster, R., Zada, L. et al. (2018) Systematic mapping of contact sites reveals tethers and a function for the peroxisome-mitochondria contact. Nature Communications, In Press.

59.       Sterpone, F., Derreumaux, P. and Melchionna, S. (2015) Protein Simulations in Fluids: Coupling the OPEP Coarse-Grained Force Field with Hydrodynamics. J Chem Theory Comput, 11, 1843-1853.

60.       Sun, J., Jia, L., Emond, M., Li, M.-H., Marie, E., Jullien, L. and Tribet, C. (2014) Photocontrolled Ionization in the Corona of Rodlike Assemblies of Diblock Copolymers. Macromolecules, 47, 1684-1692.

61.       Sverzhinsky, A., Qian, S., Yang, L., Allaire, M., Moraes, I., Ma, D., Chung, J.W., Zoonens, M., Popot, J.L. and Coulton, J.W. (2014) Amphipol-trapped ExbB-ExbD membrane protein complex from Escherichia coli: a biochemical and structural case study. J Membr Biol, 247, 1005-1018.

62.       Tehei, M., Perlmutter, J.D., Giusti, F., Sachs, J.N., Zaccai, G. and Popot, J.L. (2014) Thermal fluctuations in amphipol A8-35 particles: a neutron scattering and molecular dynamics study. J Membr Biol, 247, 897-908.

63.       Trellet, M., Ferey, N., Flotynski, J., Baaden, M. and Bourdot, P. (2018) Semantics for an Integrative and Immersive Pipeline Combining Visualization and Analysis of Molecular Data. J Integr Bioinform, 15.

64.       Wang, F., Qi, Y., Malnoe, A., Choquet, Y., Wollman, F.A. and de Vitry, C. (2017) The High Light Response and Redox Control of Thylakoid FtsH Protease in Chlamydomonas reinhardtii. Mol Plant, 10, 99-114.

65.       Warnet, X.L., Arnold, A.A., Marcotte, I. and Warschawski, D.E. (2015) In-Cell Solid-State NMR: An Emerging Technique for the Study of Biological Membranes. Biophys J, 109, 2461-2466.

66.       Warnet, X.L., Laadhari, M., Arnold, A.A., Marcotte, I. and Warschawski, D.E. (2016) A (2)H magic-angle spinning solid-state NMR characterisation of lipid membranes in intact bacteria. Biochim Biophys Acta, 1858, 146-152.

67.       Zambolin, S., Clantin, B., Chami, M., Hoos, S., Haouz, A., Villeret, V. and Delepelaire, P. (2016) Structural basis for haem piracy from host haemopexin by Haemophilus influenzae. Nat Commun, 7, 11590.

68.       Zoonens, M., Comer, J., Masscheleyn, S., Pebay-Peyroula, E., Chipot, C., Miroux, B. and Dehez, F. (2013) Dangerous liaisons between detergents and membrane proteins. The case of mitochondrial uncoupling protein 2. J Am Chem Soc, 135, 15174-15182.

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