S. Vanni publications

This material is presented to ensure timely dissemination of scholarly and technical work. Copyright and all rights therein are retained by authors or by other copyright holders. All persons copying this information are expected to adhere to the terms and constraints invoked by each author's copyright. In most cases, these works may not be reposted without the explicit permission of the copyright holder.

 

Publications list

2020

Srinivasan S, Zoni V, Vanni S (2020). Estimating the accuracy of the MARTINI model towards the investigation of Peripheral Protein-Membrane Interactions. Faraday Discussions, Accepted Manuscript (DOI: 10.1039/D0FD00058B)

Ardham VR, Zoni V, Adamowicz S, Campomanes P,  Vanni S (2020). Accurate Estimation of Membrane Capacitance from Atomistic Molecular Dynamics Simulations of Zwitterionic Lipid Bilayers. The Journal of Physical Chemistry B,  Accepted Manuscript (DOI: 10.1021/acs.jpcb.0c03145)

West A, Zoni V, Teague Jr, Leonard AN, Vanni S, Gawrisch K, Tristram-Nagle S, Sachs JN, Klauda JB (2020). How Do Ethanolamine Plasmalogens Contribute to Order and Structure of Neurological Membranes? The Journal of Physical Chemistry B, 124, 5, 828–839 (DOI: 10.1021/acs.jpcb.9b08850)

 

2019 

Jiménez-Rojo N, Leonetti MD, Zoni V, Colom A, Feng S, Iyengar NR, Matile S, Roux A, Vanni S, Weissman JS, Riezman H. Conserved function of ether lipids and sphingolipids in the early secretory pathway. BioRxiv, 881094

Zoni V, Nieto V, Endter LJ, Risselada HJ, Monticelli L, Vanni S (2019). To bud or not to bud: a perspective on molecular simulations of lipid droplet budding. Frontiers in Molecular Biosciences 6, 124

Zoni VCampomanes P, Khaddaj R, Thiam AR, Schneiter R, Vanni S (2019). Lipid droplet biogenesis is a liquid phase separation spatially regulated by seipin and membrane curvature. BioRxiv, 777466

Soste M, Charmpi K, Lampert F, Gerez JA, van Oostrum M, Malinovska L, Boersema PJ, Prymaczok NC, Riek R, Peter M, Vanni S, Beyer A, Picotti P (2019).Proteomics-Based Monitoring of Pathway Activity Reveals that Blocking Diacylglycerol Biosynthesis Rescues from Alpha-Synuclein Toxicity. Cell Systems

Vanni S, Riccardi L, Palermo G, DeVivo M (2019). Structure and Dynamics of the Acyl Chains in the Membrane Trafficking and Enzymatic Processing of Lipids. Accounts of Chemical Research

Campomanes P, Zoni V, Vanni S (2019). Local accumulation of diacylglycerol alters membrane properties non-linearly due to its transbilayer activity. Communications Chemistry, 2, 72.

Petretto E, Campomanes P, Stellacci F, Rothen-Rutishauser B, Petri-Fink A, Vanni S (2019). An Atomistic Look into Bio-inspired Nanoparticles and their Molecular Interactions with Cells. CHIMIA, 73 (1), 78-80

Fennouri A, List J, Dupasquier J ,Haeni L, Vanni S, Rothen-Rutishauser B, Mayer M (2019). Templated Assembly of Pore-forming Peptides in Lipid Membranes. CHIMIA, 73 (1), 59-62.

 

2018

Friedman R, Khalid S, ..., Vanni S, Zeppelin T, Zoni V, Bondar A-N, Domene C (2018). Understanding Conformational Dynamics of Complex Lipid Mixtures Relevant to Biology. Journal of Membrane Biology, 251(5-6), 609-631.

Pinot M, Vanni S, Ambroggio E, Guet D, Goud B, Manneville JB (2018). Feedback between membrane tension, lipid shape and curvature in the formation of packing defects. bioRxiv, 389627

Gautier R, Bacle A, Tiberti ML, Fuchs PF, Vanni S, Antonny B (2018). PackMem: A Versatile Tool to Compute and Visualize Interfacial Packing Defects in Lipid Bilayers. Biophysical Journal 115 (3), 436-444

 

2017

Vanni S (2017). Intracellular lipid droplets: from structure to function. Lipid Insights 10: 1178635317745518.

Soares TA, Vanni S, Milano G & Cascella M (2017). Toward chemically resolved computer simulations of dynamics and remodeling of biological membranes. Journal of Physical Chemistry Letters 8: 3586–3594.

Ben M'barek K, Ajjaji D, Chorlay A, Vanni S, Forêt L & Thiam AR (2017). ER membrane phospholipids and surface tension control cellular lipid droplet formation. Developmental Cell 41: 591-604.

Bacle A, Gautier R, Jackson CL, Fuchs PFJ & Vanni S (2017). Interdigitation between triglycerides and lipids modulates surface properties of lipid droplets. Biophysical Journal 112 1417-1430 (http://www.cell.com/biophysj/abstract/S0006-3495(17)30246-1).

 

2016

Magdeleine M, Gautier R, Gounon P, Barelli H, Vanni S & Antonny B (2016). A filter at the entrance of the Golgi that selects vesicles according to size and bulk lipid composition. Elife e16988 (DOI: 10.7554/eLife.16988).

Cascella M & Vanni S (2016). Toward accurate coarse-graining approaches for protein and membrane simulations in "SPR- Chemical Modelling" Vol. 12, Royal Society of Chemistry, pp. 1-52.

Antonny B, Vanni S, Shindou H & Ferreira T (2016). From zero to six double bonds: phospholipid unsaturation and organelle function. Trends in Cell Biology 25:427-436.

 

2015

Moser von Filseck J, Vanni S, Mesmin B, Antonny B & Drin G (2015). A phosphatidylinositol-4-phosphate powered exchange mechanism to create a lipid gradient between membranes. Nature Communications 6: 6671 (doi:10.1038/ncomms7671).

Cournia Z ,Allen TW, Andricioaei I, Antonny B, Baum D, Brannigan G, Buchete N-V, Deckman JT, Delemotte L, del Val C, Friedmann R, Gkeka P, Hege H-C, Hénin J, Kasimova MA, Kolocouris A, Klein ML, Khalid S, Lemieux MJ, Lindow N, Roy M, Selent J, Tarek M, Tofoleanu F, Vanni S, Urban S, Wales DJ, Smith JC, & Bonda A-N (2015). Membrane protein structure, function, and dynamics: a perspective from experiments and theory. J Membrane Biol 248: 611-640 (doi:10.1007/s00232-015-9802-0).

Garten M, Prévost C, Cadart C, Gautier R, Bousset L, Melki R, Bassereau P & Vanni S (2015). Methyl-branched lipids promote the membrane adsorption of ?-synuclein by enhancing shallow lipid-packing defects. Phys. Chem. Chem. Phys. 7: 15589-15597 (DOI: 10.1039/C5CP00244C).

Moser von Filseck J, Copic A, Delfosse V, Vanni S, Jackson CL, Bourguet W & Drin G (2015). Phosphatidylserine transport by ORP/Osh proteins is driven by phosphatidylinositol 4-phosphate. Science 349, 432-436 (DOI: 10.1126/science.aab1346).

 

2014

Vanni S, Hirose H, Barelli H, Antonny B & Gautier R (2014). A sub-nanometre view of how membrane curvature and composition modulate lipid packing and protein recruitment. Nature Communications 5: 4916 (doi:10.1038/ncomms5916).

Campomanes P, Neri M, Horta BAC, Röhrig UF, Vanni S, Tavernelli I & Ursula Rothlisberger U (2014). Origin of the spectral shifts among the early intermediates of the Rhodopsin photo cycle. J. Am. Chem. Soc. 136: 3842–3851 (DOI: 10.1021/ja411303v).

Pinot M, Vanni S, Pagnotta S, Lacas-Gervais S, Payet L-A, Ferreira T, Gautier R, Goud B, Antonny B & Barelli H (2014). Polyunsaturated phospholipids facilitate membrane deformation and fission by endocytic proteins. Science 345: 693-697 (DOI: 10.1126/science.1255288).

 

2013

Vanni S, Vamparys L, Gautier R, Drin G, Etchebest C, Fuchs PFJ & Bruno Antonny B (2013). Amphipathic lipid packing sensor motifs: probing bilayer defects with hydrophobic residues. Biophysical Journal 104: 575-584 (http://dx.doi.org/10.1016/j.bpj.2012.11.3837).

Vamparys L, Gautier R, Vanni S, Bennett WFD, Tieleman DP, Antonny B, Etchebest C & Fuchs PFL (2013). Biophysical Journal 104: 585-593 (http://dx.doi.org/10.1016/j.bpj.2012.11.3836).

 

2012

Vanni S & Rothlisberger U (2012). A closer look into G protein coupled receptor activation: X-Ray crystallography and long-scale molecular dynamics simulations. Current Medicinal Chemistry 19: 1135-1145.

 

2011

Annibale P, Vanni S, Scarselli M, Rothlisberger U & Radenovic A (2011). Identification of clustering artifacts in photoactivated localisation microscopy. Nature Methods 8: 527-528 (doi:10.1038/nmeth.1627).

Curchod BFE, Campomanes P; Laktionov A, Neri M, Penfold TJ, Vanni S, Tavernelli I & Rothlisberger U (2011). Mechanical (QM/MM) simulations of adiabatic and nonadiabatic ultrafast phenomena. Chimia 65: 330-333.

Vanni S, Neri M, Tavernelli I, Rothlisberger U (2011). Predicting novel binding modes of agonists to ? adrenergic receptors using all-atom molecular dynamics simulations. PLoS Comput Biol 7: e1001053 (doi:10.1371/journal.pcbi.1001053).

Brunk E, Negar A, Prashanth A, Campomanes P, de Carvalho FF, Curchod BFE Basile, Polydefkis D, Doemer M, Garrec J, Laktionov A, Micciarelli M, Neri M, Palermo G, Penfold TJ, Vanni S, Tavernelli I & Rothlisberger U (2011). Pushing the frontiers of first-principles based computer simulations of chemical and biological systems. Chimia 65: 667-671.

Annibale P, Vanni S, Scarselli M , Rothlisberger U & Radenovic A (2011). Quantitative photo activated localization microscopy: unraveling the effects of photo blinking. PLoS ONE 6: e22678 (doi:10.1371/journal.pone.0022678).

 

2010

Vanni S, Neri M, Tavernelli I & Rothlisberger U (2010). A conserved protonation-induced switch can trigger “Ionic-Lock” formation in adrenergic receptors. Journal Molecular Biology 397: 1339-1349.

Neri M, Vanni S, Tavernelli I & Rothlisberger U (2010). Role of aggregation in Rhodopsin signal transduction. Biochemistry 49: 4827–4832 (DOI: 10.1021/bi100478j).

 

2009

Vanni S, Neri M, Tavernelli I & Rothlisberger U (2009). Observation of “Ionic Lock” formation in molecular dynamics simulations of wild-type ?1 and ?2 adrenergic receptors. Biochemistry 48: 4789-4797 (DOI: 10.1021/bi900299f).

 

2008

Vanni S, Garavelli M & Robb MA (2008). A new formulation of the phase change approach in the theory of conical intersections. Chemical Physics 347: 46-56 (http://dx.doi.org/10.1016/j.chemphys.2007.09.055).