Publications

2018

  • Wasnik, Vaibhav H.; Lipp, Peter; Kruse, Karsten (2018) Positional information readout in Ca2+ signaling. arXiv.org, e-Print Arch., Quant. Biol.. [accepted]
  • Lombardot, Thierry; Morgat, Anne; Axelsen, Kristian B; Aimo, Lucila; Hyka-Nouspikel, Nevila; Niknejad, Anne; Ignatchenko, Alex; Xenarios, Ioannis; Coudert, Elisabeth; Redaschi, Nicole; Bridge, Alan (2018) Updates in Rhea: SPARQLing biochemical reaction data. Nucleic Acids Res.. [accepted]
  • Du, Shishen; Pichoff, Sebastien; Kruse, Karsten; Lutkenhaus, Joe (2018) FtsZ filaments have the opposite kinetic polarity of microtubules. Proc. Natl. Acad. Sci. USA 115 (42) 10768-10773.
  • Wettmann, Lukas; Bonny, Mike; Kruse, Karsten (2018) Effects of geometry and topography on Min-protein dynamics. PLoS ONE 13 (8) e0203050.
  • Colom, Adai; Derivery, Emmanuel; Soleimanpour, Saeideh; Tomba, Caterina; Dal Molin, Marta; Sakai, Naomi; González-Gaitán, Marcos; Matile, Stefan; Roux, Aurélien (2018) A Fluorescent Membrane Tension Probe. Nat. Chem. 10 (11) 1118-1125.
  • Riggi, Margot; Niewola-Staszkowska, Karolina; Chiaruttini, Nicolas; Colom, Adai; Kusmider, Beata; Mercier, Vincent; Soleimanpour, Saeideh; Stahl, Michael; Matile, Stefan; Roux, Aurélien; Loewith, Robbie (2018) Decrease in Plasma Membrane Tension Triggers PtdIns(4,5)P2 Phase Separation to Inactivate TORC2. Nat. Cell. Biol. 20 (9) 1043-1051.
  • He, Cuiwen; Hu, Xuchen; Weston, Thomas A.; Jung, Rachel S.; Sandhu, Jaspreet; Huang, Song; Heizer, Patrick; Kim, Jason; Ellison, Rochelle; Xu, Jiake; Kilburn, Matthew; Bensinger, Steven J.; Riezman, Howard; Tontonoz, Peter; Fong, Loren G.; Jiang, Haibo; Young, Stephen G. (2018) Macrophages release plasma membrane-derived particles rich in accessible cholesterol. Proc. Natl. Acad. Sci. USA 115 (36) E8499-E8508.
  • Zimmer, P.; Kruse, Karsten; Nagler, J. (2018) Anomalous percolation features in molecular evolution. Phys. Rev. E 98 (2) 022408.
  • Lee, Kyubum; Famiglietti, Maria Livia; McMahon, Aoife; Wei, Chih-Hsuan; MacArthur, Jacqueline Ann Langdon; Poux, Sylvain; Breuza, Lionel; Bridge, Alan; Cunningham, Fiona; Xenarios, Ioannis; Lu, Zhiyong; Xu, Rong (2018) Scaling up data curation using deep learning: An application to literature triage in genomic variation resources. PLoS Comput. Biol. 14 (8) e1006390.
  • Daeden, Alicia Gonzalez-Gaitan, Marcos (2018) Endosomal Trafficking During Mitosis and Notch-Dependent Asymmetric Division. Endocytosis and Signaling vol. 57Ed. Lamaze, Christophe Prior, IanProgress in Molecular and Subcellular Biology. Springer, Cham. 301-329.
  • Klinkert, Kerstin; Levernier, Nicolas; Gross, Peter; Gentili, Christian; von Tobel, Lukas; Pierron, Marie; Busso, Coralie; Herrman, Sarah; Grill, Stephan W; Kruse, Karsten; Gonczy, Pierre (2018) Aurora A depletion reveals centrosome-independent polarization mechanism in C. elegans. bioRxiv, Cell Biol.. [accepted]
  • Sattler, Natascha; Bosmani, Cristina; Barisch, Caroline; Guého, Aurélie; Gopaldass, Navin; Dias, Marco; Leuba, Florence; Bruckert, Franz; Cosson, Pierre; Soldati, Thierry (2018) Functions of the Dictyostelium LIMP-2/CD36 homologues in bacteria uptake, phagolysosome biogenesis and host cell defence.. J. Cell Sci. 131 jcs218040.
  • Mund, Markus; van der Beek, Johannes Albertus; Deschamps, Joran; Dmitrieff, Serge; Hoess, Philipp; Monster, Jooske Louise; Picco, Andrea; Nédélec, François; Kaksonen, Marko; Ries, Jonas (2018) Systematic Nanoscale Analysis of Endocytosis Links Efficient Vesicle Formation to Patterned Actin Nucleation. Cell 174 (4) 884-896.e17.
  • Kreten, F. H.; Hoffmann, Ch.; Riveline, D.; Kruse, Karsten (2018) Active bundles of polar and bipolar filaments. Phys. Rev. E 110 (1) 012413.
  • Picco, Andrea; Kaksonen, Marko (2018) Quantitative imaging of clathrin-​mediated endocytosis. Curr. Opin. Cell Biol. 53 105-110.
  • Buckley, Catherine M; Heath, Victoria L; Gueho, Aurelie; Bosmani, Cristina; Knobloch, Paulina; Sikakana, Phumzile; Personnic, Nicolas; Dove, Stephen K; Michell, Robert H; Meier, Roger; Hilbi, Hubert; Soldati, Thierry; Insall, Robert H; King, Jason (2018) PIKfyve/Fab1 is required for efficient V-ATPase and hydrolase delivery to phagosomes, phagosomal killing, and restriction of Legionella infection. bioRxiv, Cell Biol.. [accepted]
  • Maechler, Florian; Allier, Cedric; Roux, Aurelien; Tomba, Caterina (2018) Curvature Dependent constraints drive remodeling of epithelia. bioRxiv, Bioeng. 1-16. [accepted]
  • Barisch, Caroline; Kalinina, Vera; Lefrancois, Louise H; Appiah, Joddy; Soldati, Thierry (2018) Think zinc: Role of zinc poisoning in the intraphagosomal killing of bacteria by the amoeba. bioRxiv, Cell Biol.. [accepted]
  • Ideses, Y.; Erukhimovitch, V.; Brand, R.; Jourdain, D.; Hernandez, J. Salmeron; Gabinet, U. R.; Safran, S. A.; Kruse, Karsten; Bernheim-Groswasser, A. (2018) Spontaneous buckling of contractile poroelastic actomyosin sheets. Nat. Commun. 9 (1) 2461.
  • Melero, Alejandro; Chiaruttini, Nicolas; Karashima, Takefumi; Riezman, Isabelle; Funato, Kouichi; Barlowe, Charles; Riezman, Howard; Roux, Aurélien (2018) Lysophospholipids Facilitate COPII Vesicle Formation. Curr. Biol. 28 (12) 1950-1958.e6.
  • Picco, Andrea; Kukulski, Wanda; Manenschijn, Hetty E.; Specht, Tanja; Briggs, John A. G.; Kaksonen, Marko; Lemmon, Sandra (2018) The contributions of the actin machinery to endocytic membrane bending and vesicle formation. Mol. Biol. Cell 29 (11) 1346-1358.
  • Picco, Andrea; Kukulski, Wanda; Manenschijn, Hetty E.; Specht, Tanja; Briggs, John A. G.; Kaksonen, Marko (2018) The contributions of the actin machinery to endocytic membrane bending and vesicle formation. Mol. Biol. Cell 29 (11) 1346-1358.
  • Lopez-Jimenez, Ana Teresa; Cardenal Munoz, Elena; Leuba, Florence; Gerstenmaier, Lilli; Hagedorn, Monica; King, Jason S.; Soldati, Thierry (2018) ESCRT and autophagy cooperate to repair ESX-1-dependent damage to the Mycobacterium-containing vacuole. bioRxiv, Microbiol.. [accepted]
  • Bauer, G.; Fakhri, N.; Kicheva, A.; Kondev, J.; Kruse, Kartsen; Noji, H.; Riveline, Daniel; Saunders, T. E.; Thattai, M.; Wieschaus, E. (2018) The Science of Living Matter for Tomorrow. Cell Syst. 6 (4) 400-402.
  • Aguilar Hidalgo, Daniel; Werner, Steffen; Wartlick, Ortrud; González-Gaitán, Marcos; Friedrich, Benjamin; Jülicher, Frank (2018) Critical Point in Self-Organized Tissue Growth. Phys. Rev. Lett. 120 198102.
  • Perrin, Laurent; Loizides-Mangold, Ursula; Chanon, Stéphanie; Gobet, Cédric; Hulo, Nicolas; Isenegger, Laura; Weger, Benjamin D.; Migliavacca, Eugenia; Charpagne, Aline; Betts, James A.; Walhin, Jean-Philippe; Templeman, Iain; Stokes, Keith; Thompson, Dylan; Tsintzas, Kostas; Robert, Maud; Howald, Cedric; Riezman, Howard; Feige, Jerome N.; Karagounis, Leonidas G.; Johnston, Jonathan D.; Dermitzakis, Emmanouil T.; Gachon, Frédéric; Lefai, Etienne; Dibner, Charna (2018) Transcriptomic analyses reveal rhythmic and CLOCK-driven pathways in human skeletal muscle. eLife 7 e34114.
  • Tanyi, Janos L.; Bobisse, Sara; Ophir, Eran; Tuyaerts, Sandra; Roberti, Annalisa; Genolet, Raphael; Baumgartner, Petra; Stevenson, Brian J.; Iseli, Christian; Dangaj, Denarda; Czerniecki, Brian; Semilietof, Aikaterini; Racle, Julien; Michel, Alexandra; Xenarios, Ioannis; Chiang, Cheryl; Monos, Dimitri S.; Torigian, Drew A.; Nisenbaum, Harvey L.; Michielin, Olivier; June, Carl H.; Levine, Bruce L.; Powell, Daniel J.; Gfeller, David; Mick, Rosemarie; Dafni, Urania; Zoete, Vincent; Harari, Alexandre; Coukos, George; Kandalaft, Lana E. (2018) Personalized cancer vaccine effectively mobilizes antitumor T cell immunity in ovarian cancer. Sci. Transl. Med. 10 (436) eaao5931.
  • Walter, Wencke; Alonso-Herranz, Laura; Trappetti, Verdiana; Crespo, Isaac; Ibberson, Mark; Cedenilla, Marta; Karaszewska, Anna; Núñez, Vanessa; Xenarios, Ioannis; Arroyo, Alicia G.; Sánchez-Cabo, Fátima; Ricote, Mercedes (2018) Deciphering the Dynamic Transcriptional and Post-transcriptional Networks of Macrophages in the Healthy Heart and after Myocardial Injury. Cell Rep. 23 (2) 622-636.
  • Wettmann, Lukas; Kruse, Karsten (2018) The Min-protein oscillations in Escherichia coli: an example of self-organized cellular protein waves. Philos. Trans. R. Soc., B 373 (1747) 20170111.
  • Kruse, Karsten; Sugihara, Kaori (2018) 2018 International Symposium on Chemical Biology of the NCCR Chemical Biology Campus Biotech, Geneva 10.–12.01.2018. CHIMIA 72 (3) 160-164.
  • Dhakshinamoorthy, Ranjani; Bitzhenner, Moritz; Cosson, Pierre; Soldati, Thierry; Leippe, Matthias (2018) The Saposin-Like Protein AplD Displays Pore-Forming Activity and Participates in Defense Against Bacterial Infection During a Multicellular Stage of Dictyostelium discoideum. Front. Cell. Infect. Microbiol. 8 art. 73.
  • Bobisse, Sara; Genolet, Raphael; Roberti, Annalisa; Tanyi, Janos L.; Racle, Julien; Stevenson, Brian J.; Iseli, Christian; Michel, Alexandra; Le Bitoux, Marie-Aude; Guillaume, Philippe; Schmidt, Julien; Bianchi, Valentina; Dangaj, Denarda; Fenwick, Craig; Derré, Laurent; Xenarios, Ioannis; Michielin, Olivier; Romero, Pedro; Monos, Dimitri S.; Zoete, Vincent; Gfeller, David; Kandalaft, Lana E.; Coukos, George; Harari, Alexandre (2018) Sensitive and frequent identification of high avidity neo-epitope specific CD8+ T cells in immunotherapy-naive ovarian cancer. Nat. Commun. 9 (1) Art. num:1092.
  • Trofimov, Valentin; Kicka, Sébastien; Mucaria, Sabrina; Hanna, Nabil; Ramon-Olayo, Fernando; Del Peral, Laura Vela-Gonzalez; Lelièvre, Joël; Ballell, Lluís; Scapozza, Leonardo; Besra, Gurdyal S.; Cox, Jonathan A. G.; Soldati, Thierry (2018) Antimycobacterial drug discovery using Mycobacteria-infected amoebae identifies anti-infectives and new molecular targets. Sci. Rep. 983 (Suppl 1) 403.
  • Trofimov, Valentin; Kicka, Sébastien; Mucaria, Sabrina; Hanna, Nabil; Ramon-Olayo, Fernando; Del Peral, Laura Vela-Gonzalez; Lelièvre, Joël; Ballell, Lluís; Scapozza, Leonardo; Besra, Gurdyal S.; Cox, Jonathan A. G.; Soldati, Thierry (2018) Antimycobacterial drug discovery using Mycobacteria-infected amoebae identifies anti-infectives and new molecular targets. Sci. Rep. 983 (Suppl 1) art. 3939.
  • Castillon, Guillaume A.; Burriat-Couleru, Patricia; Abegg, Daniel; Criado Santos, Nina; Watanabe, Reika (2018) Clathrin and AP1 are required for apical sorting of glycosyl phosphatidyl inositol-anchored proteins in biosynthetic and recycling routes in Madin-Darby canine kidney cells. Traffic 19 (3) 215-228.
  • Kruse, Karsten; Chiaruttini, Nicolas; Roux, Aurélien (2018) Optical control of cytoplasmic flows. Nat. Cell Biol. 20 227-228.
  • Harayama, Takeshi; Riezman, Howard (2018) Understanding the diversity of membrane lipid composition. Nat. Rev. Mol. Cell Biol. 19 281-296.
  • Kaksonen, Marko; Roux, Aurélien (2018) Mechanisms of clathrin-mediated endocytosis. Nat. Rev. Mol. Cell Biol. 19 313-326.
  • Feng, Suihan; Harayama, Takeshi; Montessuit, Sylvie; David, Fabrice P. A.; Winssinger, Nicolas; Martinou, Jean-Claude; Riezman, Howard (2018) Mitochondria-specific photoactivation to monitor local sphingosine metabolism and function. eLife 7 e34555.
  • Carlini, Lina; Mahecic, Dora; Kleele, Tatjana; Roux, Aurelien; Manley, Suliana (2018) Membrane bending energy and tension govern mitochondrial division. bioRxiv, Biophys.. [accepted]
  • Bekkar, Amel Dorier, Julien Crespo, Isaac Niknejad, Anne Bridge, Alan Xenarios, Ioannis (2018) Generation of Molecular Models and Pathways. Integration of Omics Approaches and Systems Biology for Clinical Applications Integration of Omics Approaches and Systems Biology for Clinical Applications 28 (Chapter 16)Ed. Vlahou, Antonia Mischak, Harald Zoidakis, Jerome Magni, FulvioJohn Wiley & Sons, Inc.. 111-285.
  • Zhou, Xiao; Friedmann, Kim S.; Lyrmann, Hélène; Zhou, Yan; Schoppmeyer, Rouven; Knörck, Arne; Mang, Sebastian; Hoxha, Cora; Angenendt, Adrian; Backes, Christian S.; Mangerich, Carmen; Zhao, Renping; Cappello, Sabrina; Schwär, Gertrud; Hässig, Carmen; Neef, Marc; Bufe, Bernd; Zufall, Frank; Kruse, Karsten; Niemeyer, Barbara A.; Lis, Annette; Qu, Bin; Kummerow, Carsten; Schwarz, Eva C.; Hoth, Markus (2018) A calcium optimum for cytotoxic T lymphocyte and natural killer cell cytotoxicity. J. Physiol. 596 (14) 2681-2698.
  • Garcia-Alai, Maria M.; Heidemann, Johannes; Skruzny, Michal; Gieras, Anna; Mertens, Haydyn D. T.; Svergun, Dmitri I.; Kaksonen, Marko; Uetrecht, Charlotte; Meijers, Rob (2018) Epsin and Sla2 form assemblies through phospholipid interfaces. Nat. Commun. 9 (1) 328.
  • Cardenal-Muñoz, Elena; Barisch, Caroline; Lefrançois, Louise H.; López-Jiménez, Ana T.; Soldati, Thierry (2018) When Dicty Met Myco, a (Not So) Romantic Story about One Amoeba and Its Intracellular Pathogen. Front. Cell. Infect. Microbiol. 2 art. 529.
  • Tanasescu, Radu; Mettal, Ute; Colom, Adai; Roux, Aurélien; Zumbuehl, Andreas (2018) Facile and Rapid Formation of Giant Vesicles from Glass Beads. Polymers 10 (1) 54/1-54/11.
  • Dunn, Joe Dan; Bosmani, Cristina; Barisch, Caroline; Raykov, Lyudmil; Lefrançois, Louise H.; Cardenal-Muñoz, Elena; López-Jiménez, Ana Teresa; Soldati, Thierry (2018) Eat Prey, Live: Dictyostelium discoideum As a Model for Cell-Autonomous Defenses. Front. Immunol. 8 art. 1906.
  • Diop, ElHadji Assane; Queiroz, Emerson Ferreira; Kicka, Sébastien; Rudaz, Serge; Diop, Tahir; Soldati, Thierry; Wolfender, Jean-Luc (2018) Survey on medicinal plants traditionally used in Senegal for the treatment of tuberculosis (TB) and assessment of their antimycobacterial activity. J. Ethnopharmacol. 216 71-78.
  • Gueneau, Lucie; Fish, Richard J.; Shamseldin, Hanan E.; Voisin, Norine; Tran Mau-Them, Frédéric; Preiksaitiene, Egle; Monroe, Glen R.; Lai, Angeline; Putoux, Audrey; Allias, Fabienne; Ambusaidi, Qamariya; Ambrozaityte, Laima; Cimbalistien?, Loreta; Delafontaine, Julien; Guex, Nicolas; Hashem, Mais; Kurdi, Wesam; Jamuar, Saumya Shekhar; Ying, Lim J.; Bonnard, Carine; Pippucci, Tommaso; Pradervand, Sylvain; Roechert, Bernd; van Hasselt, Peter M.; Wiederkehr, Michaël; Wright, Caroline F.; Xenarios, Ioannis; van Haaften, Gijs; Shaw-Smith, Charles; Schindewolf, Erica M.; Neerman-Arbez, Marguerite; Sanlaville, Damien; Lesca, Gaëtan; Guibaud, Laurent; Reversade, Bruno; Chelly, Jamel; Kučinskas, Vaidutis; Alkuraya, Fowzan S.; Reymond, Alexandre (2018) KIAA1109 Variants Are Associated with a Severe Disorder of Brain Development and Arthrogryposis. Am. J. Hum. Genet. 102 (1) 116-132.
  • Kawano, Shin; Tamura, Yasushi; Kojima, Rieko; Bala, Siqin; Asai, Eri; Michel, Agnès H.; Kornmann, Benoît; Riezman, Isabelle; Riezman, Howard; Sakae, Yoshitake; Okamoto, Yuko; Endo, Toshiya (2018) Structure–function insights into direct lipid transfer between membranes by Mmm1–Mdm12 of ERMES. J. Cell Biol. 217 (3) 959-974.
  • Nicolussi, Andrea; Dunn, Joe Dan; Mlynek, Georg; Bellei, Marzia; Zamocky, Marcel; Battistuzzi, Gianantonio; Djinović-Carugo, Kristina; Furtmüller, Paul G.; Soldati, Thierry; Obinger, Christian (2018) Secreted heme peroxidase from Dictyostelium discoideum: Insights into catalysis, structure, and biological role. J. Biol. Chem. 293 (4) 1330-1345.
  • Egea, Javier; Fabregat, I.; Frapart, Y.M.; Ghezzi, P.; Görlach, A.; Kietzmann, T.; Kubaichuk, K.; Knaus, U.G.; Lopez, M.G.; Olaso-Gonzalez, G.; Petry, A.; Schulz, R.; Vina, J.; Winyard, P.; Abbas, K.; Ademowo, O.S.; Afonso, C.B.; Andreadou, I.; Antelmann, H.; Antunes, F.; Aslan, M.; Bachschmid, M.M.; Barbosa, R.M.; Belousov, V.; Berndt, C.; Bernlohr, D.; Bertrán, E.; Bindoli, A.; Bottari, S.P.; Brito, P.M.; Carrara, G.; Casas, A.I.; Chatzi, A.; Chondrogianni, N.; Conrad, M.; Cooke, M.S.; Costa, J.G.; Cuadrado, A.; My-Chan Dang, P.; De Smet, B.; Debelec-Butuner, B.; Dias, I.H.K.; Dunn, J.D.; Edson, A.J.; El Assar, M.; El-Benna, J.; Ferdinandy, P.; Fernandes, A.S.; Fladmark, K.E.; Förstermann, U.; Giniatullin, R.; Giricz, Z.; Görbe, A.; Griffiths, H.; Hampl, V.; Hanf, A.; Herget, J.; Hernansanz-Agustín, P.; Hillion, M.; Huang, J.; Ilikay, S.; Jansen-Dürr, P.; Jaquet, V.; Joles, J.A.; Kalyanaraman, B.; Kaminskyy, D.; Karbaschi, M.; Kleanthous, M.; Klotz, L.O.; Korac, B.; Korkmaz, K.S.; Koziel, R.; Kračun, D.; Krause, K.H.; Křen, V.; Krieg, T.; Laranjinha, J.; Lazou, A.; Li, H.; Martínez-Ruiz, A.; Matsui, R.; McBean, G.J.; Meredith, S.P.; Messens, J.; Miguel, V.; Mikhed, Y.; Milisav, I.; Milković, L.; Miranda-Vizuete, A.; Mojović, M.; Monsalve, M.; Mouthuy, P.A.; Mulvey, J.; Münzel, T.; Muzykantov, V.; Nguyen, I.T.N.; Oelze, M.; Oliveira, N.G.; Palmeira, C.M.; Papaevgeniou, N.; Pavićević, A.; Pedre, B.; Peyrot, F.; Phylactides, M.; Pircalabioru, G.G.; Pitt, A.R.; Poulsen, H.E.; Prieto, I.; Rigobello, M.P.; Robledinos-Antón, N.; Rodríguez-Mañas, L.; Rolo, A.P.; Rousset, F.; Ruskovska, T.; Saraiva, N.; Sasson, S.; Schröder, Katrin; Semen, Khrystyna; Seredenina, Tamara; Shakirzyanova, Anastasia; Smith, Geoffrey L.; Soldati, Thierry; Sousa, Bebiana C.; Spickett, Corinne M.; Stancic, Ana; Stasia, Marie José; Steinbrenner, Holger; Stepanić, Višnja; Steven, Sebastian; Tokatlidis, Kostas; Tuncay, Erkan; Turan, Belma; Ursini, Fulvio; Vacek, Jan; Vajnerova, Olga; Valentová, Kateřina; Van Breusegem, Frank; Varisli, Lokman; Veal, Elizabeth A.; Yalçın, A. Suha; Yelisyeyeva, Olha; Žarković, Neven; Zatloukalová, Martina; Zielonka, Jacek; Touyz, Rhian M.; Papapetropoulos, Andreas; Grune, Tilman; Lamas, Santiago; Schmidt, Harald H. H. W.; Di Lisa, Fabio; Daiber, Andreas (2018) Corrigendum to “European contribution to the study of ROS: A summary of the findings and prospects for the future from the COST action BM1203 (EU-ROS)”  [Redox Biol. 13 (2017) 94–162]. Redox Biol. 14 694-696.
  • Shinde, Abhijit Babaji; Baboota, Ritesh Kumar; Denis, Simone; Loizides-Mangold, Ursula; Peeters, Annelies; Espeel, Marc; Malheiro, Ana Rita; Riezman, Howard; Vinckier, Stefan; Vaz, Frédéric M.; Brites, Pedro; Ferdinandusse, Sacha; Van Veldhoven, Paul P.; Baes, Myriam (2018) Mitochondrial disruption in peroxisome deficient cells is hepatocyte selective but is not mediated by common hepatic peroxisomal metabolites. Mitochondrion 39 51-59.
  • Merzouki, Aziza; Malaspinas, Orestis; Trushko, Anastasiya; Roux, Aurélien; Chopard, Bastien (2018) Influence of cell mechanics and proliferation on the buckling of simulated tissues using a vertex model. Nat. Comput. 17 (3) 511-519.