France-BioImaging

A National Research Infrastructure for Biological Imaging

2017
Publication

Temporally precise single-cell-resolution optogenetics

Nature Neuroscience

Authors: Shemesh, Or A.; Tanese, Dimitrii; Zampini, Valeria; Linghu, Changyang; Piatkevich, Kiryl; Ronzitti, Emiliano; Papagiakoumou, Eirini; Boyden, Edward S.; Emiliani, Valentina
Date: 2017-11-13 • Pages: 1796–1806 • DOI: 10.1038/s41593-017-0018-8

2017
Publication

Localization-based super-resolution imaging meets high-content screening

Nature Methods

Authors: Beghin, Anne; Kechkar, Adel; Butler, Corey; Levet, Florian; Cabillic, Marine; Rossier, Olivier; Giannone, Gregory; Galland, Remi; Choquet, Daniel; Sibarita, Jean-Baptiste
Date: 2017-10-30 • Pages: 1184–1190 • DOI: 10.1038/nmeth.4486

2017
Publication

Angular reconstitution-based 3D reconstructions of nanomolecular structures from superresolution light-microscopy images.

Proc Natl Acad Sci U S A.

Authors: Salas D, Le Gall A, Fiche JB, Valeri A, Ke Y, Bron P, Bellot G, Nollmann M
Date: 2017-08-15 • PMID: 28811371

2017
Publication

Highly efficient multicolor multifocus microscopy by optimal design of diffraction binary gratings.

Sci Rep

Authors: Hajj B, Oudjedi L, Fiche JB, Dahan M, Nollmann M.
Date: 2017-07-13

2017
Publication

eC-CLEM: flexible multidimensional registration software for correlative microscopies

Nature Methods

Authors: Perrine Paul-Gilloteaux, Xavier Heiligenstein, Martin Belle, Marie-Charlotte Domart, Banafshe Larijani, Lucy Collinson, Graça Raposo & Jean Salamero
Date: 2017-01-31 • PMID: 26725201 • DOI: 10.1038/nmeth.4170

2016
Publication

The mechanism of force transmission at bacterial focal adhesion complexes.

Nature

Authors: Faure LM, Fiche JB, Espinosa L, Ducret A, Anantharaman V, Luciano J, Lhospice S, Islam ST, Tréguier J, Sotes M, Kuru E, Van Nieuwenhze MS, Brun YV, Théodoly O, Aravind L, Nollmann M, Mignot T.
Date: 2016-11-24 • Pages: 539(7630):530-535 • PMID: 27749817

2016
Publication

Bacterial partition complexes segregate within the volume of the nucleoid

Nature Communications

Authors: Le Gall A, Cattoni DI, Guilhas B, Mathieu-Demazière C, Oudjedi L, Fiche JB, Rech J, Abrahamsson S, Murray H, Bouet JY, Nollmann M.
Date: 2016-07-05 • Pages: 12107 • PMID: 27377966

2016
Publication

Astigmatic multifocus microscopy enables deep 3D super-resolved imaging.

Biomedical Optics Express

Authors: Oudjedi L, Fiche JB, Abrahamsson S, Mazenq L Lecestre A, Calmon PF, Cerf A, Nöllmann M
Date: 2016-05-13 • Pages: 2163-73 • PMID: 2737593

2016
Publication

Nanometer resolved single-molecule colocalization of nuclear factors by two-color super resolution microscopy imaging

Methods

Authors: Mariya Georgieva; Diego I Cattoni; Jean-Bernard Fiche; Thibaut Mutin; Delphine Chamousset; Marcelo Nollmann
Date: 2016-04-01

2016
Publication

Astigmatic multifocus microscopy enables deep 3D super-resolved imaging

Biomedical Optics Express

Authors: Laura Oudjedi; Jean-Bernard Fiche; Sara Abrahamsson; Laurent Mazenq; Aurélie Lecestre; Pierre-François Calmon; Aline Cerf; Marcelo Nöllmann
Date: 2016-04-01

2016
Publication

A Guided Tour of Selected Image Processing and Analysis Methods for Fluorescence and Electron Microscopy

IEEE Journal of Selected Topics in Signal Processing (Special issue on Advanced Signal Processing in Microscopy and Cell Imaging)

Authors: Charles Kervrann, Carlos Oscar Sorzano, Scott Acton, Jean-Christophe Olivo-Marin, Michael Unser
Date: 2016-02-01 • Pages: 6-30 • DOI: 10.1109/JSTSP.2015.2505402

2016
Publication

Counting-based particle flux estimation for traffic analysis in live cell imaging

IEEE Journal of Selected Topics in Signal Processing (Special issue on Advanced Signal Processing in Microscopy and Cell Imaging)

Authors: T. Pécot, C. Kervrann, J. Salamero, J. Boulanger
Date: 2016-02-01 • Pages: 203-216 • DOI: 10.1109/JSTSP.2015.2482460

2015
Publication

Combining Spinach-tagged RNA and gene localization to image gene expression in live yeast

NATURE COMMUNICATIONS

Authors: Guet, D ; Burns, LT ; Maji, S ; Boulanger, J ; Hersen, P ; Wente, SR ; Salamero, J ; Dargemont, C
Date: 2015-11-01 • DOI: 10.1038/ncomms9882

2015
Publication

Adaptive spot detection with optimal scale selection in fluorescence microscopy images

IEEE Transactions on Image Processing

Authors: A. Basset, J. Boulanger, J. Salamero, P. Bouthemy, C. Kervrann
Date: 2015-11-01 • Pages: 4512-4527 • DOI: 10.1109/TIP.2015.2450996

2015
Publication

Diacylglycerol Guides the Hopping of Clathrin-Coated Pits along Microtubules for Exo-Endocytosis Coupling

Developmental cell

Authors: Yuan T, Liu L, Zhang Y, Wei L, Zhao S, Zheng X, Huang X, Boulanger J, Gueudry C, Lu J, Xie L, Du W, Zong W, Yang L, Salamero J, Liu Y, Chen L
Date: 2015-10-12 • Pages: 120-30 • PMID: 26439397 • DOI: 10.1016/j.devcel.2015.09.004

2015
Publication

Diacylglycerol Guides the Hopping of Clathrin-Coated Pits along Microtubules for Exo-Endocytosis Coupling

Developmental Cell

Authors: Yuan T, Liu L, Zhang Y, Wei L, Zhao S, Zheng X, Huang X, Boulanger J, Gueudry C, Lu J, Xie L, Du W, Zong W, Yang L, Salamero J, Liu Y, Chen L
Date: 2015-10-01 • PMID: 26439397

2015
Publication

RUN and FYVE domain-containing protein 4 enhances autophagy and lysosome tethering in response to Interleukin-4

JOURNAL OF CELL BIOLOGY

Authors: Terawaki, S ; Camosseto, V ; Prete, F ; Wenger, T ; Papadopoulos, A ; Rondeau, C ; Combes, A ; Rodrigues, CR; Manh, TPV ; Fallet, M ; English, L ; Santamaria, R ; Soares, AR ; Weil, T ; Hammad, H ; Desjardins, M ; Gorvel, JP ; Santos, MAS ; Gatti, E ; Pierre, P
Date: 2015-09-28 • DOI: 10.1083/jcb.201501059

2015
Publication

Adaptive optics in spinning disk microscopy: improved contrast and brightness by a simple and fast method

Journal of Microscopy

Authors: Fraisier V, Clouvel G, Jasaitis A, Dimitrov A, Piolot T, Salamero J
Date: 2015-09-01 • PMID: 25940062

2015
Publication

Condensin- and Replication-Mediated Bacterial Chromosome Folding and Origin Condensation Revealed by Hi-C and Super-resolution Imaging

MOLECULAR CELL

Authors: Marbouty, M ; Le Gall, A ; Cattoni, DI ; Cournac, A ; Koh, A ; Fiche, JB ; Mozziconacci, J ; Murray, H ; Koszul, R ; Nollmann, M
Date: 2015-08-20 • DOI: 10.1016/j.molcel.2015.07.020

2015
Publication

A self-organized biomechanical network drives shape changes during tissue morphogenesis

NATURE

Authors: Munjal, A ; Philippe, JM ; Munro, E ; Lecuit, T
Date: 2015-08-20 • DOI: 10.1038/nature14603

2015
Publication

Condensin- and Replication-Mediated Bacterial Chromosome Folding and Origin Condensation Revealed by Hi-C and Super-resolution Imaging.

Molecular Cell

Authors: Marbouty M, Le Gall A, Cattoni DI, Cournac A, Koh A, Fiche JB, Mozziconacci J, Murray H, Koszul R, Nollmann M.
Date: 2015-08-20 • Pages: 588-602 • PMID: 26295962

2015
Publication

Extracellular vesicles shuffling intercellular messages: for good or for bad

CURRENT OPINION IN CELL BIOLOGY

Authors: Lo Cicero, A ; Stahl, PD ; Raposo, G
Date: 2015-08-01 • DOI: 10.1016/j.ceb.2015.04.013

2015
Publication

Optic flow modeling and computation: a survey

Computer Vision and Image Understanding

Authors: D. Fortun, P. Bouthemy, C. Kervrann
Date: 2015-05-01 • Pages: 134:1-21 • DOI: doi:10.1016/j.cviu.2015.02.008

2015
Publication

Background fluorescence estimation and vesicle segmentation in live cell imaging with conditional random fields

IEEE transactions on image processing : a publication of the IEEE Signal Processing Society

Authors: Pécot T, Bouthemy P, Boulanger J, Chessel A, Bardin S, Salamero J, Kervrann C
Date: 2015-02-01 • Pages: 667-80 • PMID: 25531952

2014
Publication

Fast high-resolution 3D total internal reflection fluorescence microscopy by incidence angle scanning and azimuthal averaging

Proceedings of the National Academy of Sciences of the United States of America

Authors: Boulanger J, Gueudry C, Münch D, Cinquin B, Paul-Gilloteaux P, Bardin S, Guérin C, Senger F, Blanchoin L, Salamero J
Date: 2014-12-01 • Pages: 17164-9 • PMID: 25404337

2014
Publication

The CryoCapsule: simplifying correlative light to electron microscopy

Traffic (Copenhagen, Denmark)

Authors: Heiligenstein X, Heiligenstein J, Delevoye C, Hurbain I, Bardin S, Paul-Gilloteaux P, Sengmanivong L, Régnier G, Salamero J, Antony C, Raposo G
Date: 2014-06-01 • Pages: 700-16 • PMID: 24533564

2014
Publication

Independent synchronized control and visualization of interactions between living cells and organisms

Biophysical journal

Authors: Rouger V, Bordet G, Couillault C, Monneret S, Mailfert S, Ewbank JJ, Pujol N, Marguet D
Date: 2014-05-20 • Pages: 2096-104 • PMID: 24853738

2014
Publication

Disassembly kinetics of quinone-methide-based self-immolative spacers that contain aromatic nitrogen heterocycles

Chemistry, an Asian journal

Authors: Alouane A, Labruère R, Silvestre KJ, Le Saux T, Schmidt F, Jullien L
Date: 2014-05-01 • Pages: 1334-40 • PMID: 24652669

2014
Publication

“Hyper-bright” near-infrared emitting fluorescent organic nanoparticles for single particle tracking

Advanced materials (Deerfield Beach, Fla.)

Authors: Genin E, Gao Z, Varela JA, Daniel J, Bsaibess T, Gosse I, Groc L, Cognet L, Blanchard-Desce M
Date: 2014-04-01 • Pages: 2258-61, 2257 • PMID: 24497445

2014
Publication

Neutral lipid stores and lipase PNPLA5 contribute to autophagosome biogenesis

Current biology : CB

Authors: Dupont N, Chauhan S, Arko-Mensah J, Castillo EF, Masedunskas A, Weigert R, Robenek H, Proikas-Cezanne T, Deretic V
Date: 2014-03-17 • Pages: 609-20 • PMID: 24613307

2014
Publication

Oxidative stress-induced assembly of PML nuclear bodies controls sumoylation of partner proteins

The Journal of cell biology

Authors: Sahin U, Ferhi O, Jeanne M, Benhenda S, Berthier C, Jollivet F, Niwa-Kawakita M, Faklaris O, Setterblad N, de Thé H, Lallemand-Breitenbach V
Date: 2014-03-17 • Pages: 931-45 • PMID: 24637324

2014
Publication

In vitro characterization of Fluorescence by Unbound Excitation from Luminescence: broadening the scope of energy transfer

Methods (San Diego, Calif.)

Authors: Holland AD, Rückerl F, Dragavon JM, Rekiki A, Tinevez JY, Tournebize R, Shorte SL
Date: 2014-03-15 • Pages: 353-61 • PMID: 24045025

2014
Publication

Large parallelization of STED nanoscopy using optical lattices

Optics express

Authors: Yang B, Przybilla F, Mestre M, Trebbia JB, Lounis B
Date: 2014-03-10 • Pages: 5581-9 • PMID: 24663899

2014
Publication

Objective comparison of particle tracking methods

Nature methods

Authors: Chenouard N, Smal I, de Chaumont F, Maška M, Sbalzarini IF, Gong Y, Cardinale J, Carthel C, Coraluppi S, Winter M, Cohen AR, Godinez WJ, Rohr K, Kalaidzidis Y, Liang L, Duncan J, Shen H, Xu Y, Magnusson KE, Jaldén J, Blau HM, Paul-Gilloteaux P, Roudot P, Kervrann C, Waharte F, Tinevez JY, Shorte SL, Willemse J, Celler K, van Wezel GP, Dan HW, Tsai YS, Ortiz de Solórzano C, Olivo-Marin JC, Meijering E
Date: 2014-03-01 • Pages: 281-9 • PMID: 24441936

2014
Publication

Eliminating unwanted far-field excitation in objective-type TIRF. Part I. identifying sources of nonevanescent excitation light

Biophysical journal

Authors: Brunstein M, Teremetz M, Hérault K, Tourain C, Oheim M
Date: 2014-03-01 • Pages: 1020-32 • PMID: 24606927

2014
Publication

Photocontrolled Ionization in the Corona of Rodlike Assemblies of Diblock Copolymers

Macromolecules

Authors: Jing Sun, Lin Jia, Matthieu Emond, Min-Hui Li, Emmanuelle Marie, Ludovic Jullien, and Christophe Tribet
Date: 2014-02-19

2014
Publication

Multiplex cell and lineage tracking with combinatorial labels

Neuron

Authors: Loulier K, Barry R, Mahou P, Le Franc Y, Supatto W, Matho KS, Ieng S, Fouquet S, Dupin E, Benosman R, Chédotal A, Beaurepaire E, Morin X, Livet J
Date: 2014-02-01 • Pages: 505-20 • PMID: 24507188

2014
Publication

The 4 Notch receptors play distinct and antagonistic roles in the proliferation and hepatocytic differentiation of liver progenitors

FASEB journal : official publication of the Federation of American Societies for Experimental Biology

Authors: Ortica S, Tarantino N, Aulner N, Israël A, Gupta-Rossi N
Date: 2014-02-01 • Pages: 603-14 • PMID: 24145721

2014
Publication

Structure and DNA-binding properties of the Bacillus subtilis SpoIIIE DNA translocase revealed by single-molecule and electron microscopies

Nucleic acids research

Authors: Cattoni DI, Thakur S, Godefroy C, Le Gall A, Lai-Kee-Him J, Milhiet PE, Bron P, Nöllmann M
Date: 2014-02-01 • Pages: 2624-36 • PMID: 24297254

2014
Publication

Conical diffraction illumination opens the way for low phototoxicity super-resolution imaging

Cell adhesion & migration

Authors: Caron J, Fallet C, Tinevez JY, Moisan L, Braitbart LP, Sirat GY, Shorte SL
Date: 2014-01-01 • Pages: 430-9 • PMID: 25482642

2014
Publication

Setting up a simple light sheet microscope for in toto imaging of C. elegans development

Journal of visualized experiments : JoVE

Authors: Chardès C, Mélénec P, Bertrand V, Lenne PF
Date: 2014-01-01 • PMID: 24836407

2014
Publication

Pharmacological assessment defines Leishmania donovani casein kinase 1 as a drug target and reveals important functions in parasite viability and intracellular infection

Antimicrobial agents and chemotherapy

Authors: Rachidi N, Taly JF, Durieu E, Leclercq O, Aulner N, Prina E, Pescher P, Notredame C, Meijer L, Späth GF
Date: 2014-01-01 • Pages: 1501-15 • PMID: 24366737

2014
Publication

Mapping the energy and diffusion landscapes of membrane proteins at the cell surface using high-density single-molecule imaging and Bayesian inference: application to the multiscale dynamics of glycine receptors in the neuronal membrane

Biophysical journal

Authors: Masson JB, Dionne P, Salvatico C, Renner M, Specht CG, Triller A, Dahan M
Date: 2014-01-01 • Pages: 74-83 • PMID: 24411239

2013
Publication

Principles of E-cadherin supramolecular organization in vivo

Current biology : CB

Authors: Truong Quang BA, Mani M, Markova O, Lecuit T, Lenne PF
Date: 2013-11-18 • Pages: 2197-207 • PMID: 24184100

2013
Publication

Full-field dual-color 100-nm super-resolution imaging reveals organization and dynamics of mitochondrial and ER networks

Optics express

Authors: Brunstein M, Wicker K, Hérault K, Heintzmann R, Oheim M
Date: 2013-11-01 • Pages: 26162-73 • PMID: 24216840

2013
Publication

Non-invasive monitoring of cell metabolism and lipid production in 3D engineered human adipose tissues using label-free multiphoton microscopy

Biomaterials

Authors: Chang T, Zimmerley MS, Quinn KP, Lamarre-Jouenne I, Kaplan DL, Beaurepaire E, Georgakoudi I
Date: 2013-11-01 • Pages: 8607-16 • PMID: 23932290

2013
Publication

Gold nanoparticles for enhanced single molecule fluorescence analysis at micromolar concentration

Optics express

Authors: Punj D, de Torres J, Rigneault H, Wenger J
Date: 2013-11-01 • Pages: 27338-43 • PMID: 24216956

2013
Publication

New tools for investigating astrocyte-to-neuron communication

Front Cell Neuroscience

Authors: Dongdong Li, Cendra Agulhon, Elke Schmidt, Martin Oheim, and Nicole Ropert
Date: 2013-10-29 • PMID: PMC3810613

2013
Publication

Automated Processing of Zebrafish Imaging Data: A Survey

Zebrafish. 2013 Sep; 10(3): 401–421.

Authors: Ralf Mikut, Thomas Dickmeis, Wolfgang Driever, Pierre Geurts, Fred A. Hamprecht, Bernhard X. Kausler, María J. Ledesma-Carbayo, Raphaël Marée, Karol Mikula, Periklis Pantazis, Olaf Ronneberger, Andres Santos, Rainer Stotzka, Uwe Strähle, and Nadine Peyriéras
Date: 2013-09-10