Cette action nationale de formation regroupe 160 personnes, techniciens, ingénieurs, chercheurs de centres de recherches, voulant approfondir leurs connaissances en microscopie corrélative.

L’objectif de cette formation est de présenter différentes techniques de microscopie corrélative en essayant de présenter les techniques et les appareils utilisés le plus précisément possible.
Les corrélations abordées concerneront les techniques de microscopie optique classique et à fluorescence, la microscopie électronique à balayage et à transmission, le NanoSIMS, la Fluo-RX et le synchrotron.
Des présentations et des ateliers permettront de bien approfondir les outils utilisés de la préparation des échantillons à la corrélation des images.

Date limite pour les inscriptions : 15 Avril 2021

Crédit image header: Cosenza, M. R. et al. Asymmetric Centriole Numbers at Spindle Poles Cause Chromosome Missegregation in Cancer. CellReports 20, 1906–1920 (2017)

The FOM2021 online  conference will start on Sunday morning, March 28 at 11:30 hrs, and is preceded by free tutorials starting Sunday, 9:15 hrs. Please note that these are local times in Amsterdam which is Central European Time (CET).

Both lectures and posters will be presented “live” by the presenting author. Whole oral sessions will be recorded and be accessible by participants during and after the conference for approximately two months. Contributions will not be recorded and accessible individually.

If you wish to be kept informed on updates, please leave your email address at FocusOnMicroscopy.org/stayinformed.

Key subjects for the conference series are the theory and practice of 3D optical imaging, related 3D image processing, and especially developments in resolution and imaging modalities. The conference series covers also the rapidly advancing fluorescence labeling techniques for confocal and multi-photon 3D imaging of -live- biological specimens.

Typical topics of the upcoming FOM2021 online conference include:

  • Theory and practice of confocal and multiphoton-excitation microscopy
  • Super-resolution/ nanoscopy imaging including: PSF engineering (4pi, SIM, STED), fluorescence activation/quenching, stochastic/centroid (PALM, STORM, GSDIM, SOFI and related techniques), TIRF
  • 3D and 4D live cell and tissue imaging
  • Adaptive optics for microscopy
  • Light sheet microscopy
  • Phase/interference based microscopies
  • OCT, holographic, endoscopy
  • Advanced fluorescence imaging/spectroscopy: FRET, FRAP, FLIM, FCS, SOFI
  • New fluorescent probes, proteins, quantum dots, single molecule imaging
  • Clearing and expansion techniques
  • Coherent non-linear microscopies: SHG, THG, SFG, CARS.
  • Multi-dimensional fluorescence and Raman spectroscopy imaging
  • Correlated microscopies, like light/electron
  • Laser manipulation and tracking, photo-activation
  • Fast acquisition, automated and high-content microscopy
  • 3D image processing and visualization of multidimensional data.

Programme: http://focusonmicroscopy.org/

Registration Deadline: March 25th, 2021

Direct and simultaneous observation of transcription and chromosome architecture in single cells with Hi-M

Andrés M. Cardozo Gizzi, Sergio M. Espinola, Julian Gurgo, Christophe Houbron, Jean-Bernard Fiche, Diego I. Cattoni, Marcelo Nollmann

Simultaneous observation of 3D chromatin organization and transcription at the single cell level and with high spatial resolution may hold the key to unveil the mechanisms regulating embryonic development, cell differentiation and even disease. We have recently developed Hi-M, a technology that allows for the sequential labelling, 3D imaging and localization of multiple genomic DNA loci together with RNA expression in single cells within whole, intact Drosophila embryos. Importantly, Hi-M enables simultaneous detection of RNA expression and chromosome organization without requiring sample unmounting and primary probe re-hybridization. Here, we provide a step-by-step protocol describing the design of probes, the preparation of samples, the stable immobilization of embryos into microfluidics chambers, and the complete procedure for image acquisition. The combined RNA/DNA fluorescence in situ hybridization procedure takes 4-5 days including embryo collection. In addition, we describe image analysis software to segment nuclei, detect genomic spots, correct for drift and produce Hi-M matrices. A typical Hi-M experiment takes 1-2 days to complete all rounds of labelling and imaging and 4 additional days for image analysis. This technology can be easily expanded to investigate cell differentiation in cultured cells, or organization of chromatin within complex tissues.

DOI https://doi.org/10.1038/s41596-019-0269-9

Contact: Marcelo Nolmann marcnol@gmail.com

ATP-driven separation of liquid phase condensates in bacteria

B. Guilhas, J.C. Walter, J. Rech, G. David, N.-O. Walliser, J. Palmeri, C., Mathieu-Demaziere, A. Parmeggiani, J.Y. Bouet, A. Le Gall1, M. Nollmann

Liquid-liquid phase separated (LLPS) states are key to compartmentalise components in the absence of membranes, however it is unclear whether LLPS condensates are actively and specifically organized in the sub-cellular space and by which mechanisms. Here, we address this question by focusing on the ParABS DNA segregation system, composed of a centromeric-like sequence (parS), a DNA-binding protein (ParB) and a motor (ParA). We show that parS-ParB associate to form nanometer-sized, round condensates. ParB molecules diffuse rapidly within the nucleoid volume, but display confined motions when trapped inside ParB condensates. Single ParB molecules are able to rapidly diffuse between different condensates, and nucleation is strongly favoured by parS. Notably, the ParA motor is required to prevent the fusion of ParB condensates. These results describe a novel active mechanism that splits, segregates and localises non-canonical LLPS condensates in the sub-cellular space.

Guilhas et al. revealed that the bacterial DNA segregation apparatus behaves as a non-canonical phase separation system. This apparatus employs an ATP-powered motor that splits nanometer-sized condensates and localizes them robustly within the nucleoid to ensure faithful transmission of genetic material.

DOI: https://doi.org/10.1016/j.molcel.2020.06.034

Contact: Marcelo Nolmann marcnol@gmail.com

The ability to communicate effectively with each other is one of the strongest predictors for our chances to get ahead in life. In their latest publication in Science Advances, scientists and engineers from IGF-Montpellier (CNRS, INSERM, Univ. Montpellier), IPAM platform (BioCampus Montpellier, France-Bioimaging Montpellier Node) and ARO-Israel demonstrated that this also holds true for GnRH neurons.

In humans and all vertebrates, species survival depends on a critical step during embryonic development: the migration of a small subset of GnRH neurons (about 2,000 in humans and less than 100 in fish) from the nose to the brain where they join the hypothalamus to control reproduction. Their latest results unveiled that GnRH neurons make a pause at the nose-brain frontier where they function as an inter-hemispheric network that is isolated from the rest of the brain. Only neurons that integrate into the network and are able to communicate with their neighbors will finally cross the barrier and make their way into the brain, towards their hypothalamic destination.

In other words, these GnRH neurons, that are critical for species persistence, face the same challenges like other immigrants: they must learn to communicate effectively if they are to integrate into their new world.

In this study, in vivo 2-photon microscopy was a key tool for:

  • Long term imaging with minimal bleaching and phototoxicity
  • Upright configuration enabling dorsal imaging of the fish in its natural position
  • Long-distance water-immersion objectives allowing imaging of deep tissue structures without sacrificing image quality
  • Fast calcium imaging
  • Imaging of red GECI using the higher wavelengths
  • Precise cell ablation
  • Photoactivation of ChR2 while monitoring Ca in the red channel
A graphical model illustrating the migration of a single GnRH neuron (marked by black border) from the nasal placode into the zebrafish brain.

M. Golan, J. Boulanger-Weill, A. Pinot, P. Fontanaud, A. Faucherre, D. S. Gajbhiye, L. Hollander-Cohen, T. Fiordelisio-Coll, A. O. Martin, P. Mollard, Synaptic communication mediates the assembly of a self-organizing circuit that controls reproduction. Sci. Adv. 7, eabc8475 (2021). doi: 10.1126/sciadv.abc8475

Contact: Patrice Mollard, IGF, Montpellier patrice.mollard@igf.cnrs.fr

L’appel à candidature pour le prix « Pierre Favard » 2021 de la Société Française des Microscopies est ouvert.

Ce prix récompense depuis 1989 des travaux de thèse réalisés dans une université française dans le domaine de la microscopie électronique, photonique, en champ proche, ou de la sonde atomique. Un prix est attribué en Sciences du Vivant et un autre en Sciences de la Matière. Ils sont décernés tous les deux ans. Pour cette édition, ils couronneront des travaux de thèse soutenus entre le 1er mars 2019 et le 28 février 2021. Chaque lauréat(e) est invité(e) à donner une conférence à l’issue de la remise du prix, lors de la réunion biennale de la Société qui est prévue à Reims du 5 au 9 Juillet 2021. Les prix (1000 € chacun) sont sponsorisés par des compagnies.

La date limite de dépôt des candidatures est fixée au 21 mars 2021.

Les présidents des jurys sont :
Jean-Marc Verbavatz (jean-marc.verbavatz@u-paris.fr) pour les Sciences du Vivant et
Martin Hytch (martin.hytch@cemes.fr) pour les Sciences de la Matière.

PRIX FAVARD : modalités de candidature.

Voir également: https://sfmu.fr/fr/bourses_prix/prix-favard/

1. Les candidats doivent fournir un exemplaire papier et une version « pdf » de leurs travaux de thèse, un curriculum vitae d’une page maximum et le fichier modèle ci-dessous dûment complété. Le dossier (papier et électronique) devra être envoyé au président de jury de leur discipline avec copie électronique au secrétariat de la SFμ (sfmu@sfmu.fr) et à la présidente (catherine.venien-bryan@upmc.fr).

2. Les candidats doivent être membre de la Société à la date de dépôt de leur dossier.
3. La Société Française des Microscopies prend en charge l’inscription au congrès de Reims, l’hébergement des lauréats (à hauteur de 90€/nuit) et rembourse le billet aller-retour en 2e classe (train) ou classe économique (pour la voie aérienne), sur présentation des factures originales et d’un ordre de mission sans frais.

Les deux présidents de jury nommés par le Conseil d’administration de la SFμ sont mandatés pour composer un jury de plusieurs personnes. Chaque jury est chargé de sélectionner et de classer les trois meilleurs candidats. Le Conseil de la SFμ, sur proposition des jurys et sur rapport des présidents, désigne les deux lauréats.

Important information for the registered participants: an email with the links to access the training videos was sent on February 15th, 2020. Please check your inbox and SPAM folder!

If you did not receive it, please send us an email to contact@france-bioimaging.org

If you registered after February 14th, 2021, you will receive an email with the links within two days.

France BioImaging (FBI) is organizing a remote training on Light-Sheet Fluorescence Microscopy (LSFM), which enable 3D imaging of biological samples with unprecedented spatio-temporal resolutions and low perturbing effects.

LSFM methods actually cover a large variety of implementations which allow imaging a wide range of sample types, from single cell to whole organs or organisms both live and fixed. These new imaging capabilities are revolutionizing the way we visualize our samples and address biological questions. However, imaging with a light-sheet microscope raises many questions about the choice of the set-up depending on the sample to image, the sample preparation and mounting protocols or the data management (storage, visualization, quantification). Thus, it can be difficult to find its way through the numerous microscope implementations, protocols and tools that have been extensively developed over the last 20 years. We therefore decided to review all those questions in a remote training.

Our goal is to help people who want to jump into the world of 3D imaging and are seeking the best solution for their samples and biological questions. In that perspective, we will provide a comprehensive picture including all the possibilities and challenges regarding LSFM.


The training will be divided in 3 parts:

  1. Theoretical courses on LSFM
  2. Practical demonstrations of several LSFM implementations available throughout the FBI infrastructure
  3. Live online question-and-answer session

For the two first parts, videos will be available on a Youtube FBI channel. The participants will have 3 weeks, from the 15th of February to the 5th of March 2021, to watch those videos and will be invited to ask questions or comment.

FBI experts will then answer all questions during a live interactive video chat on the third week of the training (5th of March where participants will have the opportunity to directly interact with the experts.


1.      Theoretical aspects of LSFM (15th to 26th of February 2021)

Here are the three main questions concerning the imaging with a light-sheet microscope: (1) what LSFM type should I use for my experiment, (2) How do I prepare and mount my sample, and (3) how to visualize and analyze my data sets. The first part of this training will address these three questions through three theoretical courses:

  • Course 1: Theoretical principles and numerous implementations overview of LSFM
    • P. Girard (Institut Jacques Monod, Paris-Centre)
  • Course 2: Sample preparation and mounting principles – highlight on clearing approaches
    • Carol Siret (CIML, Marseille)
  • Course 3: Reconstruction, Visualization and Analysis software overview.
    • Cesar Augusto Valades (Institut Curie, Paris-Centre),

2.      Practical demonstrations of several LSFM implementation and experiments (15th of February to 5th of March 2021)

In the second part of the training we will propose several videos on various systems available in the FBI laboratories and imaging platforms covering diverse types of LSFM design and applications.

Each video will feature a specific set-up and experts will present how to run an experiment on them focusing on three main aspects: (1) sample preparation and mounting methods, (2) image acquisition processes, and (3) visualization of the data-sets.

  • Lattice Light Sheet Microscope(Home-made  and 3i versions)
    • Mathieu Ducros (BIC, Bordeaux)
    • Ludovic Lecomte, Jean Salamero and Cesar Valaldes-Cruz (Institut Curie, Paris-Centre)
  • Single-objective Single Plane Illumination Microscope (soSPIM)Home-made
    • Rémi Galland (IINS, Bordeaux)
  • Dual inverted Single Plane Illumination Microscope (diSPIM)3i (Marianas)
    • Elric Esposito et Julien Fernandes (Institut Pasteur, Paris-Centre)
  • MuviSPIM – Luxendo
    • Sylvain De Rossi (MRI, Montpellier)
  • Ultramicroscope – LaVision Biotech
    • Carol Siret/Mathieu Fallet (CIML, Marseille)

3.      Questions & Answer interactive session (March 5th, 2021)

An online video session will conclude the training where FBI experts will answer all participants’ questions. You can ask questions either in advance in the comment box of the Youtube video, or during the Q&A session in a chat box. The Q&A session will be divided in sections, each related to a specific video.

To register:

In order to register to the Light-Sheet Fluorescence Microscopy remote training, please fill out the registration form available here.

Registration is free but mandatory in order to receive the links to the training videos.

Extended deadline: February 19th, 2021

We look forward to your participation !

Registration for France BioImaging Annual Meeting is now open!

France BioImaging is pleased to invite you to participate to France BioImaging 6th Annual Meeting.  For this edition, the meeting will be organized as a two-half days virtual meeting (from 9:00 AM to 1:00 PM) on February 4th & 5th, 2021.

This event, open to all members of the bioimaging community, aims to provide a platform to discuss pivotal subject matters in our field.

The 2021 program of the France BioImaging Annual meeting is built around two pillars:

  • February 4th: “Building and operating an integrated and open infrastructure for bioimaging
  • February 5th: “Latest and future developments in biological imaging

Registration is free but mandatory in order to receive the Zoom link: https://univ-nantes-fr.zoom.us/meeting/register/tJAof-itqjgjHNCQOGpsw4_2ERWm__3zUU0R


ZOOM Etiquette

We look forward to your participation!

Biogenouest propose une journée d’animation le 19 mars 2021 sur le thème « Symbiose et microscopie chez les microorganismes et les végétaux marins » . Les associations vont du mutualisme au parasitisme et lient intimement deux partenaires sur du long terme pour le meilleur comme pour le pire. La microscopie permet de révéler et d’étudier ces interactions au plus près des organismes, avec des techniques en pleine mutation. Cette journée leur est dédiée, écologues du milieu terrestre plus que bienvenus !



9:00 | TESTS

9:10 | Présentation des plates-formes de Bio-imagerie de Biogenouest par Perrine PAUL-GILLOTEAUX, plate-forme MicroPICell, Nantes
9:20 | Investigating the biodistribution of mCherry labelled Staphylococcus aureus in the porous wood material using confocal spectral laser microscopy par Muhammad TANVEER MUNIR, Ecole supérieure du bois, LIMBHA, Nantes
9:40 | Rôle des microRNA dans l’interaction plante-Rhizomicrobiome par Abdelhak EL AMRANI, UMR 6553 « Ecosystèmes, Biodiversité, Evolution » (ECOBIO), Rennes
10:00 | Régulations immunitaires impliquées dans le contrôle des bactéries endosymbiotiques et l’homéostasie de l’hôte par Abdelaziz HEDDI, UMR 0203 « Biologie Fonctionnelle Insectes et Interactions » (BF2I), Lyon
10:30 | Pause
10:50 | Apport de la microscopie photonique, électronique, tomo, CLEM pour l’étude des mécanismes cellulaires impliqués lors du processus de greffage chez Arabidopsis par Lysiane BROCARD, Bordeaux Imaging Center, Bordeaux
11:10 | Décryptage fonctionnel d’un virus mutualiste de guêpes parasitoïdes par Marc RAVALLEC & Anne Nathalie VOLKOFF, UMR 1333 « Diversité, Génomes & Interactions Microorganismes – Insectes » (DGIMI), Montpellier
11:40 | Etude du parasitisme au sein du plancton marin par des techniques d’imagerie haute résolution par Johan DECELLE, laboratoire physiologie cellulaire & végétale, CEA-Grenoble / Laure GUILLOU, UMR 7144 « Adaptation et Diversité en Milieu Marin », responsable scientifique de la plate-forme Merimage, Roscoff
12:00 | Conclusion

A l’occasion de la MorningTech Photonique & Santé organisée par Photonics Bretagne et Biotech Santé Bretagne le 2 février 2021 de 9h30 à 12h00, Marc Tramier, coordinateur du Nœud Bretagne-Loire de France BioImaging présentera “les technologies photoniques des plateformes de Biogenouest au service de l’imagerie pré-clinique“.

Programme et inscriptions: https://www.biotech-sante-bretagne.fr/agenda/morningtech-photonique-sante/

Imaging of proteins, cells, and tissues is critical to understanding health and disease. On December 2nd, 2020, the Chan Zuckerberg Initiative (CZI) announced nearly $32 million in funding to support biomedical imaging researchers, technology development, and the BioImaging North America international network of bioimaging facilities and communities. CZI also opened a new Request for Applications (RFA) aimed at supporting technology development that will allow researchers to see the inner workings of cells, including proteins, at near-atomic resolution to better understand what causes disease and how to develop treatments.

Frontiers of Imaging: Visual Proteomics 

The Frontiers of Imaging initiative, part of CZI’s broader Imaging program, supports the development of disruptive imaging technologies that connect biological scales across organs, cells, and proteins, allowing researchers to directly visualize biological processes at the necessary resolution and context to obtain a mechanistic understanding of health and disease. As part of the Frontiers initiative, the new Visual Proteomics Imaging RFA supports technology development that will allow researchers to see the inner workings of cells, including proteins, at near-atomic resolution. CZI invites scientists to apply for this 2 1/2-year grant opportunity to support the development of hardware, software, and methods. Examples of research themes could include hardware and software development to enhance contrast and resolution for electron tomography, high-resolution correlated light and electron microscopy (CLEM), and FIB-SEM; sample preparation improvements for electron tomography; and development of software or new computational techniques and algorithms for identifying protein molecules inside cells and segmenting sub-cellular structures.

The Visual Proteomics Imaging RFA accept applications until February 17, 2021 at 5 p.m. Pacific Time.

For more information and application instructions, please visit CZI’s online grants management portal.

For administrative and programmatic inquiries, technical assistance, or other questions pertaining to this RFA, please contact: sciencegrants@chanzuckerberg.com.

Learn more about CZI’s Frontiers of Imaging effort.

Congratulations to Emmanuel Beaurepaire (CNRS Research Director from the Laboratory for Optics and Biosciences CNRS-INSERM-Polytechnique), PI of the ERC Synergy Grant project “HOPE”, and to Laurent Groc (CNRS Research Director ; Interdisciplinary Institute for Neuroscience), coordinator of the ERC Synergy Grant projectENSEMBLE“, Laurent Cognet (CNRS Research Director ; Laboratoire photonique numérique et nanosciences) and U. Valentin Nägerl (Professor at University of Bordeaux ; CNRS Research Director ; Interdisciplinary Institute for Neuroscience), both PIs of the ERC Synergy Grant projectENSEMBLE“.

These grants, each worth around 10 million euro over six years, are designed to enable groups of 2 to 4 scientists to tackle some of the world’s most challenging research problems, spanning several scientific disciplines.

The ERC Synergy Grant scheme is part of the EU’s research and innovation programme, Horizon 2020.

ERC Synergy Grant project “HOPE”

Reverse engineering the assembly of the hippocampal scaffold with novel optical and transgenic strategies” 

  • Emmanuel Beaurepaire, Directeur de recherche CNRS au Laboratoire d’optique et biosciences – LOB (CNRS/École polytechnique/INSERM),
  • Rosa Cossart, Directrice de recherche CNRS (Unité INSERM, Aix-Marseille Univ.)
  • Jean Livet, chercheur INSERM à l’Institut de la vision (CNRS, INSERM, Sorbonne Univ.)

At the heart of our brain, a structure plays a key role in memory, and more particularly in the acquisition and maintenance of our memories: the hippocampus. Classically considered as a “cognitive GPS” for space and time, it is also the seat of our episodic memory.

Over the last decade, the neural circuits of the hippocampus have been better described, in particular by the team of Rosa Cossart, director of the Institut de neurobiologie de la méditerranée (Inmed), but the nature, origin and remodeling of these circuits during development and pathologies remain to be understood.

On the other hand, genetic engineering techniques for staining neurons, developed by Jean Livet, Inserm research director at the Institut de la vision, coupled with multi-photon microscopy developed by the team of Emmanuel Beaurepaire, CNRS research director at the Laboratoire d’optique et biosciences – LOB (illustration below / read the 2019 press release in French), have demonstrated their ability to accurately map the complex architecture of neuronal circuits and their evolution during development.

By combining these exceptional multidisciplinary advances, HOPE aims to answer three interdependent questions:

  • Is the architecture of the adult seahorse carried by specific circuits?
  • Are the circuits of the hippocampus pre-wired or shaped by experience?
  • How does this structure reorganize itself in pathological conditions?

HOPE aims to shed new light on the function of the hippocampus and the role of its neuronal circuits through the design of a new, non-invasive and universal method to monitor the growth and construction of brain circuits located deep in the brain, from their neurogenesis to adulthood, under normal and pathological conditions.

Developed by the LOB team, ChroMS is a new microscopy technique combining color, 3D and high resolution, introducing a real revolution in vertebrate brain imaging. © Lamiae ABDELADIM / LOB / Institut de la Vision / CNRS Photothèque

Taken from CNRS Press release: https://www.iledefrance-gif.cnrs.fr/fr/cnrsinfo/erc-synergy-grant-2020-3-projets-impliquant-le-cnrs-sur-le-territoire-paris-saclay

ERC Synergy Grant project “ENSEMBLE”

“Structure and functions of the brain extracellular space

  • Laurent Groc (Research Director CNRS ; Interdisciplinary Institute for Neuroscience), 
  • Erwan Bézard (Research Director INSERM; Institute of Neurodegenerative Disorders), 
  • Laurent Cognet (Research Director CNRS ; Laboratoire photonique numérique et nanosciences)
  • U. Valentin Nägerl (Professor at University of Bordeaux ; Research Director CNRS ; Interdisciplinary Institute for Neuroscience)

The ENSEMBLE project aims at underpinning the molecular mechanisms of physiological and pathological brain function. This ambitious and innovative endeavor is based on our ability to develop new approaches in high-resolution microscopy at the service of a new conceptual framework in brain cell communication.

Brain, high resolution iimage. Credit: U.V. Nägerl
Credit: U.V. Nägerl

This project has roots in the international leadership of the Bordeaux community in the fields of microscopy, nanophotonics, fundamental and translational neuroscience. The opportunity that is offered to these 4 investigators to break a frontier knowledge was permitted by the continuous support of local institutional actors. The installation of Prof. Valentin Nägerl’s laboratory in 2009 with a “Chaire Accueil” from the Regional Council of Aquitaine, the support of LabEx BRAIN, the Laphia Cluster and the IdEx of the University of Bordeaux provided the ground to build elementary blocks necessary for the challenging adventure of the ERC Synergy project (10 million euros, 6 years).

Taken from Bordeaux Neurocampus Press release: https://www.bordeaux-neurocampus.fr/en/erc-synergy-award-2020-for-groc-bezard-nagerl-and-cognet/