France BioImaging and all the French community aims to develop and promote innovative imaging technologies and methods. But microscopy images can also take an artistic, creative look and make the invisible world beautiful, allowing people to see the visual appeal of the life sciences. 

We enjoyed the diversity of the images submitted with many different microscopy techniques, models and applications represented. A big thank you to all the participants!

The National Coordination Team and the Executive Board are proud to announce the winners of the FBI Image Contest 2021:

  • 1st Place: Léna Meneux, Eye Team, Institut des Neurosciences de Montpellier

“The eye of the storm”

Sensory fibers of a mouse cornea imaged with a confocal microscope. The corneal nerves converge toward the centre forming a vortex. This particular transgenic mouse model allows stochastic expression of fluorescent proteins, unravelling the heterogeneity of the fiber origines inside the corneal epithelium.
Acknowledgements to Karine Loulier for the mouse model and Laetitia Hudececk for her help during the acquisition.

Confocal microscopy

  • 2nd Place: Eunice HoYee Chan, Muscle Dynamics Team, Developmental Biology Institute of Marseille (IBDM)
Myofibrils isolated from Drosophila indirect flight muscle labelled with titin (yellow) and actin (blue). Image captured from confocal microscope. We are studying the role of titin protein in muscle mechanics and organisation during development

“Sarcomeric bouquet”

Myofibrils isolated from Drosophila indirect flight muscle labelled with titin (yellow) and actin (blue). Image captured from confocal microscope. We are studying the role of titin protein in muscle mechanics and organisation during development.

Confocal LSM880
  • 3rd Place: Camille Boutin, Biology of multiciliated cells Team, Developmental Biology Institute of Marseille (IBDM) & Nicolas Brouilly, PICsL Imaging facility, Electron Microscopy department
Lamellar structure in a differentiating multiciliated cell observed by transmission electron microscopy with a Tecnai G2 200kV FEI.

“Clown”

Lamellar structure in a differentiating multiciliated cell observed by transmission electron microscopy with a Tecnai G2 200kV FEI.

Transmission Electron Microscopy, Tecnai G2 200kV FEI

Congratulations to the winners!

Explore all the images submitted here:

Fluorescence microscopy image illustrating skeletal muscle fibers (Desmin, green) in co-culture with motor neurons (SMI-32) forming active Neuromuscular Junction in a cell culture method using murin primary cells in vitro. Nuclei are stained by DAPI (blue).
Embryonic murine lacrimal gland (E17), with fluorescent staining showing Actin, Fibronectin, phospho-MLC and nuclei. The acquisition was performed using a confocal microscope Zeiss LSM 980, with a 25X air objective.
Confocal microscopie picture of a Drosophila larva's gut. Cyan: nuclei. Magenta: reporter for the activity of the protein GCN2. Yellow: the symbiotic bacterium Lactiplantibacillus plantarum. L. plantarum is a symbiont of Drosophila. We showed that it can communicates with its host by stimulating the activity of GCN2 in enterocytes. GCN2 may then trigger a physiological change of the gut that promotes larval growth despite malnutrition.
Representation of PALM technology on a rat hippocampal neuron. The low resolution image corresponds to the synaptic marker, Homer-GFP. Using PALM superresolution technology, it is possible to visualise NMDAR trafficking and clusters in high resolution. This approach can be used in the study of autoimmune neuropsychiatric diseases that disrupt both the organisation of NMDAR and their diffusion at the neuronal surface.
Neuronal spheroids of rat primary neurons are grown in hydrogel templates. The cells are electroporated with GFP and tdtomato. Then the spheroids are fixed and imaged with a confocal microscope. Cells in 3D structure mimic better functions and morphology properties of in vivo.
Myofibrils isolated from Drosophila indirect flight muscle labelled with titin (yellow) and actin (blue). Image captured from confocal microscope. We are studying the role of titin protein in muscle mechanics and organisation during development
The image shows the movements of Dopamine Receptors at the surface of hippocampal neurons and was acquired on a spinning disk. We took 1000 frames at 50ms exposition before reconstructing the trajectories of single receptors with PalmTracer. This allow us to understand, down to the nanometric scale, how the interaction between receptors modulate their surface diffusion.
Phages from vibro bacteria - Transmission electron microscopy
Patchwork of 4 maximum projections with different LUTs of a z-stack acquired in 2-photon microscopy. Neurons express the GCaMP6f calcium sensor following a viral infection of an organotypic mouse brain slice.
Negative staining artifact. Transmission electron microscopy.
In plants, the male gametes are represented by the microscopic round structures called the pollen. The anthers are the flower organs that produce and encase the developing pollen. This confocal microscope image is the cross-section of an anther of Arabidopsis thaliana. The developing pollen can be seen inside the anther. These are the haploid round cells containing protective pollen wall on their surface. The pollen are surrounded by diploid cell layers of the anther which nourish the young pollen supporting their development. This image was taken with the aims to understand how the growing pollen communicate with the surrounding nourishing tissues.
Aedes albopictus (Mosquito) leg imaged with a scanning electron microscope and digitally colored.
Deuterosomes producing centrioles during multiciliated cells differentiation.
Lagerstroemia sp. (Crepe Myrtle) blossom imaged with a stereomicroscope and digitally colored.
TEM observation of extracellular-vesicles from bacteria
PD1 membrane receptors super-resolution imaging in a PD1 stably expressing Jurkat cell. This acquisition has been performed with our soSPIM (single-objective Selective Plane Illumination Mocroscopy) system combined with an Adaptive Optics system (MicAO, Imagine Optique). The whole volume is composed of 35 Z-sections acquired every 500 nm, with each section consisting of 22,500 frames for a total acquisition time of 13h handled fully automatically. On each frame every molecule was precisely localized in 3D through an astigmatism-based process. The final cell exhibited more than 300,000 localizations and was 10 µm wide. To assess the spatial organization of clusters on the cell membrane, we used their centroids to compute a Voronoi diagram on the sphere approximating the cell shape.
Rat hippocampal neuron filled with a fluorescent marker and observed by dSTORM. The image shows details of dendritric spine morphology as well as surrounding axons in which we can observe the membrane-associated periodic skeleton.
Lamellar structure in a differentiating multiciliated cell observed by transmission electron microscopy with a Tecnai G2 200kV FEI.
Multiciliated cells at the surface of Xenopus embryo (Scanning Electron Microscopy)
A triple-negative cancer cell navigating its path through a dense 3D collagen matrix network. Collagen is labeled in green; Actin in magenta, and plasma membrane structure, caveolae, component in red. The image was acquired through a spinning disc confocal microscope for a 3D migration time-lapse experiment.
Ageratum bloom imaged with a scanning electron microscope and digitally colored.
Transmission electron microscopy observation of cells infected with Yersinia pseudotuberculosis in order to see their intra-vacuolar localization.
Two salivary glands from Drosophila simulans larva at L3 wandering stage. They have been stained with DAPI and rhodamine phalloidin. The upper gland is reconstructed in 3D on Imaris, nuclei and cells volumes are represented with a color scale from blue to red.

As stated in the Terms & Conditions of the contest, foreign participants non-affiliated to a French institution are featured in the gallery, but were not evaluated as part of the contest.

BioImage Informatics 2021 is an annual meeting in the processing, analysis, and extraction of information and knowledge from biological images. This conference will be held in virtual from November 29 to December 1, 2021, and is organised by Jean-Christophe Olivo-Marin (Institut Pasteur), Charles Kervrann (Inria), Jean Salamero (Institut Curie) and Jean-Yves Tinevez (Institut Pasteur).

This year’s edition of the BioImage Informatics conference will happen fully online, and rely on a very nice website built specially for the conference. There will be a dedicated space for poster presentations where presenters will be able to interact with the audience, leave a video or materials when they are not here, etc…

There will be a space for job fair and general announcements as well.

BioImage Informatics 2021 meeting will include, but not be limited to, the following topics:

  • Advanced analytical solutions for bioimage processing and analysis
  • Statistical spatial analysis of cellular or molecular distributions
  • Applications of machine and deep learning to analysis of cellular structure and related functions
  • Quantification of dynamic images and transport phenomena Automation of data acquisition and analysis
  • Dynamic cell imaging and biological processes
  • Reconstruction and analysis of structure and function of biological networks
  • Registration, correlation and fusion of multimodality data

BioImage Informatics will feature a variety of types of presentations: invited talks (45’), selected talks from abstracts (20’) and posters.

Invited Speakers

  • Yonina Eldar, Weissmann Institute, Israel
  • Michael Liebling, EPFL/IDIAP, Switzerland
  • Emma Lundberg, KTH Royal Institute of Technology, Sweden
  • Jong Chul Ye, KAIST, Korea

Abstract submission and Registration for BioImage Informatics 2021 are now open!

  • All abstracts for selected talk and poster consideration must be submitted by October 15, 2021 and should not exceed 350 words (excluding authors and affiliations).
  • You may submit as many abstracts as you like.
  • At least one author of each paper or poster must register and attend the conference in order to be listed in the conference programme as a presenter. Authors will have the opportunity to edit an originally-submitted abstract before it is published in conference proceedings.
  • Only accepted abstracts and fully paid registration will be printed in the PDF programme book.

More details can be found at Home – BioImage Informatics 2021

The France BioImaging Image Contest is back for its 3rd edition!

This image contest is open to all within the imaging community: core facility staff and users, R&D labs teams and co-workers, students… Submit your best microscopy images for a chance to showcase your skills, research and creativity to the French bioimaging community and beyond, allowing people to see the visual appeal of the life sciences. Images from the contest will be featured on France BioImaging communication tools, online and in print.

France BioImaging and all the French community aims to develop and promote innovative imaging technologies and methods. But microscopy images can also take an artistic, creative look and make the invisible world beautiful.

We are all eager to see your work !

Prizes

1 to 3 images will be awarded depending on the quantity and quality of the entries submitted. France BioImaging will cover the registration fees for one 2022 microscopy related event of the winners’ choice (FOM, ELMI, EMC, COMULIS conference, etc.).

Important: Only French or foreign participants affiliated to a French institution can enter the contest. Foreign participants non-affiliated to a French institution can submit images and will be featured in the gallery, but will not be evaluated as part of the contest.

Submission deadline: Friday, October 15th, 2021, 23h59 UTC+2. 

Click here to consult the terms and conditions of the contest. When you are ready, submit your entry by filling the form below. You can check out last editions’s entries for inspiration. One participant can submit several entries (up to 3).

This form is currently closed for submissions.

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.

Format:

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.

Program:

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

Program 

Program_FBI_Annual_Meeting_2021Download

ZOOM Etiquette

FBI-Annual-Meeting_Zoom_EtiquetteDownload

We look forward to your participation!

The France BioImaging Image Contest is back for its 3rd edition!

This image contest is open to all within the imaging community: core facility staff and users, R&D labs teams and co-workers, students… Submit your best microscopy images for a chance to showcase your skills, research and creativity to the French bioimaging community and beyond, allowing people to see the visual appeal of the life sciences. Images from the contest will be featured on France BioImaging communication tools, online and in print.

France BioImaging and all the French community aims to develop and promote innovative imaging technologies and methods. But microscopy images can also take an artistic, creative look and make the invisible world beautiful.

We are all eager to see your work !

Prizes

1 to 3 images will be awarded depending on the quantity and quality of the entries submitted. France BioImaging will cover the registration fees for one 2022 microscopy related event of the winners’ choice (FOM, ELMI, EMC, COMULIS conference, etc.).

Important: Only French or foreign participants affiliated to a French institution can enter the contest. Foreign participants non-affiliated to a French institution can submit images and will be featured in the gallery, but will not be evaluated as part of the contest.

Submission deadline: Friday, October 15th, 2021, 23h59 UTC+2. 

Click here to consult the terms and conditions of the contest. When you are ready, submit your entry by filling the form below. You can check out last editions’s entries for inspiration. One participant can submit several entries (up to 3).

This form is currently closed for submissions.

Due to the current sanitary measures and uncertainty about future COVID-19 developments, the LSFM workshop to be held in Bordeaux in December has been cancelled. The organizers are currently working on a virtual format of the workshop. More details to come soon.

This workshop will be held in Bordeaux from December 1st to December 4th 2020 and aims to give an overview of the Light Sheet Fluorescence Microscopy techniques and their application possibilities, taking advantage of the available technologies and expertise within the France BioImaging research infrastructure and the broad light-sheet microscopy community. This workshop is organized by the members of the FBI Multiscale Light-sheet Imaging Working Group.

About the workshop

  • The workshop will last 3 ½ days
  • The workshop is built on the basis of an alternation between theoretical and practical sessions. Both will be in English and provided by national expert trainers.
  • On day 2 a mini-symposium will be organized to present the last developments in different LSFM domains (instrumentation, sample preparation and data analysis) done by international experts. This mini-symposium will be open to a larger audience in order to promote LSFM approaches to the local research community. Registration is free but mandatory (this does not apply to workshop participants). Register now
  • The workshop will encompass various theoretical aspects of LSFM from sample preparation, to image acquisition and first post-processing steps (3D reconstruction, visualization).
  • The workshop will span various scales that can be imaged with LSFM based on at least 4 different LSFM set-ups
  • It will be included in the future “FBI training passport” and corresponds to a level III module (“à la carte”). Therefore, “trainees” must demonstrate knowledge of Level I (basic imaging) and Level II (optical principles) imaging.

Objectives:

  • Describe the general principle of light-sheet microscopy
  • Present the three main instrumentations that have been developed depending of the sample scale to be imaged (1 to 100 µm; 100 µm to mm; mm to cm)
  • Give an overview of the sample preparation techniques
  • Present the challenges raised by the data management and analysis of LSFM data
  • Present the future of light-sheet microscopy

Audience:

This workshop is ideal for researchers, engineers, technicians, PhD students, and post-docs from public institutes and private companies with a prior knowledge in fluorescence microscopy techniques, and willing to become familiar with advanced techniques to answer specific biological questions.

Number of participants is limited to 20.

Practical workshops:

The practical workshops main objectives are to:

  • Provide an overview by experts of the 3 main implementations of LSFM depending of the sample size to be imaged:
    • Ultramicroscope (LaVision Biotech) – BIC
    • Invi Lattice Pro (Luxendo)
    • Z1 (Zeiss) – to be confirmed
    • LLS – BIC;
    • soSPIM – IINS
  • Give an overview of existing solutions for 3D reconstruction, Multiview merging and 3D+t visualization.

Participation fee

Academia: 200€
Industry: 600€

Preliminary program:

The workshop will last 3 ½  days with theoretical courses the morning and practical workshops the afternoon on 4 different set-up spanning the different sample sizes that can be imaged with LSFM:

  • Zeiss – Z1 (to be confirmed)
  • Luxendo – Invi Lattice Pro
  • LaVision – Ultramicroscope II
  • Lattice Light-sheet microscope – BIC
  • soSPIM – IINS

3 theoretical sessions will encompass various domains of LSFM:

  • General principle
  • Sample preparation
  • Data management

A mini-symposium will be organized to highlight recent national and international developments in LSFM.

Confirmed speakers:

  • Willy Supatto – Laboratoire D’Optique et Biosciences, Palaiseau – France
  • Christopher Dunsby – Faculty of Medicine, Imperial College, London – UK
  • Laura Batti – Wyss Center, Genève – Switzerland
  • Nicolas Renier – Laboratory of Structural Plasticity, ICM, Paris – France
  • Martin Weigert – EPFL, Lausanne

On the last day two round tables will be proposed to discuss about two hot topics in light-sheet fluorescent microscopy:

  • Clearing protocols
  • Live imaging: challenges and solutions

Participants are invited to bring their own samples if possible to test during an optional practical workshop on the last day.

A diner in Bordeaux is planned on day 2.

Venue:

The workshop will be held on the premises of the Bordeaux Imaging Center and the Interdisciplinary Institute for Neuroscience, in the Centre Broca Nouvelle Aquitaine, in Bordeaux, France.

Accomodation

Hotel booking is left to the participant’s initiative.

Here is a list of other hotels located in the historic center of Bordeaux city (quartiers des “Grands hommes”, “Quinconces”, “Hôtel de ville” and “Mériadeck”). All are close to the tramway stops of line A (direction Le Haillan-Rostan / Pin Galant – Stops: Hôpital Pellegrin, Saint-Augustin, François Mitterand):

Hôtel de France **

Hôtel Gambetta **

Hôtel la Porte Dijeaux **

Hôtel des 4 Sœurs **

Hôtel de l’Opéra **

Hôtel Le Chantry **

Citadines Centre Mériadeck Bordeaux ***

Hôtel Ibis style Bordeaux Mériadeck ***

La Maison du Lierre ***

Hôtel Ibis Mériadeck ***

Best Western Bordeaux-Bayonne Etche Ona ***

Adagio Bordeaux Gambetta ****

Mama Shelter

Local Organisers

Dr. Mathieu Ducros, Bordeaux Imaging Center

Dr. Rémi Galland, Interdisciplinary Institute for Neuroscience

Questions about the LSFM workshop can be addressed directly to the local organisation team : lsfm_workshop@france-bioimaging.org

Poster

FBI_LSFM_Workshop-AfficheDownload

Sponsors

[:en]France BioImaging is organising an “BioImage Analysis OpenDesk” session on November the 29th from 9:00 to 12:30, in its different nodes and online.

What is an OpenDesk ?

During the event, users in search for answers to image processing-related questions come to a dedicated spot, within the Facility. Individual questions are processed by BioImage Analysts, on a “first come-first served basis”.

Will I really get my image processing questions answered ?

We will work on that ! Depending on the topic, local BioImage Analyst may choose from one of those three options:
1-The problem might be solved locally, quickly: you will leave the Facility with either a procedure/advices on how to analyse your data.
2-The problem might be solved locally, but requires additional time to be processed: your Facility staff will propose an appointment so that a proper solution is found.
3-The problem might not be solved locally: we will take benefit of the France BioImaging infrastructure, through its dedicated transversal node (FBI-IPDM). Your local Facility staff will introduce you to specialists in the field, using remote communication means.

I’m in ! Where and when is it taking place ?

November the 29th, from 9:00 to 12:30.
Bordeaux — Bordeaux Imaging Centre, Photonic Unit, 1st floor, Centre Broca Nouvelle-Aquitaine
Montpellier
Paris Centre
Marseille — IBDM ground Floor  Luminy
Paris Sud
Nantes — Room 2 , ground floor IRS UN 8 quai Moncousu

If you can not join physically, join on https://rendez-vous.renater.fr/ipdm

By the way, what is FBI-IPDM ?

The objective of the BioImage Informatics – Image Processing & Data Management transversal node is to create a general framework and a complete and integrated image analysis and IT (Information Technology) solution to address a number of challenges in biological imaging and microscopy, as well as setting up a high performance grid-computing infrastructure dedicated to massive computational and data storage demands. The FBI-IPDM node proposes different IT frameworks to deal with the data flow from the different imaging nodes. FBI-IPDM node is thus transverse, by definition.[:fr]France BioImaging is organizing a “BioImage Analysis OpenDesk” session on November the 29th from 9:00 to 12:30, in its different nodes and online.

What is an OpenDesk ?

During the event, users in search for answers to image processing-related questions come to a dedicated spot, within the Facility. Individual questions are processed by BioImage Analysts, on a “first come-first served basis”.

Will I really get my image processing questions answered ?

We will work on that! Depending on the topic, local BioImage Analyst may choose from one of those three options:
1-The problem might be solved locally, quickly: you will leave the Facility with either a procedure/ advice on how to analyze your data.
2-The problem might be solved locally, but requires additional time to be processed: your Facility staff will propose an appointment so that a proper solution is found.
3-The problem might not be solved locally: we will take benefit of the France BioImaging infrastructure, through its dedicated transversal node (FBI-IPDM). Your local Facility staff will introduce you to specialists in the field, using remote communication means.

I’m in ! Where and when is it taking place ?

November the 29th, from 9:00 to 12:30.
Bordeaux — Bordeaux Imaging Centre, Photonic Unit, 1st floor, Centre Broca Nouvelle-Aquitaine
Montpellier
Paris Centre
Marseille — IBDM ground Floor Luminy
Paris Sud
Nantes — Room 2, ground floor IRS UN 8 Quai Moncousu

If you can not join physically, join on https://rendez-vous.renater.fr/ipdm

By the way, what is FBI-IPDM ?

The objective of the BioImage Informatics – Image Processing & Data Management transversal node is to create a general framework and a complete and integrated image analysis and IT (Information Technology) solution to address a number of challenges in biological imaging and microscopy, as well as setting up a high performance grid-computing infrastructure dedicated to massive computational and data storage demands. The FBI-IPDM node proposes different IT frameworks to deal with the data flow from the different imaging nodes. FBI-IPDM node is thus transverse, by definition.[:]

Les 29 Mai au 31 Mai prochain, nous organisons à Bordeaux une formation en Super Résolution qui traitera de la microscopie STED et des techniques basées sur la détection des molécules uniques (STORM, PALM, U-PAINT..). Elle se déroule avec une alternance entre cours théoriques (de la base vers les nouvelles techniques en développement), analyse d’images et ateliers pratiques devant les machines commerciales ou développées maison. Cette formation pourra se faire en anglais.

Dear colleagues, dear FBI community,

The National Coordination and Industry Board are proud to announce that the winners of the FBI Image Contest 2017 are:

1. Marie Irondelle – PiCT Institut Curie with “Biology’s Little Venice”

La petite Venise de la biologie © Carine Rossé, Emilie Lagoutte & Marie Irondelle, Institut Curie


La petite Venise de la biologie © Carine Rossé, Emilie Lagoutte & Marie Irondelle – Institut Curie
Confocal microscopy

Transparisation par U DISCO d’une glande mammaire murine régénérée à partir d’un transplant d’organoides mammaire murin.

2. Orestis Faklaris – Institut Jacques Monod – ImagoSeine with “The Tree of Life”


The Tree of Life © Orestis Faklaris, Nicolas Chevalier – Institut Jacques Monod
Ultramicroscope – light sheet microscopy

3D z-stack projection of transparised chicken embryo stomach. Label betaIII-tubulin – Alexa488.

3. Clémence Simon – UMR 8576 CNRS/Université Lille 1 with “When Chemistry Transcends Lignin”


Quand la chimie transcende la lignine ! 1 © Clémence Simon, Unité de Glycobiologie Structurale et Fonctionnelle, UMR8576
Microscopie confocale, MIP, BLISS

Application de la stratégie de double réaction chimique BLISS aux unités p-hydroxyphényle et guaïaicyle de la lignine sur coupe de racine de lin. Observation du double marquage (+ autofluorescence) par microscopie confocale et représentation par projection maximale d’intensité. Taille de l’image : 510 x 510 microns.

FBI Industry Committee Special Prize: Nathanaël Prunet – California Institute of Technology with “Arabidopsis Inflorescence”


Arabidopsis inflorescence 1 © Nathanaël Prunet, Caltech, Meyerowitz lab
Confocal microscopy

This is a live Arabidopsis inflorescence with young flower buds developing at the periphery. Cell walls have been stained with propidium iodide (grey). Fluorescent reporters were used to monitor the expression of the APETALA3 (AP3, green) and SUPERMAN (SUP, red) genes. AP3 is required for the development of stamens (the male organs), while SUP establishes the boundary between the male and female part of the flower. This picture was acquired using live confocal imaging, which allows us to describe the expression of several genes in both space and time, in the same live biological samples, with a precise cellular resolution. It finally allows us to understand a question that has been elusive for 25 years: how the male/female boundary is established during the formation of the flower. My research aims at understanding how flower buds are patterned as they form.

Thank you to all the participants for their great contributions:

  • Dario Donnarumma, Laboratoire Charles Coulomb UMR 5221 CNRS-UM
  • Filippo Piccinini, IRST
  • Aude Nommick, IBDM – Marseille University
  • Sébastien Marais, Bordeaux Imaging Center
  • Marie Held, Biochemistry, University of Liverpool, Levy Lab
  • Patrice Mascalchi, Bordeaux Imaging Center and Frédéric Saltel, INSERM U-1053, University of Bordeaux
  • Corrado Viotti, Institut de Biologie Moléculaire des Plantes, CNRS, Strasbourg – P. Genschik Lab
  • Marcello Delfini & Mathieu Fallet, CIML CNRS-INSERM-AMU
  •  Jonathan Daniel, Institut des Sciences Moléculaires
  • Laurence Dubreil, APEX-UMR703 PAnTher INRA Oniris
  • Pierre-Olivier Strale, Interdisciplinary Institute for Neuroscience
  • Clémence Simon, Unité de Glycobiologie Structurale et Fonctionnelle, UMR8576
  • Jérémie Teillon, INSERM U1034
  • Morgane Rabineau, Inserm
  • Eve Gazave & Nicolas Rabet, Institut Jacques Monod-CNRS
  • Nathanaël Prunet, Caltech, Meyerowitz lab
  • Françoise Geffroy, CEA-DRF-NeuroSpin-UNIRS, Midas Team
  • Valeria Davi, ImagoSeine – Institut Jacques Monod – CNRS
  • Anna Smirnova, University of Strasbourg – GMGM
  • Debora Olivier, Institut Pasteur
  • Orestis Faklaris, Institut Jacques Monod
  • Xavier Baudin, Institut Jacques Monod
  • Mathieu P. Dailly, CMAS
  • Lucie Sengmanivong, UMR 144, Institut Curie, Paris
  • Marie Irondelle, Institut Curie

Thank you also to the core facilities staff and heads for having forwarded the contest to their users and for providing them state of the art bioimaging.

The National Coordination

Image Contest FBI 2017

The France BioImaging Image Contest is back for its 2nd edition!

This image contest is open to all within the imaging community: core facility staff and users, R&D labs teams and co-workers, students… Submit your best microscopy images for a chance to showcase your skills, research and creativity to the French bioimaging community and beyond, allowing people to see the visual appeal of the life sciences. Images from the contest will be featured on France BioImaging communication tools, online and in print.

France BioImaging and all the French community aims to develop and promote innovative imaging technologies and methods. But microscopy images can also take an artistic, creative look and make the invisible world beautiful.

The National Coordination is eager to see your work !

Prizes

1 to 3 images will be awarded depending on the quatity and quality of the entries submitted. Prize winners will get to choose one option, between the following:

  • Registration and travel costs (flight from France to Hungary) to NEUBIAS Symposium (31 January-2 February 2018, Szeged, Hungary)*
  • Registration fees for Focus on Microscopy 2018 (25-28 March 2018, Singapore)
  • Registration fees for ELMI 2018 (5-8 June 2018, Dublin, Ireland)

* Prize winners already accepted to the NEUBIAS Training Schools may request that France BioImaging cover their fees as a prize. However, keep in mind that may you not win a prize, the registration fee for the event will still be due.

 

Submission deadline: Sunday 26 November 2017, 23h59 UTC+2. THE CONTEST IS NOW CLOSED.

Click here to consult the terms and conditions of the contest. When you are ready, submit your entry by filling the form below. You can check out last year’s entries for inspiration. One participant can submit several entries.

 

 

 

We are happy to announce the 4th Mini-symposium on Bioimage Informatics, which will take place the 27th of June 2017 in Rennes. This event is organized by the GDR ImaBio and France Bioimaging.

The idea of this annual workshop on Bioimage Informatics is to bring together experts from the fields of image analysis and biology, to promote exchanges between the scientists in these fields and to contribute to the creation and maintenance of a French community in the field of Bioimage informatics, which is continuing in gaining importance in the field of Bioimaging. This year, the workshop is organized as a one-day satellite of the “Imaging the cell” conference, held in Rennes the 28th-30th of June 2017 (http://www.atoutcom.com/imagingthecell2017/).

Details & registration: http://gdr-miv.fr/en/events/bioimageinformatics2017/