THE FRENCH NATIONAL RESEARCH INFRASTRUCTURE FOR BIOLOGICAL IMAGING

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FRANCE-BIOIMAGING.ORG - CONTACT@FRANCE-BIOIMAGING.ORG

• Funded through the « Investissements d’Avenir 26M€ through 2019

• Objectives • EXPAND THE FRONTIERS OF KNOWLEDGE IN LIFE SCIENCES

• STRENGTHEN ATTRACTIVENESS AND COMPETITIVENESS OF FRANCE

• BRING TOGETHER RESEARCH AND INNOVATION

• SUSTAIN TRAINING AND DISSEMINATION

Technol. Innovation

Scientific Innovation

Societal Innovation

Promoting active WGs as an operational task force Scientific results already obtained and published

COORDINATING TRAINING & DISSEMINATION

Enhance Expertise in Biological Imaging

PROGRESS IN TECHNOLOGY ACCESSIBILITY: SERVICE OFFERING To the National & International Community Global Scientific Progress

RESEARCH & DEVELOPMENT

In partnership with industry

Creation of innovative tools to study Life

Creation of Companies

Creation of Employment

France BioImaging, a multi-sited node in the EuroBioImaging ESFRI project

Positioning in Europe

To the Industry

Innovations in the Therapeutic,

Cosmetic, Agronomic, (...) fields

for the benefit of the Society

France BioImaging

The French National Research Infrastructure for Biological Imaging

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FOUNDATION

IBiSA Infrastructures Cellular imaging

From molecules to whole organisms Super resolution, Dynamics, Interactions,

Multiscale imaging

Research applications In physiology, cellular biology, developmental biology,

pathologies (neurology, immunology, cancer)

R&D teams State of the art technologies

Optique, Microscopy, Spectroscopy, Chemical probes, Image processing

Academic &

Industrial users

Industrial partners

EquiPex Labex

Training & Dissemination

National & International

networks

OPENING

TEACHING & DISSEMINATION

RESEARCH & DEVELOPMENT

IBiSA CRITERIA

5 LOCAL NODES & 1 TRANSVERSAL NODE Paris Centre, Ile de France Sud, Bordeaux, Marseille, Montpellier Inria (Rennes) / Institut Pasteur

CNRS - leading partner

Inria, INSERM,

Institut Curie, Institut Pasteur,

Ecole Normale Supérieure,

Ecole Polytechnique,

Université Aix-Marseille,

Bordeaux, Montpellier 1 & 2,

Paris Descartes, Paris Diderot,

Paris Sud

INSTITUTIONAL PARTNERS

FRANCE-BIOIMAGING INFRASTRUCTURE

IMACHEM

10 IMAGING CORE FACILITIES

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From single molecules - to cells - to tissues - to organs - to animals and humans

Continuum between Cell biology Imaging and Medical Imaging

Embryo & small animal models

FBI

FLI

WP5 Training, Dissemination &

Technological Transfer

WP3 Probe Development, Optomanipulation &

Optogenetics

WP2 High Throughput & High

Content Screening

WP1 Instrumentation & Methods

WP4 Bioimage Informatics -

Image Processing & Data Manipulation

5 WORK PACKAGES

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L. Heliot; C. Poujol; J. Salamero JC Olivo-Marin; C. Kervrann

L. Julien; M. Sainlos E. Bertrand; T. Walter

WP 1a: Super Resolution & Single Molecule Tracking

WP 1c: CLEM & Super CLEM

WP 1b: Functional Imaging

WP 1d: New Contrast & In-Depth Imaging

5 WORK PACKAGES – WP1

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SUPER RESOLUTION IN LIGHT MICROSCOPY PhotoActivated Localization Microscopy (PALM), STochastic Optical Reconstruction

Microscopy (STORM), Structured-Illumination Microscopy (SIM), STimulated-

Emission-Depletion (STED), Single Particule Tracking-PALM (SPT-PALM) …

FUNCTIONAL IMAGING Alternating-Laser Excitation-Fluorescence Resonance Energy Transfer (ALEX-FRET),

Fluorescence-Lifetime Imaging Microscopy (FLIM), Fluorescence Anisotropy Imaging

Microscopy (FAIM), Fluorescence Correlation Spectroscopy (FCS), Fluorescence

Cross-Correlation Spectroscopy (FCCS), Image Correlation Spectroscopy (ICS) …

MULTISCALE AND MULTIMODAL IMAGING Correlative Light-Electron Microscopy (CLEM) & Super resolution CLEM

LABEL & LABEL-FREE NEW CONTRASTS Second-Harmonic Generation (SHG) microscopy, Third-Harmonic Generation (THG) microscopy, Coherent Anti-stokes Raman Scattering (CARS) microscopy …

IN DEPTH OPTICAL IMAGING Two/Three-Photon Excitation (2/3-PE) microscopy, Optical Parametric Oscillator

(OPO), Single Plane Illumination Microscopy (SPIM) …

L. Cognet; M. Dahan; V. Nägerl

N. Borghi; D. Marguet; E. Margeat

P. Moreau; G. Raposo; B. Satiat-Jeunemaitre

E. Beaurepaire; V. Emiliani, H. Rigneault

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TECHNOLOGICAL OVERVIEW

IdF Sud (24) N. Peyriéras

In-Depth Imaging & IPDM –

Morphogenesis analysis

Super resolution, Functional & In-Depth

Imaging - Developmental

biology & immunology

Marseille (35) PF. Lenne

Montpellier (27) M. Nollmann

Super resolution, Functional Imaging & HTS/HCS - Genome

function analysis

Bordeaux (78) D. Choquet

Super resolution & CLEM – Neuronal

pathologies & plant physiology

Institut Pasteur / ImagoPole S. Shorte

Paris Centre (141) J Salamero, M Coppey-Moisan

Multi scale, multi modal & multi organism imaging - Cell biology & cancerology

Institut Curie / PICT J. Salamero

Institut Jacques Monod / ImagoSeine

M. Coppey-Moisan O. Faklaris

IBENS / ImaChem A. Triller

Paris Descartes V. Emiliani

Institut Curie Physics M. Dahan

ENS Chemistry L. Jullien

Institut Pasteur / ImagoPole S. Shorte

BioImage informatics - Image Processing and Data Manipulation (28) JC. Olivo-Marin (Institut Pasteur), C. Kervrann (Inria, Rennes)

Image and signal processing, analysis, quantification and modeling

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Extending superresolution microscopy to 3D imaging • Multi-plane imaging, astigmatism, double-helices PSF,…

Pushing further the spatial & temporal resolution • Development of bright probes, advanced computational tools, …

Allowing long-term (> min) single molecule tracking

• Gold nanoparticles, carbon nanotube imaging,… Extend superresolution & SMT capabilities beyond cultured cells

• single plane illumination strategies, multi Gaussian beam, NIR imaging,… Enhancing color contrast and spectral flexibility

• PALM, STORM, uPAINT,… Combine superresolution and EM, patch-Clamp, Photocontrol, …

Aims of WP 1A

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Extending biosensors capabilities • development of FRET-based biosensors: biochemical activities, tension, post-translational modifications, metabolites ,…

Pushing further the spatial & temporal resolution of FLIM for monitoring transient interactions • Development of bright probes, multi focal excitation, time-resolved detector, single molecule FRET ALEX…

Extend spectroscopy beyond cultured cells • single plane illumination FCS, NIR imaging,…

Enhancing sensitivity of fluctuations based spectroscopy

• Spot variation FCS, plasmon resonnance, STED-FCS,… Combine FRAP, Fluorescence fluctuations based spectroscopy and FLIM

• ms to sec range of macromolecules dynamics and turnover…

Aims of WP 1B

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Mastering methods to preserve fluorescent signals through the different steps of specimen preparations for Transmission Electron Microscopy Studies (TEM) : very different specimens, different probes ……..

Improve the CLEM worflow to handle simultaneous observations at different scales: creating novel tools and equipements

Develop Super-CLEM Image registration methods – improve correlation between

images recorded at different scale Handling the data flow generated by such approaches

Aims of WP 1C

Correlate Multiscale Imaging data (Light and Electron Microscopy) to explore biological processes « in situ »

2µ

m

SIM SEM 2µ

m

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Axis 1: study of novel contrast mechanisms that do not rely on conventional refractive, absorption or fluorescence contrast mechanisms

Axis 2: developing new methodologies and instruments that can extend the imaging depth of

current techniques

To develop innovative photonic tools to perform in depth imaging in microscopy and endoscopy.

WG1d is ahead of available commercial systems and therefore relies on the physical/engineering core expertise of FBI Laboratories.

Probing lipid orientation with THG. Polytechnique LOB. Phys Rev X 2013.

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SERVICE OFFERING

France-BioImaging.org

USE OF SYSTEMS

DATA STORAGE & IMAGE ANALYSIS

TEMPORARY DISPOSAL OF PREMISES & EQUIPMENTS

BIOPROBES

General ALM Technologies

Multimodal microscopy (CLEM)

Fluorescence spectroscopy (macromolecules dynamics and interactions in live organisms)

In depth &new contrast Imaging

Superresolution microscopiy

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ADDED VALUE - INNOVATIVE TECHNOLOGIES

33% OF INNOVATIVE TECHNOLOGIES ARE FUNDED BY FBI

Innovative Technologies

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ADDED VALUE - TECHNOLOGY OPENING In

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PROGRESS IN INNOVATIVE TECHNOLOGY ACCESSIBILITY

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ADDED VALUE - SCIENTIFIC AND SOCIO-ECONOMIC PRODUCTION

Publications: 36 + 2 (IINS) distinct publications in which FBI is acknowledged

Patents: 2 deposited (Institut Fresnel) & 3 under review (CIML, Pasteur)

Creation of a Start-Up CRYOCAPCELL by Xavier Heiligenstein

(“Prix Creation Innovante CREACC 2013” and “Lauréat Tremplin Entreprise 2013” )

by users

by FBI

members for

developments

or

maintenance

from FBI

members from users

from FBI

members from users

2 0 1 2 2078 1064 38,3% 41,5% 1 0 0 0

2 0 1 3 3515 1586 46,2% 42,2% 4 0 3 3 0

YearNum ber of

users

Num ber of

persons

t rained on-

site

Ut ilizat ion rate of the

infrast ructure

Num ber of publicat ions

( FBI cited)

Num ber of patents

( FBI cited)

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ADDED VALUE - DISSEMINATION

IMAGIF

Gif-sur-Yvette - France

December 9th to 13th

◎ 3D+time imaging of developing model organisms

◎ Membrane proteins imaging in plant cells

◎ Superresolution imaging

◎ Bioimage informatics

◎ Molecular dynamics

◎ Biosensors

FRANCE BIOIMAGING -ADVANCED

TRAINING

FBI-AT - 2013

FBI SPECIALS FBI Kick-Off meeting, MiFoBio 2012, FBI-AT 201

EXTERNAL EVENTS ELMI 2013, EMBO Course on Super Resolution, Assises du RTmFm

+ MicroCOR Winter School, CLEM Days, RUE 2013,

EuBI Worskshop on Training…

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EXPAND THE FRONTIERS OF KNOWLEDGE IN LIFE SCIENCES

STRENGTHEN ATTRACTIVENESS AND COMPETITIVENESS OF FRANCE

BRING TOGETHER RESEARCH AND INNOVATION

SUSTAIN TRAINING AND DISSEMINATION

FRANCE-BIOIMAGING.ORG - CONTACT@FRANCE-BIOIMAGING.ORG