zebrafish

Neuroimaging and behavior of the zebrafish

Main field of research: 

Neurophysiology / systems neuroscience

Keywords: 

light-sheet microscopy
neuroimaging
zebrafish
sensory-motor integration
circuit inference

ENP label: 

2016

Research Center / Institute: 

Laboratoire Jean Perrin

Research Unit Code: 

UMR 8237

The overall objective of the group is to unravel principles of neural computations underlying sensory-motor integration in thevertebrate brain. We use the zebrafish larva as a model since it currently constitutes the only vertebrate system amenable towhole-brain recording with cellular resolution. Using one- or two-photon light-sheet microscopy, we are able to monitor the long-termactivity of the quasi-entirety of the 100,000 neurons that comprise the animal brain, as it performs basic sensory-motor tasks.

Leader

Leader: 

Personal

Team members: 

Raphaël Candelier
Sergei Kruglik
Sébastien Wolf
Alexis Dubreuil
Sophia Karpenko
Guillaume Le Goc
Institutions

Principal Institution: 

UPMC

Affiliated institutions: 

CNRS

University: 

Université Pierre et Marie Curie

Doctoral School: 

ED 564
Publications

Publications: 

Whole-brain functional imaging with two-photon light-sheet microscopy, S Wolf, W. Supatto, G. Debrégeas, P. Mahou, S. G Kruglik,J-M. Sintes, E. Beaurepaire, R. Candelier Nature Methods 12, 379–380 (2015)

An Amplitude Modulation/Demodulation Scheme for Whisker-Based Texture Perception, Y. Boubenec, L. N. Claverie, D. E. Shulz,G. Debrégeas, J. Neurosci. 34(33): 10832-10843 (2014)

Fast functional imaging of multiple brain regions in intact zebrafish larvae using Selective Plane Illumination Microscopy. T. Panier,S. Romano, R. Olive, T. Pietri, G. sumbre, R. Candelier, G. Debrégeas, Frontiers in Neural Circuits 7, 0065 (2013)

The role of fingerprints in the coding of tactile information probed with a biomimetic sensor, J. Scheibert, S. Leurent, A. Prevost et G. Debrégeas, Science 323 1503-1506 (2009). Reviewed in Science news, Science Update (radio), Science signaling, Nature news, Nature Research highlights, Nature Methods,Analytical Chemistry, Atten. Percept & Psych.

Signatures of granular microstructure in dense shear flows. D. Mueth, G. Debregeas, G. Karczmar, P. Eng, S. Nagel & H. Jaeger,Nature 406, 385-388 (2000)

Multisensory signal processing: From whole-brain activity to behavior

Main field of research: 

Neurophysiology / systems neuroscience

Keywords: 

light-sheet microscopy
zebrafish
multisensory signal processing
whole-brain calcium imaging

ENP label: 

2016

Research Center / Institute: 

Laboratoire Jean Perrin

Research Unit Code: 

UMR 8237

Our brain needs to constantly fuse sensory information detected by our multiple senses in order to produce a seamless coherent representation of the world. Rather than being the exception, this binding process is ubiquitous to sensory-motor integration and is implicated in most cognitive functions. Its impairment is a cause of various pathologies, such as schizophrenia or autism. Multisensory processing operates on all brain levels from primary cortices over subcortical structures up to higher associative centers, while the smallest operational units are single multisensory neurons.

Leader

Leader: 

Personal

Team members: 

Thomas Panier (PostDoc)
Kris Severi (PostDoc)
Geoffrey Migault (PhD)
Hugo Trentenseaux (PhD)
Matthieu Dujany (Master)
Louis Chevalier (Master)
Institutions

Principal Institution: 

Sorbonne Université

Affiliated institutions: 

CNRS

University: 

UPMC

Doctoral School: 

ED 564
Laboratory

Surname: 

Bormuth
Publications

Publications: 

 Seclected Publications:

Karpenko S. , Wolf S.  , Lafaye J. , Le Goc G., Panier T. , Bormuth V. , Candelier R. , Debrégeas G. From behavior to circuit modeling of light-seeking navigation in zebrafish larvae 

ELife (2020)

Migault G., van der Plas T.L.  , Trentesaux H. , Panier T., Candelier R., R. Proville , B. Englitz , Debrégeas G., Bormuth, V.  Whole-Brain Calcium Imaging during Physiological Vestibular Stimulation in Larval Zebrafish

Current Biology 28, 1-13 (2018)

Wolf S., Dubreuil A., Bertoni T., Böhm U.L., Bormuth V., Candelier R., Karpenko S., Hildebrand D.G.C. , Bianco I. H., Monasson R., Debrégeas G.     Sensorimotor computation underlying phototaxis in zebrafish.

Nature Communication 8, 651 (2017) 

Olive R., Wolf S., Dubreuil A., Bormuth V., Debregeas G., Candelier R.    Rheotaxis of Larval Zebrafish: Behavioral Study of a Multi-Sensory Process.

Frontiers in System Neuroscience 10, UNSP 14 (2016)

Bormuth, V., Barral, J., Joanny, J.F., Jülicher, F. & Martin, P.     Transduction channels gating controls friction on vibrating hair-cell bundles in the ear.

PNAS 111, 7185-90 (2014)

Gardner, M.K.*, Zanic, M.*, Gell, C., Bormuth, V., & Howard J.     Depolymerizing Kinesins Kip3 and MCAK Shape Cellular Microtubule Architecture by Differential Control of Catastrophe.

CELL 147, 1092-1103 (2011)  

Bormuth, V., Varga, V., Howard, J., & Schäffer, E.     Protein friction limits diffusive and directed movements of kinesin motors on microtubules.

SCIENCE 325, 870 - 873 (2009)  

Varga, V.*, Leduc, C.*, Bormuth, V., Diez, S., & Howard, J.     Kinesin-8 motors act cooperatively to mediate length-dependent microtubule depolymerization.

CELL 138, 1174-83 (2009)  

Bormuth, V.*, Otsu, Y.*, et al.     Optical monitoring of neuronal activity at high frame rate with a digital random-access multiphoton (RAMP) microscope.

J. Neurosci. Methods 173(2), 259-270 (2008)    

Neural circuit dynamics & behaviour

Main field of research: 

Neurophysiology / systems neuroscience

Keywords: 

zebrafish
neural circuits
Optogenetics
Two-photon calcium imaging
motor behaviour
cognitive functions
ongoing spontaneous activity
SPIM
light-sheet imaging

ENP label: 

2014

Research Center / Institute: 

ENS Ecole Normale Supérieure

Research Unit Code: 

U1024 UMR 8197

Using the zebrafish larva as the experimental model and a multidisciplinary approach, including twophoton calcium imaging to monitor activity of neural networks, motor behaviours, genetic engineering techniques to label, monitor and manipulate activity of specific neurons or entire circuits and mathematical methods for data analysis, we are studying the following subjects:

1) Multimodal sensory perception:

Leader

Leader: 

Institutions

Principal Institution: 

ENS

Affiliated institutions: 

CNRS
Inserm

University: 

Université Pierre et Marie Curie

Doctoral School: 

ED158
Laboratory

Surname: 

Ecole Normale Superieure, Institut de Biologie de l'ENS IBENS

Initiatives d'Excellence: 

Labex Memolife, Idex PSL, ERC Cog 2016
Publications

Publications: 

Romano SA, Pérez-Schuster V, Jouary A, Boulanger-Weill J, Candeo A, Pietri T, Sumbre G.(2017) An integrated calcium imaging processing toolbox for the analysis of neuronal population dynamics PLOS Computational Biology. 13, e1005526.

Boulanger-Weill J, Candat V, Jouary A, Romano S, Pérez-Schuster V, Sumbre G. (2017) Functional Interactions between Newborn and Mature Neurons Leading to Integration into Established Neuronal Circuits. Current Biology. 27, 1–14.

Pietri, T., Romano, S.A., Pérez-Schuster, V., Boulanger-Weill, J., Candat, V., and Sumbre G. (2017). The Emergence of the Spatial Structure of Tectal Spontaneous Activity Is Independent of Visual Inputs. Cell Reports19, 939–948.

Pérez-Schuster V, Kulkarni A, Nouvian M, Romano SA, Lygdas K, Jouary A, Dipoppa M, Pietri T, Haudrechy M, Candat V, Boulanger-Weill J, Hakim V, Sumbre G.  (2016) Sustained Rhythmic Brain Activity Underlies Visual Motion Perception in Zebrafish. Cell Reports. 17, 4:1098-1112.

Romano SA, Pietri T, Pérez-Schuster V, Jouary A, Haudrechy M and Sumbre G. (2015) Spontaneous neuronal network dynamics reveal circuit's functional adaptations for behavior. Neuron. 85(5):1070–1085.

Neuronal Circuit Development Group

Main field of research: 

Neurogenetics / neurodevelopment

Keywords: 

zebrafish
Optogenetics
behavior
Vision
neural circuits

ENP label: 

2012

Research Center / Institute: 

Institut Curie - Centre de Recherche - Paris/Orsay

Research Unit Code: 

U934 - UMR3215

The optic tectum has emerged as a tractable visuomotor transformer, in which anatomical and functional studies can allow a better understanding of how behavior is controlled by neuronal circuits. We are examining the formation and function of the visual system in zebrafish larvae using in vivo time-lapse microscopy and state-of-the-art “connectomic” and “optogenetic” approaches to monitor and perturb neuronal activity. We apply complementary cellular and molecular analyses to dissect this circuit and identify the neuronal substrate of visual behaviors.

Leader

Leader: 

Personal

ENP Students: 

Team members: 

Karine Duroure
Thomas Auer
Christoph Gebhardt
Vincenzo Di Donato
Flavia De Santis
Celine Revenu
Shahad Albadri
Noe Testa
Institutions

Principal Institution: 

Institut Curie

Affiliated institutions: 

CNRS
Inserm

University: 

Université Pierre et Marie Curie

Doctoral School: 

ED158
Laboratory

Surname: 

Edith Heard

Initiatives d'Excellence: 

Labex DEEP
Publications

Publications: 

Dunn, T. W., Gebhardt, C., Naumann, E. A., Riegler, C., Ahrens, M. B., Engert, F., and Del Bene, F. Neural Circuits Underlying Visually Evoked Escapes in Larval Zebrafish. Neuron (2016)

Di Donato, V., De Santis, F., Auer, T. O., Testa, N., Sanchez-Iranzo, H., Mercader, N., Concordet, J. P., and Del Bene, F.  2C-Cas9: a versatile tool for clonal analysis of gene function. Genome research (2016)

Auer, T. O., Xiao, T., Bercier, V., Gebhardt, C., Duroure, K., Concordet, J. P., Wyart, C., Suster, M., Kawakami, K., Wittbrodt, J., Baier, H., and Del Bene, F. Deletion of a kinesin I motor unmasks a mechanism of homeostatic branching control by neurotrophin-3. eLife (2015)

Auer, T. O., Duroure, K., Concordet, J. P., and Del Bene, F. CRISPR/Cas9-mediated conversion of eGFP- into Gal4-transgenic lines in zebrafish. Nature protocols (2014)

Auer, T. O., Duroure, K., De Cian, A., Concordet, J. P., and Del Bene, F.  Highly efficient CRISPR/Cas9-mediated knock-in in zebrafish by homology-independent DNA repair. Genome research (2014)

 

Zebrafish Neurogenetics (ZEN)

Main field of research: 

Neurogenetics / neurodevelopment

Keywords: 

zebrafish
behavior
motivation
neurogenesis
stem cell
telencephalon
quiescence

ENP label: 

2009

Research Center / Institute: 

Institut Pasteur

Research Unit Code: 

UMR3738

The central nervous system (CNS) of vertebrates is a complex arrangement of neurons and glial cells that underlie brain physiology and animal behavior. These cells are set-up in defined numbers at specific locations from neural progenitors or Neural Stem Cells (NSCs), largely during early stages of life. In addition, the maintenance of NSCs in the brain until adulthood is a general phenomenon, likely crucial to late adaptation events. Indeed, defects in adult neurogenesis have been correlated with neurodegenerative and mood-related disorders, and also occur during ageing.

Leader

Leader: 

Personal

ENP Students: 

Team members: 

Alessandro Alunni
Marion Coolen
Institutions

Principal Institution: 

CNRS

University: 

Université Pierre et Marie Curie

Doctoral School: 

ED 515 Complexité du Vivant
Laboratory

Surname: 

Department of Developmental and stem cell Biology

Initiatives d'Excellence: 

Labex Revive
Publications

Publications: 

L. Dirian, S. Galant, M. Coolen, J. Livet, W. Chen, S. Bedu, C. Houart, L. Bally-Cuif* and I. Foucher*. Spatial regionalization and heterochrony in the formation of adult pallial neural stem cells. Dev. Cell 30:123-136 (2014).

G. FurlanV. Cuccioli, N. Vuillemin, L. Dirian, A. Janue Muntasell, M. CoolenN. DrayS. Bedu, C. Houart, E. Beaurepaire, I. Foucher*and L. Bally-Cuif*. Life-long neurogenic activity of individual neural stem cells and continuous growth establish an outside-in architecture in the teleost pallium. Curr. Biol., in press (2017). * co-senior authorship. 

S. KatzD. Cussigh, N. Urban, F. Guillemot, L. Bally-Cuif* and M. Coolen*. A non-canonical nuclear role for microRNA-9 and Argonaute proteins in balancing the quiescent and activated adult neural stem cell state. Cell Reports 17: 1383-1398 (2016).    

S. GalantG. FurlanM. CoolenL. DirianI. Foucher and L. Bally-CuifEmbryonic origin and lineage hierarchies of the neural progenitor subtypes building the zebrafish adult midbrain. Dev Biol. pii: S0012-1606(16)30424-9 (2016).

N. DrayS. Bedu, N. Vuillemin, A. AlunniM. CoolenM. Krecsmarik, W. Supatto, E. Beaurepaire and L. Bally-Cuif. Large-scale live imaging of adult neuro stem cells in their endogenous niche. Development 142: 3592-3600 (2015).

Treatment of Amyotrophic Lateral Sclerosis : From Genetics to Zebrafish

Main field of research: 

Neurological and psychiatric diseases

Keywords: 

zebrafish
Amyotrophic Lateral Sclerosis
motor neuron
multigenic interaction
chemical screening

ENP label: 

2011

Research Unit Code: 

UMRS 1127 UMR 7225

Our research team recently appointed at the Brain and Spinal Cord Institute will serve to close the gap between clinical and basic research in neuroscience. We will functionally characterize genetic variants for neurodegenerative diseases and develop models using these mutations. Further, we will use these models to identify and validate compounds with neuroprotective properties. Thus, our research will serve as a ring between clinical and basic research and we hope it will advance both these fields of neuroscience.

Institutions

Principal Institution: 

Université Pierre et Marie Curie

Affiliated institutions: 

Inserm
CNRS

University: 

Université Pierre et Marie Curie

Doctoral School: 

ED158
Publications

Publications: 

TARDBP mutations in individuals with sporadic and familial amyotrophic lateral sclerosis, Kabashi E, Valdmanis PN, Dion P, Spiegelman D, McConkey BJ, Vande Velde C, Bouchard JP, Lacomblez L, Pochigaeva K, Salachas F, Pradat PF, Camu W, Meininger V, Dupre N, Rouleau GA. Nat Genet. 2008 May;40(5):572-4. (Citations 318; IF 36.4)

FUS and TARDBP but not SOD1 interact in genetic models of ALS, Kabashi E, Bercier V, Lissouba A, Brustein E, Liao M, RouleauGA, Drapeau P PLoS Genetics 2011 Aug;7(8):e1002214. (IF 9.5)

In the swim of things: recent insights to neurogenetic disorders from zebrafish, Kabashi E, Champagne N, Brustein E, Drapeau P. Trends Genet. 2010 Aug;26:373-81. (Citations 3; IF 11.4

Gain and loss of function of ALS-related mutations of TARDBP (TDP-43) cause motor deficits in vivo, Kabashi E, Lin L, Tradewell M, Dion P, Bourgouin P, Rochefort D, Bel Hadj S, Durham H, Vande Velde C, Rouleau GA, Drapeau P. Hum Mol Genet 2010 Feb 15;19(4):671-83. (Citations 49; IF 8.1)

Oxidized/misfolded superoxide dismutase-1: the cause of all amyotrophic lateral sclerosis?, Kabashi E, Valdmanis PN, Dion P, Rouleau GA. Ann Neurol. 2007 Dec;62:553-9. (Citations 40; IF 10.8)