Cerebellum

Cerebellum

Schematic showing the different regions of the zebrafish cerebellum at 6dpf based on the 3D anatomical segmentation used by the  Zebrafish Brain Browser  by  Gupta et al., 2018

Schematic showing the different regions of the zebrafish cerebellum at 6dpf based on the 3D anatomical segmentation used by the Zebrafish Brain Browser by Gupta et al., 2018

Description


Ontology
 

is part of: hindbrain

has parts:


ZFIN

OLS Tree Diagram


Transgenic Lines that label this brain region


Antibodies that label this brain region

Key Publications

Dohaku, R., Yamaguchi, M., Yamamoto, N., Shimizu, T., Osakada, F., Hibi, M. (2019)
Tracing of Afferent Connections in the Zebrafish Cerebellum Using Recombinant Rabies Virus.
Frontiers in neural circuits. 13:30.

Takeuchi, M., Matsuda, K., Yamaguchi, S., Asakawa, K., Miyasaka, N., Lal, P., Yoshihara, Y., Koga, A., Kawakami, K., Shimizu, T., Hibi, M. (2015)
Establishment of Gal4 transgenic zebrafish lines for analysis of development of cerebellar neural circuitry. Developmental Biology. 397(1):1-17.

Heap, L.A., Goh, C.C., Kassahn, K.S., and Scott, E.K. (2013)
Cerebellar output in zebrafish: an analysis of spatial patterns and topography in eurydendroid cell projections.
Frontiers in neural circuits. 7:53.

corpus cerebelli

corpus cerebelli

Schematic showing the position of the corpus cerebelli in sagittal, horizontal and coronal sections through the zebrafish brain.  Based on the anatomical segmentation of 3 day old zebrafish larval brain by Thomas Müller, Olaf Ronneberger, Wolfgang Driever and colleagues. For details see Ronneberger et al., Nat. Meth. 2012 and  http://vibez.informatik.uni-freiburg.de   Abbreviations: Ce, cerebellar plate; D, dorsal telencephalon/pallium; E, epiphysis; EmT, eminentia thalami; Hb, habenula; Hyp, hypothalamus; MO, medulla oblongata; OB, olfactory bulb; OT, optic tectum; PG, preglomerular complex; PO, preoptic area;PrT, pretectum; PTd, posterior tuberculum dorsal part; PTh, prethalamus; PTv posterior tuberculum ventral part; Teg, tegmentum; Th, thalamus; TS, torus semicircularis; V, ventral telencephalon/subpallium; Va, valvula cerebelli.

Schematic showing the position of the corpus cerebelli in sagittal, horizontal and coronal sections through the zebrafish brain.
Based on the anatomical segmentation of 3 day old zebrafish larval brain by Thomas Müller, Olaf Ronneberger, Wolfgang Driever and colleagues. For details see Ronneberger et al., Nat. Meth. 2012 and http://vibez.informatik.uni-freiburg.de

Abbreviations: Ce, cerebellar plate; D, dorsal telencephalon/pallium; E, epiphysis; EmT, eminentia thalami; Hb, habenula; Hyp, hypothalamus; MO, medulla oblongata; OB, olfactory bulb; OT, optic tectum; PG, preglomerular complex; PO, preoptic area;PrT, pretectum; PTd, posterior tuberculum dorsal part; PTh, prethalamus; PTv posterior tuberculum ventral part; Teg, tegmentum; Th, thalamus; TS, torus semicircularis; V, ventral telencephalon/subpallium; Va, valvula cerebelli.

Description


Ontology
 

is part of:

has parts:


ZFIN

OLS Tree Diagram


Asset 9-100.jpg

Transgenic Lines/Antibodies that label this brain region


Key Publications

Dohaku, R., Yamaguchi, M., Yamamoto, N., Shimizu, T., Osakada, F., Hibi, M. (2019)
Tracing of Afferent Connections in the Zebrafish Cerebellum Using Recombinant Rabies Virus.
Frontiers in neural circuits. 13:30.

medulla oblongata

medulla oblongata

Schematic showing the position of the medulla oblongata in sagittal, horizontal and coronal sections through the zebrafish brain.  Based on the anatomical segmentation of 3 day old zebrafish larval brain by Thomas Müller, Olaf Ronneberger, Wolfgang Driever and colleagues. For details see Ronneberger et al., Nat. Meth. 2012 and  http://vibez.informatik.uni-freiburg.de   Abbreviations: Ce, cerebellar plate; D, dorsal telencephalon/pallium; E, epiphysis; EmT, eminentia thalami; Hb, habenula; Hyp, hypothalamus; MO, medulla oblongata; OB, olfactory bulb; OT, optic tectum; PG, preglomerular complex; PO, preoptic area;PrT, pretectum; PTd, posterior tuberculum dorsal part; PTh, prethalamus; PTv posterior tuberculum ventral part; Teg, tegmentum; Th, thalamus; TS, torus semicircularis; V, ventral telencephalon/subpallium; Va, valvula cerebelli.

Schematic showing the position of the medulla oblongata in sagittal, horizontal and coronal sections through the zebrafish brain.
Based on the anatomical segmentation of 3 day old zebrafish larval brain by Thomas Müller, Olaf Ronneberger, Wolfgang Driever and colleagues. For details see Ronneberger et al., Nat. Meth. 2012 and http://vibez.informatik.uni-freiburg.de

Abbreviations: Ce, cerebellar plate; D, dorsal telencephalon/pallium; E, epiphysis; EmT, eminentia thalami; Hb, habenula; Hyp, hypothalamus; MO, medulla oblongata; OB, olfactory bulb; OT, optic tectum; PG, preglomerular complex; PO, preoptic area;PrT, pretectum; PTd, posterior tuberculum dorsal part; PTh, prethalamus; PTv posterior tuberculum ventral part; Teg, tegmentum; Th, thalamus; TS, torus semicircularis; V, ventral telencephalon/subpallium; Va, valvula cerebelli.

Description


Ontology
 

is part of:

has parts:


ZFIN

OLS Tree Diagram


Asset 9-100.jpg

Transgenic Lines/Antibodies that label this brain region


Key Publications

locus coeruleus

locus coeruleus

Schematic showing the position of the locus coeruleus at 6dpf based on the 3D anatomical segmentation used by the  Zebrafish Brain Browser  by  Gupta et al., 2018 .

Schematic showing the position of the locus coeruleus at 6dpf based on the 3D anatomical segmentation used by the Zebrafish Brain Browser by Gupta et al., 2018.

Description

The locus coeruleus is one of the main source of noradrenaline projections into the forebrain. The neurotransmitter noradrenaline is important modulators of sleep/wakefulness, learning & memory, attention and reward (Farrar et al., 2018).

The locus coeruleus sends long-range projections to the olfactory bulb, subpallium, pretectum, posterior tuberculum, hypothalamus, optic tectum, and to hindbrain and spinal cord (Tay et al., 2011).


Ontology
 

is part of: hindbrain, medulla oblongata, noradrenergic system.

has parts:



Transgenic Lines that label this brain region

The  y405-Gal4  line was used to anatomically segment the locus coeruleus by the  Zebrafish Brain Browser .  Tabor, K.M., Marquart, G.D., Hurt, C., Smith, T.S., Geoca, A.K., Bhandiwad, A.A., Subedi, A., Sinclair, J.L., Rose, H.M., Polys, N.F., Burgess, H.A. (2019) Brain-wide cellular resolution imaging of Cre transgenic zebrafish lines for functional circuit-mapping. eLife 2019;8:e42687 DOI:  10.7554/eLife.42687

The y405-Gal4 line was used to anatomically segment the locus coeruleus by the Zebrafish Brain Browser.

Tabor, K.M., Marquart, G.D., Hurt, C., Smith, T.S., Geoca, A.K., Bhandiwad, A.A., Subedi, A., Sinclair, J.L., Rose, H.M., Polys, N.F., Burgess, H.A. (2019) Brain-wide cellular resolution imaging of Cre transgenic zebrafish lines for functional circuit-mapping. eLife 2019;8:e42687 DOI: 10.7554/eLife.42687


Antibodies that label this brain region

Key Publications

Ma, P.M. (1994)
Catecholaminergic systems in the zebrafish. II. Projection pathways and pattern of termination of the locus coeruleus.
The Journal of comparative neurology. 344:256-269.

Kastenhuber E., Kratochwil C. F., Ryu S., Schweitzer J., Driever W. (2010).
Genetic dissection of dopaminergic and noradrenergic contributions to catecholaminergic tracts in early larval zebrafish.
J. Comp. Neurol. 518, 439–458. doi: 10.1002/cne.22214

Farrar, M.J., Kolkman, K.E., Fetcho, J.R. (2018)
Features of the structure, development and activity of the Zebrafish Noradrenergic System explored in new CRISPR transgenic lines.
The Journal of comparative neurology. 526(15):2493-2508.

Tay, T. L., Ronneberger, O., Ryu, S., Nitschke, R., & Driever, W. (2011).
Comprehensive catecholaminergic projectome analysis reveals single-neuron integration of zebrafish ascending and descending dopaminergic systems.
Nature Communications, 2(1), 171–112.

McLean, D. L., & Fetcho, J. R. (2004).
Ontogeny and innervation patterns of dopaminergic, noradrenergic, and serotonergic neurons in larval zeb- rafish.
The Journal of Comparative Neurology, 480(1), 38–56.

inferior olive

inferior olive

Description

Hindbrain nucleus afferent to the cerebellum where climbing fibers arise.

Schematic showing the position of the inferior olive at 6dpf based on the 3D anatomical segmentation used by the  Zebrafish Brain Browser  by  Gupta et al., 2018 .

Schematic showing the position of the inferior olive at 6dpf based on the 3D anatomical segmentation used by the Zebrafish Brain Browser by Gupta et al., 2018.

Snapshot of the  Zebrafish Brain Browser  3D viewer showing the position of the inferior olive by  Gupta et al., 2018 .

Snapshot of the Zebrafish Brain Browser 3D viewer showing the position of the inferior olive by Gupta et al., 2018.


Ontology
 

is part of: medulla oblongata, hindbrain

has parts:



Transgenic Lines/Antibodies that label this brain region

The  y330-Gal4  line was used to anatomically segment the inferior olive by the  Zebrafish Brain Browser .  Tabor, K.M., Marquart, G.D., Hurt, C., Smith, T.S., Geoca, A.K., Bhandiwad, A.A., Subedi, A., Sinclair, J.L., Rose, H.M., Polys, N.F., Burgess, H.A. (2019) Brain-wide cellular resolution imaging of Cre transgenic zebrafish lines for functional circuit-mapping. eLife 2019;8:e42687 DOI:  10.7554/eLife.42687

The y330-Gal4 line was used to anatomically segment the inferior olive by the Zebrafish Brain Browser.

Tabor, K.M., Marquart, G.D., Hurt, C., Smith, T.S., Geoca, A.K., Bhandiwad, A.A., Subedi, A., Sinclair, J.L., Rose, H.M., Polys, N.F., Burgess, H.A. (2019) Brain-wide cellular resolution imaging of Cre transgenic zebrafish lines for functional circuit-mapping. eLife 2019;8:e42687 DOI: 10.7554/eLife.42687

Antibodies that label this brain region


Key Publications

Dohaku, R., Yamaguchi, M., Yamamoto, N., Shimizu, T., Osakada, F., Hibi, M. (2019)
Tracing of Afferent Connections in the Zebrafish Cerebellum Using Recombinant Rabies Virus.
Frontiers in neural circuits. 13:30.

Takeuchi, M., Matsuda, K., Yamaguchi, S., Asakawa, K., Miyasaka, N., Lal, P., Yoshihara, Y., Koga, A., Kawakami, K., Shimizu, T., Hibi, M. (2015)
Establishment of Gal4 transgenic zebrafish lines for analysis of development of cerebellar neural circuitry. Developmental Biology. 397(1):1-17.

Castro A, Becerra M, Manso MJ, Anadón R.
Calretinin immunoreactivity in the brain of the zebrafish, Danio rerio: distribution and comparison with some neuropeptides and neurotransmitter-synthesizing enzymes. II. Midbrain, hindbrain, and rostral spinal cord.
J Comp Neurol. 2006 Feb 10;494(5):792-814.

sensory trigeminal nucleus

sensory trigeminal nucleus

Description

“Trigeminal sensory neurons detect thermal and mechanical stimuli in the skin through their elaborately arborized peripheral axons. They send another process centrally to nnervate the hindbrain” (Sagasti et al., 2005)

“In the somatosensory system, chemical, mechanical and thermal stimuli to the head are sensed by different trigeminal sensory neuron subtypes that have varied morphologies and distinct axonal connections to second-order neurons “(Pan et al., 2012). The trigeminal sensory ganglion contains approximately 60 trigeminal sensory neurons. The trigeminal sensory ganglion is found just posterior to the eye, lateral to the anterior hindbrain.


Mosaic labelling with UAS:TdTomato of a single trigeminal sensory neuron whose elaborate peripheral axon extends over the surface of the head just under the skin.

Mosaic labelling with UAS:TdTomato of a single trigeminal sensory neuron whose elaborate peripheral axon extends over the surface of the head just under the skin.

In the spinal cord Rohon-Beard cells perform a similar sensory function until they are replaced by dorsal root ganglia later in development.

Rohon-Beard cell with soma in the spinal cord and peripheral axon covering the tip of the tail. Ths cell projects a central axon up the spinal cord to the hindbrain.

Rohon-Beard cell with soma in the spinal cord and peripheral axon covering the tip of the tail. Ths cell projects a central axon up the spinal cord to the hindbrain.

Ontology
 

is part of:

has parts:


ZFIN

OLS Tree Diagram


Asset 9-100.jpg

Transgenic Lines/Antibodies that label this brain region


Key Publications

Y. Albert Pan, Margaret Choy, David A. Prober, Alexander F. Schie
Robo2 determines subtype-specific axonal projections of trigeminal sensory neurons
Development 2012 139: 591-600; doi: 10.1242/dev.076588

Alvaro Sagasti,1, Matthew R. Guido, David W. Raible and Alexander F. Schier(2005)
Repulsive Interactions Shape the Morphologies and Functional Arrangement of Zebrafish Peripheral Sensory Arbors
Current Biology, Vol. 15, 804–814