ZFIN ID: ZDB-FIG-131218-2
Phillips et al., 2013 - The cone-dominant retina and the inner ear of zebrafish express the ortholog of CLRN1, the causative gene of human Usher syndrome type 3A. Gene Expression Patterns   13(8):473-81 Full text @ Gene Expr. Patterns
ADDITIONAL FIGURES
EXPRESSION / LABELING:
Gene: clrn1
Antibodies: Ab1-clrn1, Ab1-glul, Ab1-tuba, Ab4-act
Fish: AB/TU
Anatomical Terms: auditory receptor cell apical region, auditory receptor cell kinocilium, auditory receptor cell stereocilium, auditory receptor cell synapse, Muller cell (all 15) expand
Stage Range: Protruding-mouth to Days 7-13

Fig. 4

Clarin-1 localizes in mechanosensory hair cell bodies and at the outer limiting membrane and lateral contacts between photoreceptors in the larval retina. (A-D) Cross sections showing Clarin-1 enrichment in apical regions of cell bodies (brackets) and at synapses (arrowheads) of hair cells of the ear (anterior macula shown in A, C) and neuromasts (B). Clarin-1 does not colocalize with actin filaments in the hair cell stereocilia (white arrows in C and D). Kinocilia are labeled with Acetylated Tubulin antibody (AT) and stereocilia are labeled with Actin antibody. (E-H) Cross sections through the retina of 3 dpf (E and F) and 7 dpf (G and H) larvae labeled with DrClrn1 and Glutamine synthetase (GS, panel E) or Actin (panel G) antibodies. Clarin-1 is enriched at synapses (OPL indicated with white closed arrow in F), and in the inner nuclear layer (white open arrow in F) at 3 dpf. Blue box in ventral region of E and F indicates region magnified in panels I and J. A full retina view at 7 dpf shows Clarin-1 label in the photoreceptors (ONL), Inner nuclear layer (INL) and ganglion cell layer (GCL). (I-L) High magnification views of 3 dpf (I and J), and 5 dpf (K and L) retinas. Clarin-1 is enriched at the outer limiting membrane (OLM) and in the outer plexiform layer (OPL). Glial cell processes are seen passing through the layer of the photoreceptor nuclei (ONL). At 3 dpf, the apical structures of photoreceptors, the inner and outer segments, are rudimentary and the retinal pigmented epithelium (RPE) lies close to the OLM. By 5 dpf, cone apices have extended such that space between the OLM and the RPE has increased, and fine, filamentous enrichments of Clarin-1 can be observed between cone inner segments (asterisks in K and L; high magnification image shown in L). (M and N) Transverse section through the 7 dpf retina to visualize the photoreceptor layer from the top down. The meshwork of cell junctions that make up the OLM derive from Müller cell processes labeled by Glutamine synthetase (GS). Clarin-1 localization partially overlaps, and is also enriched at the lateral interfaces extending from the periphery of the transverse cut (white arrows in I). (O and P) Clarin-1 is seen in close proximity to actin at the lateral contacts between photoreceptors in the 7 dpf retina. Scale bars: E, F: 50 µm; A, C, D, G-P: 10 µm. B and L: 5 µm. Schematics show the plane of sectioning for retinal tissue.

Gene Expression Details
Gene Antibody Fish Conditions Stage Qualifier Anatomy Assay
clrn1 Ab1-clrn1 AB/TU standard conditions Protruding-mouth outer limiting membrane IHC
Ab1-clrn1 Protruding-mouth retinal ganglion cell layer IHC
Ab1-clrn1 Protruding-mouth retinal inner nuclear layer IHC
Ab1-clrn1 Protruding-mouth retinal outer nuclear layer IHC
Ab1-clrn1 Protruding-mouth retinal outer plexiform layer IHC
Ab1-clrn1 Day 5 auditory receptor cell apical region IHC
Ab1-clrn1 Day 5 Not Detected auditory receptor cell stereocilium IHC
Ab1-clrn1 Day 5 auditory receptor cell synapse IHC
Ab1-clrn1 Day 5 neuromast hair cell apical region IHC
Ab1-clrn1 Day 5 neuromast hair cell synapse IHC
Ab1-clrn1 Day 5 outer limiting membrane IHC
Ab1-clrn1 Day 5 photoreceptor inner segment layer IHC
Ab1-clrn1 Day 5 retinal outer plexiform layer IHC
Ab1-clrn1 Days 7-13 outer limiting membrane IHC
Ab1-clrn1 Days 7-13 photoreceptor inner segment layer IHC
Ab1-clrn1 Days 7-13 retinal ganglion cell layer IHC
Ab1-clrn1 Days 7-13 retinal inner nuclear layer IHC
Ab1-clrn1 Days 7-13 retinal outer nuclear layer IHC
Antibody Labeling Details
Antibody Assay Fish Conditions Stage Anatomy
Ab1-glul IHC AB/TU standard conditions Protruding-mouth Muller cell
IHC Protruding-mouth Muller cell glial cell projection
IHC Protruding-mouth outer limiting membrane
IHC Protruding-mouth photoreceptor inner segment layer glial cell projection
IHC Day 5 Muller cell
IHC Day 5 Muller cell glial cell projection
IHC Day 5 outer limiting membrane
IHC Day 5 photoreceptor inner segment layer glial cell projection
IHC Days 7-13 Muller cell
IHC Days 7-13 Muller cell glial cell projection
IHC Days 7-13 outer limiting membrane
IHC Days 7-13 photoreceptor inner segment layer glial cell projection
Ab1-tuba IHC AB/TU standard conditions Day 5 auditory receptor cell kinocilium
Ab4-act IHC AB/TU standard conditions Day 5 auditory receptor cell stereocilium
IHC Days 7-13 photoreceptor inner segment layer
Phenotype Details No data available
Acknowledgments:
ZFIN wishes to thank the journal Gene Expression Patterns for permission to reproduce figures from this article. Please note that this material may be protected by copyright.

Reprinted from Gene Expression Patterns, 13(8), Phillips, J.B., Västinsalo, H., Wegner, J., Clément, A., Sankila, E.M., and Westerfield, M., The cone-dominant retina and the inner ear of zebrafish express the ortholog of CLRN1, the causative gene of human Usher syndrome type 3A, 473-81, Copyright (2013) with permission from Elsevier. Full text @ Gene Expr. Patterns