PUBLICATION

Molecular classification of zebrafish retinal ganglion cells links genes to cell types to behavior

Authors
Kölsch, Y., Hahn, J., Sappington, A., Stemmer, M., Fernandes, A.M., Helmbrecht, T.O., Lele, S., Butrus, S., Laurell, E., Arnold-Ammer, I., Shekhar, K., Sanes, J.R., Baier, H.
ID
ZDB-PUB-201229-13
Date
2020
Source
Neuron   109(4): 645-662.e9 (Journal)
Registered Authors
Baier, Herwig, Stemmer, Manuel
Keywords
behavior, cell atlas, eomes, genetic markers, genome engineering, ipRGCs, physiology, single-cell transcriptomics, visual pathways
Datasets
GEO:GSE152842
MeSH Terms
  • Photic Stimulation/methods
  • Zebrafish
  • Animals
  • Locomotion/physiology*
  • Male
  • Retinal Ganglion Cells/classification*
  • Retinal Ganglion Cells/physiology*
  • Gene Expression Regulation, Developmental/physiology*
  • Female
  • Animals, Genetically Modified
(all 10)
PubMed
33357413 Full text @ Neuron
Abstract
Retinal ganglion cells (RGCs) form an array of feature detectors, which convey visual information to central brain regions. Characterizing RGC diversity is required to understand the logic of the underlying functional segregation. Using single-cell transcriptomics, we systematically classified RGCs in adult and larval zebrafish, thereby identifying marker genes for >30 mature types and several developmental intermediates. We used this dataset to engineer transgenic driver lines, enabling specific experimental access to a subset of RGC types. Expression of one or few transcription factors often predicts dendrite morphologies and axonal projections to specific tectal layers and extratectal targets. In vivo calcium imaging revealed that molecularly defined RGCs exhibit specific functional tuning. Finally, chemogenetic ablation of eomesa+ RGCs, which comprise melanopsin-expressing types with projections to a small subset of central targets, selectively impaired phototaxis. Together, our study establishes a framework for systematically studying the functional architecture of the visual system.
Genes / Markers
Figures
Figure Gallery (10 images)
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Expression
Phenotype
No data available
Mutations / Transgenics
Allele Construct Type Affected Genomic Region
c264TgTransgenic Insertion
    mpn101TgTransgenic Insertion
      mpn165TgTransgenic Insertion
        mpn168TgTransgenic Insertion
          mpn169TgTransgenic Insertion
            mpn220TgTransgenic Insertion
              mpn221TgTransgenic Insertion
                mpn405TgTransgenic Insertion
                  mpn406TgTransgenic Insertion
                  mpn408TgTransgenic Insertion
                  1 - 10 of 18
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                  Human Disease / Model
                  No data available
                  Sequence Targeting Reagents
                  Target Reagent Reagent Type
                  eomesaCRISPR2-eomesaCRISPR
                  mafaaCRISPR1-mafaaCRISPR
                  tbr1bCRISPR1-tbr1bCRISPR
                  tbx3aCRISPR1-tbx3aCRISPR
                  1 - 4 of 4
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                  Fish
                  No data available
                  Antibodies
                  Orthology
                  No data available
                  Engineered Foreign Genes
                  Marker Marker Type Name
                  CeruleanEFGCerulean
                  CreEFGCre
                  DendraEFGDendra
                  EGFPEFGEGFP
                  GAL4EFGGAL4
                  GCaMPEFGGCaMP
                  GFPEFGGFP
                  mCherryEFGmCherry
                  NTREFGNTR
                  QFEFGQF
                  1 - 10 of 12
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                  Mapping
                  No data available
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                  Citation
                  Kölsch, Y., Hahn, J., Sappington, A., Stemmer, M., Fernandes, A.M., Helmbrecht, T.O., Lele, S., Butrus, S., Laurell, E., Arnold-Ammer, I., Shekhar, K., Sanes, J.R., Baier, H. (2020) Molecular classification of zebrafish retinal ganglion cells links genes to cell types to behavior. Neuron. 109(4):645-662.e9.