PUBLICATION

Transcription factors underlying photoreceptor diversity

Authors
Angueyra, J.M., Kunze, V.P., Patak, L.K., Kim, H., Kindt, K., Li, W.
ID
ZDB-PUB-230207-22
Date
2023
Source
eLIFE   12: (Journal)
Registered Authors
Kindt, Katie
Keywords
cone subtypes, developmental biology, neuroscience, photoreceptor fate, retina, transcription factor, transcriptomics, zebrafish
Datasets
GEO:GSE188560
MeSH Terms
  • Zebrafish*/genetics
  • Animals
  • Retinal Cone Photoreceptor Cells/physiology
  • Cell Differentiation/genetics
  • Transcription Factors*/metabolism
  • Zebrafish Proteins/metabolism
  • Retina/metabolism
  • Receptors, Cytoplasmic and Nuclear/metabolism
(all 8)
PubMed
36745553 Full text @ Elife
Abstract
During development, retinal progenitors navigate a complex landscape of fate decisions to generate the major cell classes necessary for proper vision. Transcriptional regulation is critical to generate diversity within these major cell classes. Here, we aim to provide the resources and techniques required to identify transcription factors necessary to generate and maintain diversity in photoreceptor subtypes, which are critical for vision. First, we generate a key resource: a high-quality and deep transcriptomic profile of each photoreceptor subtype in adult zebrafish. We make this resource openly accessible, easy to explore, and have integrated it with other currently available photoreceptor transcriptomic datasets. Second, using our transcriptomic profiles, we derive an in-depth map of expression of transcription factors in photoreceptors. Third, we use efficient CRISPR-Cas9 based mutagenesis to screen for null phenotypes in F0 larvae (F0 screening) as a fast, efficient, and versatile technique to assess the involvement of candidate transcription factors in the generation of photoreceptor subtypes. We first show that known phenotypes can be easily replicated using this method: loss of S cones in foxq2 mutants and loss of rods in nr2e3 mutants. We then identify novel functions for the transcription factor Tbx2, demonstrating that it plays distinct roles in controlling the generation of all photoreceptor subtypes within the retina. Our study provides a roadmap to discover additional factors involved in this process. Additionally, we explore four transcription factors of unknown function (Skor1a, Sall1a, Lrrfip1a, and Xbp1), and find no evidence for their involvement in the generation of photoreceptor subtypes. This dataset and screening method will be a valuable way to explore the genes involved in many other essential aspects of photoreceptor biology.
Genes / Markers
Figures
Figure Gallery (6 images)
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Expression
No data available
Phenotype
No data available
Mutations / Transgenics
Allele Construct Type Affected Genomic Region
fl1TgTransgenic Insertion
    kj4TgTransgenic Insertion
      kj9TgTransgenic Insertion
        kj11TgTransgenic Insertion
          q22TgTransgenic Insertion
            q28TgTransgenic Insertion
              q30TgTransgenic Insertion
                1 - 7 of 7
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                Human Disease / Model
                No data available
                Sequence Targeting Reagents
                Target Reagent Reagent Type
                foxq2CRISPR3-foxq2CRISPR
                foxq2CRISPR4-foxq2CRISPR
                lrrfip1aCRISPR1-lrrfip1aCRISPR
                lrrfip1aCRISPR2-lrrfip1aCRISPR
                nr2e3CRISPR2-nr2e3CRISPR
                nr2e3CRISPR3-nr2e3CRISPR
                sall1aCRISPR1-sall1aCRISPR
                sall1aCRISPR2-sall1aCRISPR
                sall1aCRISPR3-sall1aCRISPR
                skor1aCRISPR1-skor1aCRISPR
                1 - 10 of 21
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                Fish
                No data available
                Antibodies
                Orthology
                No data available
                Engineered Foreign Genes
                Marker Marker Type Name
                EGFPEFGEGFP
                mCherryEFGmCherry
                NTREFGNTR
                TomatoEFGTomato
                1 - 4 of 4
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                Mapping
                No data available
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                Citation
                Angueyra, J.M., Kunze, V.P., Patak, L.K., Kim, H., Kindt, K., Li, W. (2023) Transcription factors underlying photoreceptor diversity. eLIFE. 12:.