1. Genetics and Genomics
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A genetic, genomic, and computational resource for exploring neural circuit function

  1. Fred P Davis  Is a corresponding author
  2. Aljoscha Nern
  3. Serge Picard
  4. Michael B Reiser
  5. Gerald M Rubin
  6. Sean R Eddy
  7. Gilbert L Henry  Is a corresponding author
  1. Janelia Research Campus, Howard Hughes Medical Institute, United States
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Cite this article as: eLife 2020;9:e50901 doi: 10.7554/eLife.50901

Abstract

The anatomy of many neural circuits is being characterized with increasing resolution, but their molecular properties remain mostly unknown. Here, we characterize gene expression patterns in distinct neural cell types of the Drosophila visual system using genetic lines to access individual cell types, the TAPIN-seq method to measure their transcriptomes, and a probabilistic method to interpret these measurements. We used these tools to build a resource of high-resolution transcriptomes for 100 driver lines covering 67 cell types, available at http://www.opticlobe.com. Combining these transcriptomes with recently reported connectomes helps characterize how information is transmitted and processed across a range of scales, from individual synapses to circuit pathways. We describe examples that include identifying neurotransmitters, including cases of apparent co-release, generating functional hypotheses based on receptor expression, as well as identifying strong commonalities between different cell types.

Article and author information

Author details

  1. Fred P Davis

    Janelia Research Campus, Howard Hughes Medical Institute, Ashburn, United States
    For correspondence
    fredpdavis@gmail.com
    Competing interests
    The authors declare that no competing interests exist.
    ORCID icon "This ORCID iD identifies the author of this article:" 0000-0001-8294-1610
  2. Aljoscha Nern

    Janelia Research Campus, Howard Hughes Medical Institute, Ashburn, United States
    Competing interests
    The authors declare that no competing interests exist.
    ORCID icon "This ORCID iD identifies the author of this article:" 0000-0002-3822-489X
  3. Serge Picard

    Janelia Research Campus, Howard Hughes Medical Institute, Ashburn, United States
    Competing interests
    The authors declare that no competing interests exist.
  4. Michael B Reiser

    Janelia Research Campus, Howard Hughes Medical Institute, Ashburn, United States
    Competing interests
    The authors declare that no competing interests exist.
    ORCID icon "This ORCID iD identifies the author of this article:" 0000-0002-4108-4517
  5. Gerald M Rubin

    Janelia Research Campus, Howard Hughes Medical Institute, Ashburn, United States
    Competing interests
    The authors declare that no competing interests exist.
    ORCID icon "This ORCID iD identifies the author of this article:" 0000-0001-8762-8703
  6. Sean R Eddy

    Janelia Research Campus, Howard Hughes Medical Institute, Ashburn, United States
    Competing interests
    The authors declare that no competing interests exist.
    ORCID icon "This ORCID iD identifies the author of this article:" 0000-0001-6676-4706
  7. Gilbert L Henry

    Janelia Research Campus, Howard Hughes Medical Institute, Ashburn, United States
    For correspondence
    henry@cshl.edu
    Competing interests
    The authors declare that no competing interests exist.

Funding

National Institute of Arthritis and Musculoskeletal and Skin Diseases (Intramural Research Program)

  • Fred P Davis

Howard Hughes Medical Institute

  • Fred P Davis
  • Aljoscha Nern
  • Serge Picard
  • Michael B Reiser
  • Gerald M Rubin
  • Sean R Eddy

The funders had no role in study design, data collection and interpretation, or the decision to submit the work for publication.

Reviewing Editor

  1. Hugo J Bellen, Baylor College of Medicine, United States

Publication history

  1. Received: August 6, 2019
  2. Accepted: January 14, 2020
  3. Accepted Manuscript published: January 15, 2020 (version 1)
  4. Version of Record published: February 21, 2020 (version 2)

Copyright

This is an open-access article, free of all copyright, and may be freely reproduced, distributed, transmitted, modified, built upon, or otherwise used by anyone for any lawful purpose. The work is made available under the Creative Commons CC0 public domain dedication.

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