In vivo study of gene expression with an enhanced dual-color fluorescent transcriptional timer

  1. Li He  Is a corresponding author
  2. Richard Binari
  3. Jiuhong Huang
  4. Julia Falo-Sanjuan
  5. Norbert Perrimon  Is a corresponding author
  1. Harvard Medical School, United States
  2. Chongqing University of Arts and Sciences, China
  3. Tufts University, United States

Abstract

Fluorescent transcriptional reporters are widely used as signaling reporters and biomarkers to monitor pathway activities and determine cell type identities. However, a large amount of dynamic information is lost due to the long half-life of the fluorescent proteins. To better detect dynamics, fluorescent transcriptional reporters can be destabilized to shorten their half-lives. However, applications of this approach in vivo are limited due to significant reduction of signal intensities. To overcome this limitation, we enhanced translation of a destabilized fluorescent protein and demonstrate the advantages of this approach by characterizing spatio-temporal changes of transcriptional activities in Drosophila. In addition, by combining a fast-folding destabilized fluorescent protein and a slow-folding long-lived fluorescent protein, we generated a dual-color transcriptional timer that provides spatio-temporal information about signaling pathway activities. Finally, we demonstrate the use of this transcriptional timer to identify new genes with dynamic expression patterns.

Data availability

All essential data are provided in the supplementary materials. All the reagents created by this study (plasmids and transgenic flies) will be donated to public domains including Addgene and Bloomington Stock Center.

Article and author information

Author details

  1. Li He

    Department of Genetics, Harvard Medical School, Boston, United States
    For correspondence
    Li_He@hms.harvard.edu
    Competing interests
    The authors declare that no competing interests exist.
    ORCID icon "This ORCID iD identifies the author of this article:" 0000-0003-2155-606X
  2. Richard Binari

    Department of Genetics, Harvard Medical School, Boston, United States
    Competing interests
    The authors declare that no competing interests exist.
  3. Jiuhong Huang

    International Academy of Targeted Therapeutics and Innovation, Chongqing University of Arts and Sciences, Chongqing, China
    Competing interests
    The authors declare that no competing interests exist.
  4. Julia Falo-Sanjuan

    School of Graduate Biomedical Sciences, Tufts University, Medford, United States
    Competing interests
    The authors declare that no competing interests exist.
  5. Norbert Perrimon

    Department of Genetics, Harvard Medical School, Boston, United States
    For correspondence
    perrimon@receptor.med.harvard.edu
    Competing interests
    The authors declare that no competing interests exist.
    ORCID icon "This ORCID iD identifies the author of this article:" 0000-0001-7542-472X

Funding

National Institute of General Medical Sciences

  • Norbert Perrimon

Damon Runyon Cancer Research Foundation

  • Li He

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

Copyright

© 2019, He et al.

This article is distributed under the terms of the Creative Commons Attribution License permitting unrestricted use and redistribution provided that the original author and source are credited.

Metrics

  • 21,376
    views
  • 2,292
    downloads
  • 70
    citations

Views, downloads and citations are aggregated across all versions of this paper published by eLife.

Download links

A two-part list of links to download the article, or parts of the article, in various formats.

Downloads (link to download the article as PDF)

Open citations (links to open the citations from this article in various online reference manager services)

Cite this article (links to download the citations from this article in formats compatible with various reference manager tools)

  1. Li He
  2. Richard Binari
  3. Jiuhong Huang
  4. Julia Falo-Sanjuan
  5. Norbert Perrimon
(2019)
In vivo study of gene expression with an enhanced dual-color fluorescent transcriptional timer
eLife 8:e46181.
https://doi.org/10.7554/eLife.46181

Share this article

https://doi.org/10.7554/eLife.46181

Further reading

    1. Chromosomes and Gene Expression
    2. Developmental Biology
    Valentin Babosha, Natalia Klimenko ... Oksana Maksimenko
    Research Article

    The male-specific lethal complex (MSL), which consists of five proteins and two non-coding roX RNAs, is involved in the transcriptional enhancement of X-linked genes to compensate for the sex chromosome monosomy in Drosophila XY males compared with XX females. The MSL1 and MSL2 proteins form the heterotetrameric core of the MSL complex and are critical for the specific recruitment of the complex to the high-affinity ‘entry’ sites (HAS) on the X chromosome. In this study, we demonstrated that the N-terminal region of MSL1 is critical for stability and functions of MSL1. Amino acid deletions and substitutions in the N-terminal region of MSL1 strongly affect both the interaction with roX2 RNA and the MSL complex binding to HAS on the X chromosome. In particular, substitution of the conserved N-terminal amino-acids 3–7 in MSL1 (MSL1GS) affects male viability similar to the inactivation of genes encoding roX RNAs. In addition, MSL1GS binds to promoters such as MSL1WT but does not co-bind with MSL2 and MSL3 to X chromosomal HAS. However, overexpression of MSL2 partially restores the dosage compensation. Thus, the interaction of MSL1 with roX RNA is critical for the efficient assembly of the MSL complex on HAS of the male X chromosome.

    1. Developmental Biology
    2. Physics of Living Systems
    Fridtjof Brauns, Nikolas H Claussen ... Boris I Shraiman
    Research Article

    Shape changes of epithelia during animal development, such as convergent extension, are achieved through the concerted mechanical activity of individual cells. While much is known about the corresponding large-scale tissue flow and its genetic drivers, fundamental questions regarding local control of contractile activity on the cellular scale and its embryo-scale coordination remain open. To address these questions, we develop a quantitative, model-based analysis framework to relate cell geometry to local tension in recently obtained time-lapse imaging data of gastrulating Drosophila embryos. This analysis systematically decomposes cell shape changes and T1 rearrangements into internally driven, active, and externally driven, passive, contributions. Our analysis provides evidence that germ band extension is driven by active T1 processes that self-organize through positive feedback acting on tensions. More generally, our findings suggest that epithelial convergent extension results from the controlled transformation of internal force balance geometry which combines the effects of bottom-up local self-organization with the top-down, embryo-scale regulation by gene expression.