Source 1primary paper2022Cell Reports
Toolkit/light-controlled Bicoid transcription factor
light-controlled Bicoid transcription factor
Also known as: light-controlled versions of the Bicoid transcription factor
Taxonomy: Mechanism Branch / Architecture. Workflows sit above the mechanism and technique branches rather than replacing them.
Summary
The light-controlled Bicoid transcription factor is an engineered optogenetic version of the Drosophila developmental transcription factor Bicoid used in embryos to acutely modulate Bicoid activity and measure downstream gap-gene responses in vivo. It was applied with fast light stimuli and real-time transcriptional reporters to probe the kinetics of Bicoid-dependent gene regulation.
Usefulness & Problems
Why this is useful
This tool is useful for causally linking acute changes in a developmental transcription factor to immediate transcriptional outputs during embryogenesis. The cited study indicates that combining optogenetic perturbation with real-time reporter readouts can reveal downstream gene-expression kinetics in vivo.
Source:
Here we show that fast optogenetic stimuli, real-time transcriptional reporters, and a simplified genetic background can be combined to reveal the kinetics of gene expression downstream of a developmental transcription factor in vivo.
Problem solved
It addresses the problem of modulating transcription factor activity acutely while simultaneously recording output gene activity in a developing embryo. This enables analysis of dynamic regulatory responses within developmental gene networks rather than relying only on static perturbations.
Taxonomy & Function
Primary hierarchy
Mechanism Branch
Architecture: A composed arrangement of multiple parts that instantiates one or more mechanisms.
Mechanisms
optogenetic light control of transcription factor activitytranscriptional activationtranscriptional repressionTechniques
No technique tags yet.
Target processes
transcriptionInput: Light
Implementation Constraints
The available evidence indicates that light-controlled Bicoid variants were engineered and studied in embryos, together with real-time transcriptional reporters and a simplified genetic background. The specific construct architecture, cofactors, illumination parameters, and delivery or expression strategy are not described in the supplied evidence.
The supplied evidence documents use in Drosophila embryos and downstream gap-gene analysis, but it does not specify the optogenetic module, light wavelength, dynamic range, or quantitative performance metrics. Independent replication is not provided in the supplied evidence.
Validation
Cell-freeBacteriaMammalianMouseHumanTherapeuticIndep. Replication
Supporting Sources
Ranked Claims
Acute modulation of transcription factor concentration while recording output gene activity is a powerful approach for studying developmental gene networks in vivo.
Acute modulation of transcription factor concentration while recording output gene activity represents a powerful approach for studying developmental gene networks in vivo.
Acute modulation of transcription factor concentration while recording output gene activity is a powerful approach for studying developmental gene networks in vivo.
Acute modulation of transcription factor concentration while recording output gene activity represents a powerful approach for studying developmental gene networks in vivo.
Acute modulation of transcription factor concentration while recording output gene activity is a powerful approach for studying developmental gene networks in vivo.
Acute modulation of transcription factor concentration while recording output gene activity represents a powerful approach for studying developmental gene networks in vivo.
Acute modulation of transcription factor concentration while recording output gene activity is a powerful approach for studying developmental gene networks in vivo.
Acute modulation of transcription factor concentration while recording output gene activity represents a powerful approach for studying developmental gene networks in vivo.
Acute modulation of transcription factor concentration while recording output gene activity is a powerful approach for studying developmental gene networks in vivo.
Acute modulation of transcription factor concentration while recording output gene activity represents a powerful approach for studying developmental gene networks in vivo.
Acute modulation of transcription factor concentration while recording output gene activity is a powerful approach for studying developmental gene networks in vivo.
Acute modulation of transcription factor concentration while recording output gene activity represents a powerful approach for studying developmental gene networks in vivo.
Acute modulation of transcription factor concentration while recording output gene activity is a powerful approach for studying developmental gene networks in vivo.
Acute modulation of transcription factor concentration while recording output gene activity represents a powerful approach for studying developmental gene networks in vivo.
Fast optogenetic stimuli, real-time transcriptional reporters, and a simplified genetic background can be combined to reveal the kinetics of gene expression downstream of a developmental transcription factor in vivo.
Here we show that fast optogenetic stimuli, real-time transcriptional reporters, and a simplified genetic background can be combined to reveal the kinetics of gene expression downstream of a developmental transcription factor in vivo.
Fast optogenetic stimuli, real-time transcriptional reporters, and a simplified genetic background can be combined to reveal the kinetics of gene expression downstream of a developmental transcription factor in vivo.
Here we show that fast optogenetic stimuli, real-time transcriptional reporters, and a simplified genetic background can be combined to reveal the kinetics of gene expression downstream of a developmental transcription factor in vivo.
Fast optogenetic stimuli, real-time transcriptional reporters, and a simplified genetic background can be combined to reveal the kinetics of gene expression downstream of a developmental transcription factor in vivo.
Here we show that fast optogenetic stimuli, real-time transcriptional reporters, and a simplified genetic background can be combined to reveal the kinetics of gene expression downstream of a developmental transcription factor in vivo.
Fast optogenetic stimuli, real-time transcriptional reporters, and a simplified genetic background can be combined to reveal the kinetics of gene expression downstream of a developmental transcription factor in vivo.
Here we show that fast optogenetic stimuli, real-time transcriptional reporters, and a simplified genetic background can be combined to reveal the kinetics of gene expression downstream of a developmental transcription factor in vivo.
Fast optogenetic stimuli, real-time transcriptional reporters, and a simplified genetic background can be combined to reveal the kinetics of gene expression downstream of a developmental transcription factor in vivo.
Here we show that fast optogenetic stimuli, real-time transcriptional reporters, and a simplified genetic background can be combined to reveal the kinetics of gene expression downstream of a developmental transcription factor in vivo.
Fast optogenetic stimuli, real-time transcriptional reporters, and a simplified genetic background can be combined to reveal the kinetics of gene expression downstream of a developmental transcription factor in vivo.
Here we show that fast optogenetic stimuli, real-time transcriptional reporters, and a simplified genetic background can be combined to reveal the kinetics of gene expression downstream of a developmental transcription factor in vivo.
Fast optogenetic stimuli, real-time transcriptional reporters, and a simplified genetic background can be combined to reveal the kinetics of gene expression downstream of a developmental transcription factor in vivo.
Here we show that fast optogenetic stimuli, real-time transcriptional reporters, and a simplified genetic background can be combined to reveal the kinetics of gene expression downstream of a developmental transcription factor in vivo.
Bicoid causes delayed repression of Krüppel.
and delayed repression of Krüppel.
Bicoid causes delayed repression of Krüppel.
and delayed repression of Krüppel.
Bicoid causes delayed repression of Krüppel.
and delayed repression of Krüppel.
Bicoid causes delayed repression of Krüppel.
and delayed repression of Krüppel.
Bicoid causes delayed repression of Krüppel.
and delayed repression of Krüppel.
Bicoid causes delayed repression of Krüppel.
and delayed repression of Krüppel.
Bicoid causes delayed repression of Krüppel.
and delayed repression of Krüppel.
Bicoid rapidly activates transcription of giant and hunchback.
Our results recapitulate known relationships, including rapid Bicoid-dependent transcription of giant and hunchback
Bicoid rapidly activates transcription of giant and hunchback.
Our results recapitulate known relationships, including rapid Bicoid-dependent transcription of giant and hunchback
Bicoid rapidly activates transcription of giant and hunchback.
Our results recapitulate known relationships, including rapid Bicoid-dependent transcription of giant and hunchback
Bicoid rapidly activates transcription of giant and hunchback.
Our results recapitulate known relationships, including rapid Bicoid-dependent transcription of giant and hunchback
Bicoid rapidly activates transcription of giant and hunchback.
Our results recapitulate known relationships, including rapid Bicoid-dependent transcription of giant and hunchback
Bicoid rapidly activates transcription of giant and hunchback.
Our results recapitulate known relationships, including rapid Bicoid-dependent transcription of giant and hunchback
Bicoid rapidly activates transcription of giant and hunchback.
Our results recapitulate known relationships, including rapid Bicoid-dependent transcription of giant and hunchback
The posterior pattern of knirps shows a quick but inverted response to Bicoid perturbation, suggesting that Bicoid may directly suppress knirps transcription.
the posterior pattern of knirps exhibits a quick but inverted response to Bicoid perturbation, suggesting a noncanonical role for Bicoid in directly suppressing knirps transcription.
The posterior pattern of knirps shows a quick but inverted response to Bicoid perturbation, suggesting that Bicoid may directly suppress knirps transcription.
the posterior pattern of knirps exhibits a quick but inverted response to Bicoid perturbation, suggesting a noncanonical role for Bicoid in directly suppressing knirps transcription.
The posterior pattern of knirps shows a quick but inverted response to Bicoid perturbation, suggesting that Bicoid may directly suppress knirps transcription.
the posterior pattern of knirps exhibits a quick but inverted response to Bicoid perturbation, suggesting a noncanonical role for Bicoid in directly suppressing knirps transcription.
The posterior pattern of knirps shows a quick but inverted response to Bicoid perturbation, suggesting that Bicoid may directly suppress knirps transcription.
the posterior pattern of knirps exhibits a quick but inverted response to Bicoid perturbation, suggesting a noncanonical role for Bicoid in directly suppressing knirps transcription.
The posterior pattern of knirps shows a quick but inverted response to Bicoid perturbation, suggesting that Bicoid may directly suppress knirps transcription.
the posterior pattern of knirps exhibits a quick but inverted response to Bicoid perturbation, suggesting a noncanonical role for Bicoid in directly suppressing knirps transcription.
The posterior pattern of knirps shows a quick but inverted response to Bicoid perturbation, suggesting that Bicoid may directly suppress knirps transcription.
the posterior pattern of knirps exhibits a quick but inverted response to Bicoid perturbation, suggesting a noncanonical role for Bicoid in directly suppressing knirps transcription.
The posterior pattern of knirps shows a quick but inverted response to Bicoid perturbation, suggesting that Bicoid may directly suppress knirps transcription.
the posterior pattern of knirps exhibits a quick but inverted response to Bicoid perturbation, suggesting a noncanonical role for Bicoid in directly suppressing knirps transcription.
Approval Evidence
1 source5 linked approval claimsfirst-pass slug light-controlled-bicoid-transcription-factor
We engineer light-controlled versions of the Bicoid transcription factor and study their effects on downstream gap genes in embryos.
Source:
approach valuesupports
Acute modulation of transcription factor concentration while recording output gene activity is a powerful approach for studying developmental gene networks in vivo.
Acute modulation of transcription factor concentration while recording output gene activity represents a powerful approach for studying developmental gene networks in vivo.
Source:
method capabilitysupports
Fast optogenetic stimuli, real-time transcriptional reporters, and a simplified genetic background can be combined to reveal the kinetics of gene expression downstream of a developmental transcription factor in vivo.
Here we show that fast optogenetic stimuli, real-time transcriptional reporters, and a simplified genetic background can be combined to reveal the kinetics of gene expression downstream of a developmental transcription factor in vivo.
Source:
regulatory relationshipsupports
Bicoid causes delayed repression of Krüppel.
and delayed repression of Krüppel.
Source:
regulatory relationshipsupports
Bicoid rapidly activates transcription of giant and hunchback.
Our results recapitulate known relationships, including rapid Bicoid-dependent transcription of giant and hunchback
Source:
regulatory relationshipsupports
The posterior pattern of knirps shows a quick but inverted response to Bicoid perturbation, suggesting that Bicoid may directly suppress knirps transcription.
the posterior pattern of knirps exhibits a quick but inverted response to Bicoid perturbation, suggesting a noncanonical role for Bicoid in directly suppressing knirps transcription.
Source:
Comparisons
Source-backed strengths
The reported system supports fast optogenetic stimulation in vivo and was used to resolve rapid activation of the gap genes giant and hunchback downstream of Bicoid. Its integration with real-time transcriptional reporter assays and a simplified genetic background provided kinetic information on developmental transcriptional regulation.
Ranked Citations
- 1.