Source 1primary paper2007Zeitschrift für Naturforschung C
Toolkit/CIb1 promoter
CIb1 promoter
Also known as: CIb1 gene promoter
Taxonomy: Mechanism Branch / Component. Workflows sit above the mechanism and technique branches rather than replacing them.
Summary
The CIb1 promoter is a Bombyx mori gene promoter characterized by firefly luciferase reporter assays in the ovary-derived BmN cell line. Deletion analysis identified promoter fragments with transcriptional activity, including an 82 bp region from -72 to +10 nt that retains basic promoter function, and an upstream segment with strong negative regulatory effects.
Usefulness & Problems
Why this is useful
This promoter is useful as a characterized silkworm regulatory DNA element for driving and dissecting transcription in BmN cells. Its mapped minimal active region and upstream inhibitory segment provide a basis for tuning expression and studying cis-regulatory control in an insect cell context.
Problem solved
It helps address the problem of identifying functional promoter sequences and cis-regulatory regions in Bombyx mori. Specifically, it enables separation of basal promoter activity from upstream negative regulatory input through promoter deletion mapping.
Problem links
Need conditional recombination or state switching
DerivedThe CIb1 promoter is a Bombyx mori gene promoter characterized by firefly luciferase reporter assays in the ovary-derived BmN cell line. Deletion analysis identified promoter fragments with transcriptional activity, including an 82 bp region from -72 to +10 nt that retains basic promoter function, and an upstream segment with strong negative regulatory effects.
Need tighter control over gene expression timing or amplitude
DerivedThe CIb1 promoter is a Bombyx mori gene promoter characterized by firefly luciferase reporter assays in the ovary-derived BmN cell line. Deletion analysis identified promoter fragments with transcriptional activity, including an 82 bp region from -72 to +10 nt that retains basic promoter function, and an upstream segment with strong negative regulatory effects.
Taxonomy & Function
Primary hierarchy
Mechanism Branch
Component: A low-level RNA part used inside a larger architecture that realizes a mechanism.
Mechanisms
negative cis-regulationpositive cis-regulationtranscriptional regulation by promoter activityTechniques
No technique tags yet.
Target processes
recombinationtranscriptionImplementation Constraints
cofactor dependency: cofactor requirement unknownencoding mode: genetically encodedimplementation constraint: context specific validationoperating role: reporter
Characterization was performed using firefly luciferase as the reporter in BmN cells derived from Bombyx mori ovary. Practical use is therefore most directly supported for reporter constructs containing CIb1 promoter fragments, including the -72 to +10 nt minimal active region and the -517 to -386 nt upstream inhibitory segment when modulation of output is desired.
The available evidence is limited to a single reported in vitro characterization in BmN cells. No evidence here establishes performance in vivo, cross-cell-type generality, sequence-level motif definition, or utility for recombination beyond the listed target processes.
Validation
Cell-freeBacteriaMammalianMouseHumanTherapeuticIndep. Replication
Supporting Sources
Ranked Claims
CIb1 promoter fragments have transcription activity in the Bombyx mori ovary-derived BmN cell line.
The results showed that CIb1 promoter fragments have transcription activities in the B. mori ovary-derived BmN cell line.
CIb1 promoter fragments have transcription activity in the Bombyx mori ovary-derived BmN cell line.
The results showed that CIb1 promoter fragments have transcription activities in the B. mori ovary-derived BmN cell line.
CIb1 promoter fragments have transcription activity in the Bombyx mori ovary-derived BmN cell line.
The results showed that CIb1 promoter fragments have transcription activities in the B. mori ovary-derived BmN cell line.
CIb1 promoter fragments have transcription activity in the Bombyx mori ovary-derived BmN cell line.
The results showed that CIb1 promoter fragments have transcription activities in the B. mori ovary-derived BmN cell line.
CIb1 promoter fragments have transcription activity in the Bombyx mori ovary-derived BmN cell line.
The results showed that CIb1 promoter fragments have transcription activities in the B. mori ovary-derived BmN cell line.
CIb1 promoter fragments have transcription activity in the Bombyx mori ovary-derived BmN cell line.
The results showed that CIb1 promoter fragments have transcription activities in the B. mori ovary-derived BmN cell line.
CIb1 promoter fragments have transcription activity in the Bombyx mori ovary-derived BmN cell line.
The results showed that CIb1 promoter fragments have transcription activities in the B. mori ovary-derived BmN cell line.
The 82 bp CIb1 promoter fragment from -72 to +10 nt has basic transcription activity.
The 82 bp fragment (-72 to +10 nt) containing the eukaryotic core promoter elements revealed a basic transcription activity.
The 82 bp CIb1 promoter fragment from -72 to +10 nt has basic transcription activity.
The 82 bp fragment (-72 to +10 nt) containing the eukaryotic core promoter elements revealed a basic transcription activity.
The 82 bp CIb1 promoter fragment from -72 to +10 nt has basic transcription activity.
The 82 bp fragment (-72 to +10 nt) containing the eukaryotic core promoter elements revealed a basic transcription activity.
The 82 bp CIb1 promoter fragment from -72 to +10 nt has basic transcription activity.
The 82 bp fragment (-72 to +10 nt) containing the eukaryotic core promoter elements revealed a basic transcription activity.
The 82 bp CIb1 promoter fragment from -72 to +10 nt has basic transcription activity.
The 82 bp fragment (-72 to +10 nt) containing the eukaryotic core promoter elements revealed a basic transcription activity.
The 82 bp CIb1 promoter fragment from -72 to +10 nt has basic transcription activity.
The 82 bp fragment (-72 to +10 nt) containing the eukaryotic core promoter elements revealed a basic transcription activity.
The 82 bp CIb1 promoter fragment from -72 to +10 nt has basic transcription activity.
The 82 bp fragment (-72 to +10 nt) containing the eukaryotic core promoter elements revealed a basic transcription activity.
A 132 bp fragment from -517 nt to -386 nt upstream of the transcription initiation site strongly suppresses CIb1 promoter transcription activity and likely contains strong negative cis-acting elements.
In vitro analysis indicated that the 132 bp fragment from -517 nt to -386 nt upstream of the transcription initiation site strongly suppressed the transcription activity of the CIb1 promoter, suggesting that the 132 bp fragment harbours strong negative cis-acting elements.
A 132 bp fragment from -517 nt to -386 nt upstream of the transcription initiation site strongly suppresses CIb1 promoter transcription activity and likely contains strong negative cis-acting elements.
In vitro analysis indicated that the 132 bp fragment from -517 nt to -386 nt upstream of the transcription initiation site strongly suppressed the transcription activity of the CIb1 promoter, suggesting that the 132 bp fragment harbours strong negative cis-acting elements.
A 132 bp fragment from -517 nt to -386 nt upstream of the transcription initiation site strongly suppresses CIb1 promoter transcription activity and likely contains strong negative cis-acting elements.
In vitro analysis indicated that the 132 bp fragment from -517 nt to -386 nt upstream of the transcription initiation site strongly suppressed the transcription activity of the CIb1 promoter, suggesting that the 132 bp fragment harbours strong negative cis-acting elements.
A 132 bp fragment from -517 nt to -386 nt upstream of the transcription initiation site strongly suppresses CIb1 promoter transcription activity and likely contains strong negative cis-acting elements.
In vitro analysis indicated that the 132 bp fragment from -517 nt to -386 nt upstream of the transcription initiation site strongly suppressed the transcription activity of the CIb1 promoter, suggesting that the 132 bp fragment harbours strong negative cis-acting elements.
A 132 bp fragment from -517 nt to -386 nt upstream of the transcription initiation site strongly suppresses CIb1 promoter transcription activity and likely contains strong negative cis-acting elements.
In vitro analysis indicated that the 132 bp fragment from -517 nt to -386 nt upstream of the transcription initiation site strongly suppressed the transcription activity of the CIb1 promoter, suggesting that the 132 bp fragment harbours strong negative cis-acting elements.
A 132 bp fragment from -517 nt to -386 nt upstream of the transcription initiation site strongly suppresses CIb1 promoter transcription activity and likely contains strong negative cis-acting elements.
In vitro analysis indicated that the 132 bp fragment from -517 nt to -386 nt upstream of the transcription initiation site strongly suppressed the transcription activity of the CIb1 promoter, suggesting that the 132 bp fragment harbours strong negative cis-acting elements.
A 132 bp fragment from -517 nt to -386 nt upstream of the transcription initiation site strongly suppresses CIb1 promoter transcription activity and likely contains strong negative cis-acting elements.
In vitro analysis indicated that the 132 bp fragment from -517 nt to -386 nt upstream of the transcription initiation site strongly suppressed the transcription activity of the CIb1 promoter, suggesting that the 132 bp fragment harbours strong negative cis-acting elements.
The Bm1 element positively regulates the CIb1 promoter.
The Bm1 element, upstream the transcription initiation site, showed a positive regulation function to the CIb1 promoter.
The Bm1 element positively regulates the CIb1 promoter.
The Bm1 element, upstream the transcription initiation site, showed a positive regulation function to the CIb1 promoter.
The Bm1 element positively regulates the CIb1 promoter.
The Bm1 element, upstream the transcription initiation site, showed a positive regulation function to the CIb1 promoter.
The Bm1 element positively regulates the CIb1 promoter.
The Bm1 element, upstream the transcription initiation site, showed a positive regulation function to the CIb1 promoter.
The Bm1 element positively regulates the CIb1 promoter.
The Bm1 element, upstream the transcription initiation site, showed a positive regulation function to the CIb1 promoter.
The Bm1 element positively regulates the CIb1 promoter.
The Bm1 element, upstream the transcription initiation site, showed a positive regulation function to the CIb1 promoter.
The Bm1 element positively regulates the CIb1 promoter.
The Bm1 element, upstream the transcription initiation site, showed a positive regulation function to the CIb1 promoter.
Bombyx mori nucleopolyhedrovirus infection increases CIb1 promoter activity.
Infection of Bombyx mori nucleopolyhedrovirus (BmNPV) increased the activity of the CIb1 promoter
Bombyx mori nucleopolyhedrovirus infection increases CIb1 promoter activity.
Infection of Bombyx mori nucleopolyhedrovirus (BmNPV) increased the activity of the CIb1 promoter
Bombyx mori nucleopolyhedrovirus infection increases CIb1 promoter activity.
Infection of Bombyx mori nucleopolyhedrovirus (BmNPV) increased the activity of the CIb1 promoter
Bombyx mori nucleopolyhedrovirus infection increases CIb1 promoter activity.
Infection of Bombyx mori nucleopolyhedrovirus (BmNPV) increased the activity of the CIb1 promoter
Bombyx mori nucleopolyhedrovirus infection increases CIb1 promoter activity.
Infection of Bombyx mori nucleopolyhedrovirus (BmNPV) increased the activity of the CIb1 promoter
Bombyx mori nucleopolyhedrovirus infection increases CIb1 promoter activity.
Infection of Bombyx mori nucleopolyhedrovirus (BmNPV) increased the activity of the CIb1 promoter
Bombyx mori nucleopolyhedrovirus infection increases CIb1 promoter activity.
Infection of Bombyx mori nucleopolyhedrovirus (BmNPV) increased the activity of the CIb1 promoter
Approval Evidence
1 source5 linked approval claimsfirst-pass slug cib1-promoter
Characterization of the CIb1 promoter was performed in vitro using the firefly luciferase gene as reporter.
Source:
activity in reporter assaysupports
CIb1 promoter fragments have transcription activity in the Bombyx mori ovary-derived BmN cell line.
The results showed that CIb1 promoter fragments have transcription activities in the B. mori ovary-derived BmN cell line.
Source:
minimal promoter activitysupports
The 82 bp CIb1 promoter fragment from -72 to +10 nt has basic transcription activity.
The 82 bp fragment (-72 to +10 nt) containing the eukaryotic core promoter elements revealed a basic transcription activity.
Source:
negative cis regulationsupports
A 132 bp fragment from -517 nt to -386 nt upstream of the transcription initiation site strongly suppresses CIb1 promoter transcription activity and likely contains strong negative cis-acting elements.
In vitro analysis indicated that the 132 bp fragment from -517 nt to -386 nt upstream of the transcription initiation site strongly suppressed the transcription activity of the CIb1 promoter, suggesting that the 132 bp fragment harbours strong negative cis-acting elements.
Source:
regulatory functionsupports
The Bm1 element positively regulates the CIb1 promoter.
The Bm1 element, upstream the transcription initiation site, showed a positive regulation function to the CIb1 promoter.
Source:
virus responsive promoter activitysupports
Bombyx mori nucleopolyhedrovirus infection increases CIb1 promoter activity.
Infection of Bombyx mori nucleopolyhedrovirus (BmNPV) increased the activity of the CIb1 promoter
Source:
Comparisons
Source-backed strengths
The promoter was experimentally evaluated in vitro with a firefly luciferase reporter in the Bombyx mori ovary-derived BmN cell line. Evidence supports both measurable transcriptional activity of CIb1 promoter fragments and localization of a basic active promoter region to -72 to +10 nt, while a 132 bp upstream fragment from -517 to -386 nt strongly suppresses activity.
Compared with caged NF-κB DNA decoy
CIb1 promoter and caged NF-κB DNA decoy address a similar problem space because they share recombination, transcription.
Shared frame: same top-level item type; shared target processes: recombination, transcription
Strengths here: looks easier to implement in practice.
Compared with high throughput screening
CIb1 promoter and high throughput screening address a similar problem space because they share recombination, transcription.
Shared frame: shared target processes: recombination, transcription
Compared with synthetic promoters
CIb1 promoter and synthetic promoters address a similar problem space because they share recombination, transcription.
Shared frame: shared target processes: recombination, transcription
Relative tradeoffs: appears more independently replicated; looks easier to implement in practice.
Ranked Citations
- 1.