Source 1review2023Signal Transduction and Targeted Therapy
Toolkit/optogenetic circuits
optogenetic circuits
Taxonomy: Mechanism Branch / Component. Workflows sit above the mechanism and technique branches rather than replacing them.
Summary
Optogenetic circuits in bacteria are combinations of photoreceptors and genetic circuit architectures that confer light-dependent regulation of gene expression. The cited review states that these systems can drive either upregulation or downregulation of expression with reversibility, stringency, and spatial-temporal precision.
Usefulness & Problems
Why this is useful
These systems are useful because they provide non-invasive optical control over bacterial gene expression with reversible and spatial-temporal regulation. The cited review highlights applications in microbial production processes, host-associated secretion of beneficial compounds in animals, and generation of structured biomaterials.
Source:
They enable unprecedented applications in three major areas. First, light-dependent expression underpins novel concepts and strategies for enhanced yields in microbial production processes. Second, light-responsive bacteria can be optogenetically stimulated while residing within the bodies of animals, thus prompting the secretion of compounds that grant health benefits to the animal host. Third, optogenetics allows the generation of precisely structured, novel biomaterials.
Source:
Prompted by light cues in the near-ultraviolet to near-infrared region of the electromagnetic spectrum, gene expression can be up- or downregulated stringently, reversibly, non-invasively, and with precision in space and time.
Problem solved
Optogenetic circuits help solve the problem of controlling bacterial gene expression dynamically and precisely using light rather than conventional chemical inputs. The supplied evidence specifically supports regulation of expression levels in a reversible and stringent manner, but does not detail individual circuit topologies or target genes.
Source:
They enable unprecedented applications in three major areas. First, light-dependent expression underpins novel concepts and strategies for enhanced yields in microbial production processes. Second, light-responsive bacteria can be optogenetically stimulated while residing within the bodies of animals, thus prompting the secretion of compounds that grant health benefits to the animal host. Third, optogenetics allows the generation of precisely structured, novel biomaterials.
Problem links
providing controllable regulation of engineered biological functions using light
LiteratureThey provide externally controllable regulation of engineered biological activity using light.
Source:
They provide externally controllable regulation of engineered biological activity using light.
Taxonomy & Function
Primary hierarchy
Mechanism Branch
Component: A low-level protein part used inside a larger architecture that realizes a mechanism.
Techniques
No technique tags yet.
Target processes
recombinationtranscriptiontranslationInput: Light
Implementation Constraints
cofactor dependency: cofactor requirement unknownencoding mode: genetically encodedimplementation constraint: context specific validationimplementation constraint: multi component delivery burdenimplementation constraint: payload burdenimplementation constraint: spectral hardware requirementoperating role: regulatorswitch architecture: multi component
Implementation involves combining photoreceptors with bacterial genetic circuit architectures to achieve light-responsive control of expression. The provided evidence does not specify cofactors, host strains, construct design rules, delivery methods, or illumination parameters.
The supplied evidence is review-level and does not provide performance metrics, specific photoreceptors, wavelength ranges, or direct head-to-head comparisons among systems. It also does not substantiate the listed target processes of transcription, translation, and recombination individually beyond the general statement of light-regulated gene expression.
Validation
Cell-freeBacteriaMammalianMouseHumanTherapeuticIndep. Replication
Supporting Sources
Source 2review2022Frontiers in Bioengineering and Biotechnology
Ranked Claims
The review discusses Tet-on/Tet-off systems and optogenetic circuits as controllable expression or control modalities in tissue-engineering and mammalian-system contexts.
Tet-on/Tet-off system ... explicitly discussed in the anchor review's tissue-engineering section as a controllable expression system. Optogenetic circuits ... explicitly discussed in the anchor review's tissue-engineering section and supported by its mammalian control-system discussion.
The review includes engineered-cell therapeutic themes involving CAR-T and synNotch-associated cell-circuit design.
CAR-T ... explicitly supported by the anchor review figures/text ... synNotch ... explicitly mentioned in the anchor review's CAR design figure/text.
This review covers synthetic biology applications in medical and pharmaceutical fields including microbial pharmaceutics production, engineered cells with synthetic DNA circuits, live or auto-assembled biomaterials, cell-free synthetic biology, and DNA engineering approaches.
Anchor review confirmed in PubMed; abstract explicitly states the major subtopics covered: microbial pharmaceutics production, engineered cells with synthetic DNA circuits, live/auto-assembled biomaterials, cell-free synthetic biology, and DNA engineering approaches.
The review highlights three major application areas for bacterial light-regulated gene expression: enhanced microbial production processes, host-associated secretion of beneficial compounds in animals, and generation of structured biomaterials.
They enable unprecedented applications in three major areas. First, light-dependent expression underpins novel concepts and strategies for enhanced yields in microbial production processes. Second, light-responsive bacteria can be optogenetically stimulated while residing within the bodies of animals, thus prompting the secretion of compounds that grant health benefits to the animal host. Third, optogenetics allows the generation of precisely structured, novel biomaterials.
The review highlights three major application areas for bacterial light-regulated gene expression: enhanced microbial production processes, host-associated secretion of beneficial compounds in animals, and generation of structured biomaterials.
They enable unprecedented applications in three major areas. First, light-dependent expression underpins novel concepts and strategies for enhanced yields in microbial production processes. Second, light-responsive bacteria can be optogenetically stimulated while residing within the bodies of animals, thus prompting the secretion of compounds that grant health benefits to the animal host. Third, optogenetics allows the generation of precisely structured, novel biomaterials.
The review highlights three major application areas for bacterial light-regulated gene expression: enhanced microbial production processes, host-associated secretion of beneficial compounds in animals, and generation of structured biomaterials.
They enable unprecedented applications in three major areas. First, light-dependent expression underpins novel concepts and strategies for enhanced yields in microbial production processes. Second, light-responsive bacteria can be optogenetically stimulated while residing within the bodies of animals, thus prompting the secretion of compounds that grant health benefits to the animal host. Third, optogenetics allows the generation of precisely structured, novel biomaterials.
The review highlights three major application areas for bacterial light-regulated gene expression: enhanced microbial production processes, host-associated secretion of beneficial compounds in animals, and generation of structured biomaterials.
They enable unprecedented applications in three major areas. First, light-dependent expression underpins novel concepts and strategies for enhanced yields in microbial production processes. Second, light-responsive bacteria can be optogenetically stimulated while residing within the bodies of animals, thus prompting the secretion of compounds that grant health benefits to the animal host. Third, optogenetics allows the generation of precisely structured, novel biomaterials.
The review highlights three major application areas for bacterial light-regulated gene expression: enhanced microbial production processes, host-associated secretion of beneficial compounds in animals, and generation of structured biomaterials.
They enable unprecedented applications in three major areas. First, light-dependent expression underpins novel concepts and strategies for enhanced yields in microbial production processes. Second, light-responsive bacteria can be optogenetically stimulated while residing within the bodies of animals, thus prompting the secretion of compounds that grant health benefits to the animal host. Third, optogenetics allows the generation of precisely structured, novel biomaterials.
The review highlights three major application areas for bacterial light-regulated gene expression: enhanced microbial production processes, host-associated secretion of beneficial compounds in animals, and generation of structured biomaterials.
They enable unprecedented applications in three major areas. First, light-dependent expression underpins novel concepts and strategies for enhanced yields in microbial production processes. Second, light-responsive bacteria can be optogenetically stimulated while residing within the bodies of animals, thus prompting the secretion of compounds that grant health benefits to the animal host. Third, optogenetics allows the generation of precisely structured, novel biomaterials.
The review highlights three major application areas for bacterial light-regulated gene expression: enhanced microbial production processes, host-associated secretion of beneficial compounds in animals, and generation of structured biomaterials.
They enable unprecedented applications in three major areas. First, light-dependent expression underpins novel concepts and strategies for enhanced yields in microbial production processes. Second, light-responsive bacteria can be optogenetically stimulated while residing within the bodies of animals, thus prompting the secretion of compounds that grant health benefits to the animal host. Third, optogenetics allows the generation of precisely structured, novel biomaterials.
In bacteria, optogenetic regulation enables light-dependent upregulation or downregulation of gene expression with stringency, reversibility, non-invasive control, and spatial-temporal precision.
Prompted by light cues in the near-ultraviolet to near-infrared region of the electromagnetic spectrum, gene expression can be up- or downregulated stringently, reversibly, non-invasively, and with precision in space and time.
In bacteria, optogenetic regulation enables light-dependent upregulation or downregulation of gene expression with stringency, reversibility, non-invasive control, and spatial-temporal precision.
Prompted by light cues in the near-ultraviolet to near-infrared region of the electromagnetic spectrum, gene expression can be up- or downregulated stringently, reversibly, non-invasively, and with precision in space and time.
In bacteria, optogenetic regulation enables light-dependent upregulation or downregulation of gene expression with stringency, reversibility, non-invasive control, and spatial-temporal precision.
Prompted by light cues in the near-ultraviolet to near-infrared region of the electromagnetic spectrum, gene expression can be up- or downregulated stringently, reversibly, non-invasively, and with precision in space and time.
In bacteria, optogenetic regulation enables light-dependent upregulation or downregulation of gene expression with stringency, reversibility, non-invasive control, and spatial-temporal precision.
Prompted by light cues in the near-ultraviolet to near-infrared region of the electromagnetic spectrum, gene expression can be up- or downregulated stringently, reversibly, non-invasively, and with precision in space and time.
In bacteria, optogenetic regulation enables light-dependent upregulation or downregulation of gene expression with stringency, reversibility, non-invasive control, and spatial-temporal precision.
Prompted by light cues in the near-ultraviolet to near-infrared region of the electromagnetic spectrum, gene expression can be up- or downregulated stringently, reversibly, non-invasively, and with precision in space and time.
In bacteria, optogenetic regulation enables light-dependent upregulation or downregulation of gene expression with stringency, reversibility, non-invasive control, and spatial-temporal precision.
Prompted by light cues in the near-ultraviolet to near-infrared region of the electromagnetic spectrum, gene expression can be up- or downregulated stringently, reversibly, non-invasively, and with precision in space and time.
In bacteria, optogenetic regulation enables light-dependent upregulation or downregulation of gene expression with stringency, reversibility, non-invasive control, and spatial-temporal precision.
Prompted by light cues in the near-ultraviolet to near-infrared region of the electromagnetic spectrum, gene expression can be up- or downregulated stringently, reversibly, non-invasively, and with precision in space and time.
The review characterizes bacterial optogenetic gene-expression control as a mature and expanding toolkit.
These applications jointly testify to the maturity of the optogenetic approach and serve as blueprints bound to inspire and template innovative use cases of light-regulated gene expression in bacteria. Researchers pursuing these lines can choose from an ever-growing, versatile, and efficient toolkit of optogenetic circuits.
The review characterizes bacterial optogenetic gene-expression control as a mature and expanding toolkit.
These applications jointly testify to the maturity of the optogenetic approach and serve as blueprints bound to inspire and template innovative use cases of light-regulated gene expression in bacteria. Researchers pursuing these lines can choose from an ever-growing, versatile, and efficient toolkit of optogenetic circuits.
The review characterizes bacterial optogenetic gene-expression control as a mature and expanding toolkit.
These applications jointly testify to the maturity of the optogenetic approach and serve as blueprints bound to inspire and template innovative use cases of light-regulated gene expression in bacteria. Researchers pursuing these lines can choose from an ever-growing, versatile, and efficient toolkit of optogenetic circuits.
The review characterizes bacterial optogenetic gene-expression control as a mature and expanding toolkit.
These applications jointly testify to the maturity of the optogenetic approach and serve as blueprints bound to inspire and template innovative use cases of light-regulated gene expression in bacteria. Researchers pursuing these lines can choose from an ever-growing, versatile, and efficient toolkit of optogenetic circuits.
The review characterizes bacterial optogenetic gene-expression control as a mature and expanding toolkit.
These applications jointly testify to the maturity of the optogenetic approach and serve as blueprints bound to inspire and template innovative use cases of light-regulated gene expression in bacteria. Researchers pursuing these lines can choose from an ever-growing, versatile, and efficient toolkit of optogenetic circuits.
The review characterizes bacterial optogenetic gene-expression control as a mature and expanding toolkit.
These applications jointly testify to the maturity of the optogenetic approach and serve as blueprints bound to inspire and template innovative use cases of light-regulated gene expression in bacteria. Researchers pursuing these lines can choose from an ever-growing, versatile, and efficient toolkit of optogenetic circuits.
The review characterizes bacterial optogenetic gene-expression control as a mature and expanding toolkit.
These applications jointly testify to the maturity of the optogenetic approach and serve as blueprints bound to inspire and template innovative use cases of light-regulated gene expression in bacteria. Researchers pursuing these lines can choose from an ever-growing, versatile, and efficient toolkit of optogenetic circuits.
Transcription initiation and elongation are described as the most important intervention points for bacterial optogenetic control of gene expression, while translation and downstream events have also been made light-dependent.
While transcription initiation and elongation remain most important for optogenetic intervention, other processes e.g., translation and downstream events, were also rendered light-dependent.
Transcription initiation and elongation are described as the most important intervention points for bacterial optogenetic control of gene expression, while translation and downstream events have also been made light-dependent.
While transcription initiation and elongation remain most important for optogenetic intervention, other processes e.g., translation and downstream events, were also rendered light-dependent.
Transcription initiation and elongation are described as the most important intervention points for bacterial optogenetic control of gene expression, while translation and downstream events have also been made light-dependent.
While transcription initiation and elongation remain most important for optogenetic intervention, other processes e.g., translation and downstream events, were also rendered light-dependent.
Transcription initiation and elongation are described as the most important intervention points for bacterial optogenetic control of gene expression, while translation and downstream events have also been made light-dependent.
While transcription initiation and elongation remain most important for optogenetic intervention, other processes e.g., translation and downstream events, were also rendered light-dependent.
Transcription initiation and elongation are described as the most important intervention points for bacterial optogenetic control of gene expression, while translation and downstream events have also been made light-dependent.
While transcription initiation and elongation remain most important for optogenetic intervention, other processes e.g., translation and downstream events, were also rendered light-dependent.
Transcription initiation and elongation are described as the most important intervention points for bacterial optogenetic control of gene expression, while translation and downstream events have also been made light-dependent.
While transcription initiation and elongation remain most important for optogenetic intervention, other processes e.g., translation and downstream events, were also rendered light-dependent.
Transcription initiation and elongation are described as the most important intervention points for bacterial optogenetic control of gene expression, while translation and downstream events have also been made light-dependent.
While transcription initiation and elongation remain most important for optogenetic intervention, other processes e.g., translation and downstream events, were also rendered light-dependent.
The review states that some optogenetic circuits for bacterial gene expression have progressed beyond proof-of-principle and demonstrated practical utility.
Certain optogenetic circuits moved beyond the proof-of-principle and stood the test of practice.
The review states that some optogenetic circuits for bacterial gene expression have progressed beyond proof-of-principle and demonstrated practical utility.
Certain optogenetic circuits moved beyond the proof-of-principle and stood the test of practice.
The review states that some optogenetic circuits for bacterial gene expression have progressed beyond proof-of-principle and demonstrated practical utility.
Certain optogenetic circuits moved beyond the proof-of-principle and stood the test of practice.
The review states that some optogenetic circuits for bacterial gene expression have progressed beyond proof-of-principle and demonstrated practical utility.
Certain optogenetic circuits moved beyond the proof-of-principle and stood the test of practice.
The review states that some optogenetic circuits for bacterial gene expression have progressed beyond proof-of-principle and demonstrated practical utility.
Certain optogenetic circuits moved beyond the proof-of-principle and stood the test of practice.
The review states that some optogenetic circuits for bacterial gene expression have progressed beyond proof-of-principle and demonstrated practical utility.
Certain optogenetic circuits moved beyond the proof-of-principle and stood the test of practice.
The review states that some optogenetic circuits for bacterial gene expression have progressed beyond proof-of-principle and demonstrated practical utility.
Certain optogenetic circuits moved beyond the proof-of-principle and stood the test of practice.
The review states that optogenetic control of bacterial gene expression predominantly uses three fundamental strategy classes: light-sensitive two-component systems, oligomerization reactions, and second-messenger signaling.
The optogenetic control of bacterial expression predominantly employs but three fundamental strategies: light-sensitive two-component systems, oligomerization reactions, and second-messenger signaling.
The review states that optogenetic control of bacterial gene expression predominantly uses three fundamental strategy classes: light-sensitive two-component systems, oligomerization reactions, and second-messenger signaling.
The optogenetic control of bacterial expression predominantly employs but three fundamental strategies: light-sensitive two-component systems, oligomerization reactions, and second-messenger signaling.
The review states that optogenetic control of bacterial gene expression predominantly uses three fundamental strategy classes: light-sensitive two-component systems, oligomerization reactions, and second-messenger signaling.
The optogenetic control of bacterial expression predominantly employs but three fundamental strategies: light-sensitive two-component systems, oligomerization reactions, and second-messenger signaling.
The review states that optogenetic control of bacterial gene expression predominantly uses three fundamental strategy classes: light-sensitive two-component systems, oligomerization reactions, and second-messenger signaling.
The optogenetic control of bacterial expression predominantly employs but three fundamental strategies: light-sensitive two-component systems, oligomerization reactions, and second-messenger signaling.
The review states that optogenetic control of bacterial gene expression predominantly uses three fundamental strategy classes: light-sensitive two-component systems, oligomerization reactions, and second-messenger signaling.
The optogenetic control of bacterial expression predominantly employs but three fundamental strategies: light-sensitive two-component systems, oligomerization reactions, and second-messenger signaling.
The review states that optogenetic control of bacterial gene expression predominantly uses three fundamental strategy classes: light-sensitive two-component systems, oligomerization reactions, and second-messenger signaling.
The optogenetic control of bacterial expression predominantly employs but three fundamental strategies: light-sensitive two-component systems, oligomerization reactions, and second-messenger signaling.
The review states that optogenetic control of bacterial gene expression predominantly uses three fundamental strategy classes: light-sensitive two-component systems, oligomerization reactions, and second-messenger signaling.
The optogenetic control of bacterial expression predominantly employs but three fundamental strategies: light-sensitive two-component systems, oligomerization reactions, and second-messenger signaling.
Approval Evidence
2 sources6 linked approval claimsfirst-pass slug optogenetic-circuits
The web research summary states that optogenetic circuits are explicitly discussed in the anchor review's tissue-engineering section and supported by its mammalian control-system discussion.
Source:
Numerous photoreceptors and genetic circuits emerged over the past two decades and now enable the light-dependent i.e., optogenetic, regulation of gene expression in bacteria.
Source:
application themesupports
The review discusses Tet-on/Tet-off systems and optogenetic circuits as controllable expression or control modalities in tissue-engineering and mammalian-system contexts.
Tet-on/Tet-off system ... explicitly discussed in the anchor review's tissue-engineering section as a controllable expression system. Optogenetic circuits ... explicitly discussed in the anchor review's tissue-engineering section and supported by its mammalian control-system discussion.
Source:
application summarysupports
The review highlights three major application areas for bacterial light-regulated gene expression: enhanced microbial production processes, host-associated secretion of beneficial compounds in animals, and generation of structured biomaterials.
They enable unprecedented applications in three major areas. First, light-dependent expression underpins novel concepts and strategies for enhanced yields in microbial production processes. Second, light-responsive bacteria can be optogenetically stimulated while residing within the bodies of animals, thus prompting the secretion of compounds that grant health benefits to the animal host. Third, optogenetics allows the generation of precisely structured, novel biomaterials.
Source:
capability summarysupports
In bacteria, optogenetic regulation enables light-dependent upregulation or downregulation of gene expression with stringency, reversibility, non-invasive control, and spatial-temporal precision.
Prompted by light cues in the near-ultraviolet to near-infrared region of the electromagnetic spectrum, gene expression can be up- or downregulated stringently, reversibly, non-invasively, and with precision in space and time.
Source:
field assessmentsupports
The review characterizes bacterial optogenetic gene-expression control as a mature and expanding toolkit.
These applications jointly testify to the maturity of the optogenetic approach and serve as blueprints bound to inspire and template innovative use cases of light-regulated gene expression in bacteria. Researchers pursuing these lines can choose from an ever-growing, versatile, and efficient toolkit of optogenetic circuits.
Source:
intervention scopesupports
Transcription initiation and elongation are described as the most important intervention points for bacterial optogenetic control of gene expression, while translation and downstream events have also been made light-dependent.
While transcription initiation and elongation remain most important for optogenetic intervention, other processes e.g., translation and downstream events, were also rendered light-dependent.
Source:
maturity assessmentsupports
The review states that some optogenetic circuits for bacterial gene expression have progressed beyond proof-of-principle and demonstrated practical utility.
Certain optogenetic circuits moved beyond the proof-of-principle and stood the test of practice.
Source:
Comparisons
Source-stated alternatives
The review also discusses Tet-on/Tet-off systems as another controllable expression approach.
Source:
The review also discusses Tet-on/Tet-off systems as another controllable expression approach.
Source-backed strengths
According to the cited review, bacterial optogenetic regulation supports both activation and repression of gene expression. Reported advantages include stringency, reversibility, non-invasive control, and spatial-temporal precision, and the review notes that numerous photoreceptors and genetic circuits have emerged over the past two decades.
Compared with 4pLRE-cPAOX1
optogenetic circuits and 4pLRE-cPAOX1 address a similar problem space because they share transcription, translation.
Shared frame: shared target processes: transcription, translation; shared mechanisms: translation_control; same primary input modality: light
Compared with blue-light-activated DNA template ON switch
optogenetic circuits and blue-light-activated DNA template ON switch address a similar problem space because they share transcription, translation.
Shared frame: shared target processes: transcription, translation; shared mechanisms: translation_control; same primary input modality: light
Compared with triple brake design
optogenetic circuits and triple brake design address a similar problem space because they share transcription, translation.
Shared frame: shared target processes: transcription, translation; shared mechanisms: translation_control; same primary input modality: light
Ranked Citations
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