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Recombinase logic device

Recombinase logic device

Recombinase logic devices are a type of logic gate engineered in living cells. Recombinase logic devices make use of recombinase enzymes which invert or excise DNA at specific DNA sequences. The devices are developed in the field of synthetic biology to program cellular or organismal behavior.

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Jude Gomila
Jude Gomila edited on 28 Apr 2019 2:45 am
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Jude Gomila
Jude Gomila approved a suggestion from Golden's AI on 28 Apr 2019 2:45 am
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The engineering of logic gateslogic gates in living cells is inspired by electronic designs. Recombinase logic gates are modular, compact, function in many species and can hold memory. The recombination reaction which inverts or excises DNA is irreversible and have applications in memory associated systems that involve end-point measurements such as biosensing and diagnostics. Memory of logic states are written in the DNA and can be retrieved by PCR and DNA sequencing even if the cells die. Recombinase logic gates are built in different arrangements of recombination sites and regulatory elements.

Jude Gomila
Jude Gomila approved a suggestion from Golden's AI on 28 Apr 2019 2:45 am
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In 2018 a research group by Jerome Bonnet at University of Montpellier, FranceFrance, presented a framework for the systematic design of logic gates in an autonomous multicellular consortium based on site-specific recombinases. The group used a Distributed Muliticellular Computation (DMC) approach. The type of recombinase used was serine integrase which catalyze site-specific recombination which can result in excision or inversion depending on whether the attachment sites are oriented in parallel or antiparallel. The researchers have made their framework accessible on the web platform Composable Asynchronous Logic using Integrase Networks (CALIN) where truth tables can be used as inputs for retrieving DNA designs and sequence outputs.

Edits on 25 Apr 2019
Meredith Hanel"Thumbnail image taken from Hierarchical composition of reliable recombinase logic devices, Nature Communications, volume 10, Article number: 456 (2019), Figure 1"
Meredith Hanel edited on 25 Apr 2019 3:41 pm
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Recombinase logic device

Recombinase logic devices are a type of logic gate engineered in living cells. Recombinase logic devices make use of recombinase enzymes which invert or excise DNA at specific DNA sequences. The devices are developed in the field of synthetic biology to program cellular or organismal behavior.

Meredith Hanel
Meredith Hanel edited on 25 Apr 2019 3:10 pm
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Recombinase logic device

Recombinase logic devices are a type of logic gate engineered in living cells. Recombinase logic devices make use of recombinase enzymes which invert or excise DNA at specific DNA sequences. The devices are developed in the field of synthetic biology to program cellular or organismal behavior.

Article

The engineering of logic gates in living cells is inspired by electronic designs. Recombinase logic gates are modular, compact, function in many species and can hold memory. The recombination reaction which inverts or excises DNA is irreversible and have applications in memory associated systems that involve end-point measurements such as biosensing and diagnostics. Memory of logic states are written in the DNA and can be retrieved by PCR and DNA sequencing even if the cells die. Recombinase logic gates are built in different arrangements of recombination sites and regulatory elements.

In 2018 a research group by Jerome Bonnet at University of Montpellier, France, presented a framework for the systematic design of logic gates in an autonomous multicellular consortium based on site-specific recombinases. The group used a Distributed Muliticellular Computation (DMC) approach. The type of recombinase used was serine integrase which catalyze site-specific recombination which can result in excision or inversion depending on whether the attachment sites are oriented in parallel or antiparallel. The researchers have made their framework accessible on the web platform Composable Asynchronous Logic using Integrase Networks (CALIN) where truth tables can be used as inputs for retrieving DNA designs and sequence outputs.

Bonnet’s group designed switches based on integrase-mediated excision. The IDENTITY element (ID-element) has a recombination site flanked transcriptional terminator placed between the promoter and output gene, so that when excised, the gene is expressed. Their NOT-element is composed of a promoter flanked by recombination sites that drives the output gene so that in the presence of signal, the gene is not expressed. Their system is arranged in a hierarchial composition. Cell-cell communication channels are not needed, nor do the cells need to be spatially separated. The autonomous multicellular consortia operates without an external physical device. The researchers noted that cultivating a high number of strains together could pose some challenges.

In 2019 Bonnet’s group demonstrated the application of their framework in the building of a recombinase logic device family that supports up to 4-input Boolean logic in a multicellular system.

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Meredith Hanel"Initial topic creation"
Meredith Hanel created this topic on 25 Apr 2019 2:53 pm
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 Recombinase logic device

Recombinase logic devices are a type of logic gate engineered in living cells. Recombinase logic devices make use of recombinase enzymes which invert or excise DNA at specific DNA sequences. The devices are developed in the field of synthetic biology to program cellular or organismal behavior.

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