An Automated Design Framework for Multicellular Recombinase Logic.,ACS Synthetic Biology

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An Automated Design Framework for Multicellular Recombinase Logic.
ACS Synthetic Biology ( IF 3.7 ) Pub Date : 2018-05-04 , DOI: 10.1021/acssynbio.8b00016
Sarah Guiziou ₁ , Federico Ulliana ₂ , Violaine Moreau ₁ , Michel Leclere ₂ , Jerome Bonnet ₁

Affiliation

Tools to systematically reprogram cellular behavior are crucial to address pressing challenges in manufacturing, environment, or healthcare. Recombinases can very efficiently encode Boolean and history-dependent logic in many species, yet current designs are performed on a case-by-case basis, limiting their scalability and requiring time-consuming optimization. Here we present an automated workflow for designing recombinase logic devices executing Boolean functions. Our theoretical framework uses a reduced library of computational devices distributed into different cellular subpopulations, which are then composed in various manners to implement all desired logic functions at the multicellular level. Our design platform called CALIN (Composable Asynchronous Logic using Integrase Networks) is broadly accessible via a web server, taking truth tables as inputs and providing corresponding DNA designs and sequences as outputs (available at http://synbio.cbs.cnrs.fr/calin ). We anticipate that this automated design workflow will streamline the implementation of Boolean functions in many organisms and for various applications.

中文翻译：

用于多细胞重组酶逻辑的自动化设计框架。

系统地对细胞行为进行重新编程的工具对于解决制造，环境或医疗保健方面的紧迫挑战至关重要。重组酶可以非常有效地编码许多物种中的布尔逻辑和历史相关逻辑，但是当前的设计是根据具体情况进行的，从而限制了它们的可扩展性并需要耗时的优化。在这里，我们提出了一个自动化的工作流程，用于设计执行布尔函数的重组逻辑设备。我们的理论框架使用简化的计算设备库，这些计算设备分布在不同的细胞亚群中，然后以各种方式组成，以在多细胞水平上实现所有所需的逻辑功能。我们的设计平台称为CALIN（使用Integrase Networks的可组合异步逻辑）可通过Web服务器进行广泛访问，以真值表作为输入，并提供相应的DNA设计和序列作为输出（可从http://synbio.cbs.cnrs.fr/calin获取）。我们预计，这种自动化设计工作流程将简化在许多生物中以及针对各种应用程序的布尔函数的实现。

更新日期：2018-04-11

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