Department of Bioengineering and Chemical Engineering, University of Engineering and Technology (UTEC), Barranco, Lima, Peru.
School of Informatics and Telecommunications, Faculty of Engineering and Sciences, Universidad Diego Portales, Santiago, Chile.
J Comput Biol. 2023 Dec;30(12):1315-1321. doi: 10.1089/cmb.2023.0008. Epub 2023 Nov 20.
Genetic component assembly is key in the simulation and implementation of genetic circuits. Automating this process, thus accelerating prototyping, is a necessity. We present pyBrick-DNA, a software written in Python, that assembles components for the construction of genetic circuits. pyBrick-DNA (colab.pyBrick.com) is a user-friendly environment where scientists can select genetic sequences or input custom sequences to build genetic assemblies. All components are modularly fused to generate a ready-to-go single DNA fragment. It includes Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR) and plant gene-editing components. Hence, pyBrick-DNA can generate a functional CRISPR construct composed of a single-guided RNA integrated with Cas9, promoters, and terminator elements. The outcome is a DNA sequence, along with a graphical representation, composed of user-selected genetic parts, ready to be synthesized and cloned in vivo. Moreover, the sequence can be exported as a GenBank file allowing its use with other synthetic biology tools.
遗传元件组装是模拟和实现遗传电路的关键。自动化这个过程，从而加速原型制作，是必要的。我们介绍了 pyBrick-DNA，这是一个用 Python 编写的软件，用于组装构建遗传电路的元件。pyBrick-DNA（colab.pyBrick.com）是一个用户友好的环境，科学家可以在这里选择遗传序列或输入自定义序列来构建遗传组装。所有组件都被模块化融合，以生成一个随时可用的单个 DNA 片段。它包括簇状规律间隔短回文重复序列 (CRISPR) 和植物基因编辑组件。因此，pyBrick-DNA 可以生成由单个向导 RNA 与 Cas9、启动子和终止子元件集成的功能性 CRISPR 构建体。结果是一个 DNA 序列，以及一个由用户选择的遗传部件组成的图形表示，准备在体内进行合成和克隆。此外，该序列可以导出为 GenBank 文件，允许其与其他合成生物学工具一起使用。
