Institute of Industrial Control Systems and Computing (AI2), Universitat Politècnica de València (UPV), Camí de Vera s/n, 46022 València, Spain.
Institute for Integrative Systems Biology I2SysBio, Universitat de València-CSIC, Escardino Street 9, Paterna, 46980 València, Spain.
Nucleic Acids Res. 2024 Jul 5;52(W1):W476-W480. doi: 10.1093/nar/gkae287.
Tackling climate change challenges requires replacing current chemical industrial processes through the rational and sustainable use of biodiversity resources. To that end, production routes to key bio-based chemicals for the bioeconomy have been identified. However, their production still remains inefficient in terms of titers, rates, and yields; because of the hurdles found when scaling up. In order to make production more efficient, strategies like automated screening and dynamic pathway regulation through biosensors have been applied as part of strain optimization. However, to date, no systematic way exists to design a genetic circuit that is responsive to concentrations of a given target compound. Here, the DetSpace web server provides a set of integrated tools that allows a user to select and design a biological circuit that performs the sensing of a molecule of interest by its enzymatic conversion to a detectable molecule through a transcription factor. In that way, the DetSpace web server allows synthetic biologists to easily design biosensing routes for the dynamic regulation of metabolic pathways in applications ranging from genetic circuits design, screening, production, and bioremediation of bio-based chemicals, to diagnostics and drug delivery.
应对气候变化的挑战需要通过合理和可持续地利用生物多样性资源来替代当前的化学工业工艺。为此，已经确定了用于生物经济的关键生物基化学品的生产途径。然而，由于在扩大规模时遇到的障碍，它们的生产在产量、速率和产率方面仍然效率低下。为了提高生产效率，已经应用了自动化筛选和通过生物传感器进行动态途径调节等策略，作为菌株优化的一部分。然而，迄今为止，还没有系统的方法来设计对给定目标化合物浓度有响应的遗传电路。在这里，DetSpace 网络服务器提供了一组集成的工具，允许用户选择和设计一个生物电路，通过转录因子将感兴趣的分子的酶促转化为可检测的分子来进行分子的感应。这样，DetSpace 网络服务器允许合成生物学家轻松设计用于动态调节生物基化学品的代谢途径的生物感应途径，应用范围从遗传电路设计、筛选、生产和生物修复，到诊断和药物输送。
