论文标题
通过分裂池介导核糖体竞争
Mediating Ribosomal Competition by Splitting Pools
论文作者
论文摘要
合成生物学构建体通常依赖于将“电路”基因引入宿主细胞，以表达新型蛋白质，从而赋予宿主的所需行为。这些新基因在细胞中“消耗”现有资源的表达，例如ATP，RNA聚合酶，氨基酸和核糖体。 mRNA链之间的核糖体竞争可以通过称为核糖体流模型（RFM）的非线性odes系统来描述。可以通过使用正交核糖体分裂核糖体池来改善宿主和电路基因之间的资源竞争，其中电路基因仅通过突变的核糖体翻译。在这项工作中，RFM系统扩展到包括正交核糖体竞争。通过使用可靠的Lyapunov函数，这种正交核糖体流模型（ORFM）被证明是稳定的。通过调整核糖体物种的分配来最大化加权蛋白翻译速率的优化问题。
Synthetic biology constructs often rely upon the introduction of "circuit" genes into host cells, in order to express novel proteins and thus endow the host with a desired behavior. The expression of these new genes "consumes" existing resources in the cell, such as ATP, RNA polymerase, amino acids, and ribosomes. Ribosomal competition among strands of mRNA may be described by a system of nonlinear ODEs called the Ribosomal Flow Model (RFM). The competition for resources between host and circuit genes can be ameliorated by splitting the ribosome pool by use of orthogonal ribosomes, where the circuit genes are exclusively translated by mutated ribosomes. In this work, the RFM system is extended to include orthogonal ribosome competition. This Orthogonal Ribosomal Flow Model (ORFM) is proven to be stable through the use of Robust Lyapunov Functions. The optimization problem of maximizing the weighted protein translation rate by adjusting allocation of ribosomal species is formulated and implemented.
