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arXiv 2003.12954q-bio.PE
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微生物组的广义洛特卡-沃尔泰拉模型中的结果导航和控制

Navigation and control of outcomes in a generalized Lotka-Volterra model of the microbiome

Eric W. Jones, Parker Shankin-Clarke, Jean M. Carlson

摘要:

广义Lotka-Volterra(gLV)方程将微生物组建模为相互作用的生态物种的集合。在这里,我们使用一个特定的实验得出的gLV模型的C。艰难梭菌感染(CDI)作为病例研究,以生成适用于通用gLV模型的方法。我们研究了如何通过应用直接控制协议,通过瞬时添加或减去微生物物种来改变系统的状态,从而在多个稳态之间转换gLV系统。然后,点吸引子的吸引盆的几何形状被压缩成一个吸引子网络,它将一个多稳定的高维景观分解成一个由多个子系统组成的网络。该吸引子网络用于识别将系统从一个盆地驱动到另一个盆地的有效(总干预体积最小化)协议。在某些情况下,最有效的控制协议是迂回的,并将采取系统通过中间稳定状态与顺序干预。在临床上,微生物组的有效控制对于细菌疗法具有相关的应用,细菌疗法寻求通过直接改变肠道微生物组的组成来治疗微生物组相关疾病。

英文摘要:

The generalized Lotka-Volterra (gLV) equations model the microbiome as a collection of interacting ecological species. Here we use a particular experimentally-derived gLV model of C. difficile infection (CDI) as a case study to generate methods that are applicable to generic gLV models. We examine how to transition gLV systems between multiple steady states through the application of direct control protocols, which alter the state of the system via the instantaneous addition or subtraction of microbial species. Then, the geometry of the basins of attraction of point attractors is compressed into an attractor network, which decomposes a multistable high-dimensional landscape into web of bistable subsystems. This attractor network is used to identify efficient (total intervention volume minimizing) protocols that drive the system from one basin to another. In some cases, the most efficient control protocol is circuitous and will take the system through intermediate steady states with sequential interventions. Clinically, the efficient control of the microbiome has pertinent applications for bacteriotherapies, which seek to remedy microbiome-affiliated diseases by directly altering the composition of the gut microbiome.

机构、总结、中文摘要均由AI分析而来,可能存在错误,请以论文正文为准。

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