Mapping and modeling host-pathogen interactions in TB latency and reactivation

描述（由申请人提供）：除非我们认识到对感染结果至关重要的宿主-病原体相互作用并采取行动，否则结核病无法成功控制。本研究的中心论点是结核分枝杆菌感染的潜伏期和再激活取决于宿主和病原体信号网络、代谢途径和遗传程序之间的相互作用。本研究的目的是揭示并从机制上理解结核杆菌和肺巨噬细胞之间的细胞间网络如何在遗传程序和细胞代谢水平上控制潜伏期的转变。我们建议结合i)统计途径分析和ii)自下而上和自上而下的建模策略，利用公开可用的数据，参与实验室正在进行的研究提供的数据，以及本项目中从人原代肺巨噬细胞离体感染结核分枝杆菌中产生的数据。我们有三个具体目标。在Aim 1中，将通过统计通路分析分析体外感染数据，以将巨噬细胞反应与供体感染状态（未感染、潜伏感染、活动性疾病）和感染杆菌的相对毒力（野生型与减毒型）联系起来。这项工作将揭示宿主细胞中与潜伏期和再激活相关的过程，产生关于对结果至关重要的网络和节点的假设，或指导宿主和病原体之间遗传交叉调控的机制模型的发展。在Aim 2中，我们提出在结核杆菌中识别候选开关网络，并构建机制数学模型来确定休眠开关逻辑。特别是，我们将测试控制向休眠过渡的网络是否来自由复杂逻辑门耦合的多个相互关联的宿主诱导的应力响应开关的叠加。这项工作将导致生长停滞和休眠特异性基因表达特征的条件和机制的预测。在Aim 3中，数学建模和实验测试将针对脂质代谢水平上介导巨噬细胞-病原体相互作用的关键分子过程。具体来说，我们将试图确定巨噬细胞和结核杆菌中脂质代谢的变化是否形成细胞间反馈回路。通过结合实验和理论方法开发的模型将允许进行计算机模拟。这些模拟将指导额外的实验扰动到离体感染协议，这将完善模型。了解结核杆菌和携带它们的巨噬细胞之间决定结果的相互作用将对结核病疫苗的研究、诊断和治疗产生深远的影响。

DESCRIPTION (provided by applicant): Tuberculosis cannot be successfully controlled unless we recognize - and act upon -- the host-pathogen interactions critical to infection outcome. The central thesis of this proposal is that the outcome of M. tuberculosis infection with respect to latency and reactivation depends on the reciprocal interplay between host and pathogen signaling networks, metabolic pathways, and genetic programs. The goal of the proposed research is to uncover and mechanistically understand how intercellular networks operating between tubercle bacillus and lung macrophage govern the transitions to/from latency at the level of genetic programs and cellular metabolism. We propose to combine i) statistical pathway analyses and ii) bottom-up and top-down modeling strategies utilizing publicly available data, data contributed by on-going research in participating laboratories, and data generated in the present program from ex vivo infection of human primary lung macrophages with M. tuberculosis. We have three specific aims. In Aim 1, ex vivo infection data will be analyzed by statistical pathway analysis to correlate macrophage response with donor infection state (uninfected, latently infected, active disease) and relative virulence of infecting bacilli (wild type vs. attenuated). This work should reveal processes associated with latency and reactivation in host cells, generate hypotheses concerning networks and nodes critical to either outcome, or guide development of a mechanistic model for genetic cross-regulation between host and pathogen. In Aim 2, we propose to identify candidate switch networks in the tubercle bacillus and construct mechanistic mathematical models to determine dormancy switch logic. In particular, we will test whether the network controlling the transition to dormancy results from the superposition of multiple interlinked host-induced stress-response switches coupled by complex logical gates. This work should result in predictions for conditions and mechanisms for growth arrest and dormancy- specific gene expression signatures. In Aim 3, mathematical modeling and experimental tests will target key molecular processes mediating reciprocal macrophage-pathogen interactions at the level of lipid metabolism. Specifically, we will seek to determine whether changes in lipid metabolism occurring in the macrophage and in the tubercle bacillus form an intercellular feedback loop. Models developed by combining experimental and theoretical approaches will allow in silico simulations. These simulations will direct additional experimental perturbations to the ex vivo infection protocol that will refine the models. Understanding outcome-determining interactions between tubercle bacilli and the macrophages that carry them will have far-reaching effects on tuberculosis vaccine research, diagnostics, and therapeutics. PUBLIC HEALTH RELEVANCE: More than two decades of intense effort in tuberculosis research have shown that tuberculosis cannot be successfully controlled unless we recognize - and act upon -- the host-pathogen interactions that are critical to infection outcome. We hypothesize that any outcome of infection with tubercle bacilli can be viewed as the result of reciprocal, likely iterative, interaction dynamics in which host cells and bacteria change each other at cellular and molecular levels. Our program proposes to uncover and mechanistically understand the networks controlling these dynamics by combining experimental, computational and modeling approaches. Our goal is to subvert these networks to the host advantage with new vaccines and drugs targeting critical network nodes.