MGDrivE 3: A decoupled vector-human framework for epidemiological simulation of mosquito genetic control tools and their surveillance.
MGDrivE 3: A decoupled vector-human framework for epidemiological simulation of mosquito genetic control tools and their surveillance.
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MGDriverE 3：用于蚊子遗传控制工具及其监测的流行病学模拟的解耦载体-人类框架。
DOI：
10.1101/2023.09.09.556958
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发表时间：
2023
期刊：
影响因子：
--
通讯作者：
Marshall,JohnM
中科院分区：
文献类型：
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作者：
Mondal,Agastya;C,HéctorMSánchez;Marshall,JohnM
新型蚊子遗传控制工具，例如基于 CRISPR 的基因驱动器，在减轻全球媒介传播疾病负担方面具有巨大前景。随着这些技术在研发过程中的不断进步，越来越需要包含越来越多的昆虫学和流行病学细节的建模框架，以解决有关物流和生物安全的问题。流行病学预测与目标产品概况的开发以及现场试验和干预措施的设计变得越来越相关，而昆虫学监测对于监管和生物安全也变得越来越重要。我们推出了 MGDrivE 3（Mosquito Gene Drive Explorer 3），它是先前开发的框架 MGDrivE 2 的新版本，用于研究蚊子遗传控制系统的空间种群动态及其流行病学意义。新框架包含三个主要发展：i) 解耦采样算法，允许 MGDrivE 框架的向量部分与更详细的流行病学框架配对，ii) 伦敦帝国理工学院疟疾传播模型的版本，其中包含年龄结构、各种形式的免疫以及人类和向量干预，以及 iii) 一个监视模块，用于在整个模拟过程中跟踪陷阱捕获的蚊子。示例 MGDrivE 3 模拟展示了该框架在与双疾病难治性基因相关的基于 CRISPR 的归巢基因驱动中的应用，以及它们中断局部疟疾传播的潜力。还提出了模拟，展示了通过捕蚊器网络对此类系统的监视。 MGDrivE 3 作为 CRAN 上的开源 R 包免费提供（https://cran.r-project.org/package=MGDrivE2）（版本 2.1.0），并提供了大量示例和插图。我们希望该软件能够帮助了解人类健康影响和蚊子基因控制工具的生物安全性，并根据基因控制社区的反馈继续迭代。
Novel mosquito genetic control tools, such as CRISPR-based gene drives, hold great promise in reducing the global burden of vector-borne diseases. As these technologies advance through the research and development pipeline, there is a growing need for modeling frameworks incorporating increasing levels of entomological and epidemiological detail in order to address questions regarding logistics and biosafety. Epidemiological predictions are becoming increasingly relevant to the development of target product profiles and the design of field trials and interventions, while entomological surveillance is becoming increasingly important to regulation and biosafety. We present MGDrivE 3 (Mosquito Gene Drive Explorer 3), a new version of a previously-developed framework, MGDrivE 2, that investigates the spatial population dynamics of mosquito genetic control systems and their epidemiological implications. The new framework incorporates three major developments: i) a decoupled sampling algorithm allowing the vector portion of the MGDrivE framework to be paired with a more detailed epidemiological framework, ii) a version of the Imperial College London malaria transmission model, which incorporates age structure, various forms of immunity, and human and vector interventions, and iii) a surveillance module that tracks mosquitoes captured by traps throughout the simulation. Example MGDrivE 3 simulations are presented demonstrating the application of the framework to a CRISPR-based homing gene drive linked to dual disease-refractory genes and their potential to interrupt local malaria transmission. Simulations are also presented demonstrating surveillance of such a system by a network of mosquito traps. MGDrivE 3 is freely available as an open-source R package on CRAN (https://cran.r-project.org/package=MGDrivE2) (version 2.1.0), and extensive examples and vignettes are provided. We intend the software to aid in understanding of human health impacts and biosafety of mosquito genetic control tools, and continue to iterate per feedback from the genetic control community.