PIPP Phase I: Center for Emerging Pathogen Prediction and Integration

PIPP 第一阶段：新兴病原体预测和整合中心

• 批准号: 2155222
• 负责人: Joseph Cook
• 金额: $ 99.96万
• 依托单位: University of New Mexico
• 依托单位国家: 美国
• 项目类别: Standard Grant
• 财政年份: 2022
• 资助国家: 美国
• 起止时间: 2022-09-01 至 2024-08-31
• 项目状态: 已结题
• 来源: https://www.nsf.gov/awardsearch/showAward?AWD_ID=2155222&HistoricalAwards=false
• 关键词: PIPP; Phase; Center; Emerging; Pathogen

The Predictive Intelligence for Pandemic Prevention (PIPP) Phase I: Development Grants Center for Emerging Pathogen Prediction and Integration (CEPPI) will lead strategic surveillance of wildlife pathogens across changing environments. Understanding and preventing the emergence of new infectious diseases requires interpreting many types of data (e.g., information on the disease-causing pathogens, interactions between the human and wildlife populations, and changes in their associated environments). The team will use the vast historical data and sampling available in biorepositories, such as museums, to systematically investigate pathogen emergence to enable reliable predictions of zoonotic disease to help prevent or mitigate future pandemics. Many aspects of pathogen biology in wildlife remain poorly documented worldwide, particularly in low-income, biodiverse regions. Pandemics pose a challenge that requires international, collaborative, proactive solutions, so the Center will focus on developing best methods in training the next generation of pathogen biologists, improving basic biodiversity infrastructure, databases, and workflows, and then sharing these new approaches globally. Working especially with partner museums in the Americas, the Center will expand wildlife sampling strategies to develop a more comprehensive, decentralized network of specimen repositories and researchers to improve pathogen identification and surveillance.To improve pathogen detection, surveillance, and mitigation, the Center will promote state-of-the-art biorepositories, genomic screening, and bioinformatic workflows, which are empowered by intuitively interactive visualization web tools, computational and mathematical modeling, and machine learning. Rapid visual and intelligent integration of pathobiology into the vast global, digital infrastructure for wild mammals is the cornerstone of this Center, which will act as an early warning system for pandemic prediction and prevention. In Phase I, the cross-disciplinary team aims to develop internationally scalable multidisciplinary workflows to build: 1) informatics baselines for pathogens and hosts derived from existing archival biorepositories representing decadal sampling of mammalian communities that will be linked directly to targeted strategies for improved monitoring and surveillance; 2) pipelines that streamline sequencing and bioinformatic methods for rapid, affordable, large-scale screening of mammalian host and parasite samples to provide scalable views of diversity and change over space and time; 3) pathogen risk assessments linking novel methods that integrate social and environmental parameters and pathogen diversity to predict the outcomes of accelerating anthropogenic change; 4) collaborations across local biorepositories to develop strategic sampling and digitization protocols for expanded geographic, temporal and taxonomic coverage; and 5) problem-solving networks through educational modules, direct engagement, and collaborative learning. CEPPI helps standardize exploration of pathogens and biodiversity by building new connections with local communities, sequencing and bioinformatic facilities, and public health and natural resource agencies. New capacities for visualization, informatics interpretation, and translation emanate from the development of fast, affordable, and scalable sequencing and bioinformatic technologies. These capacities will stimulate new methods of pathogen detection, discovery, and monitoring that will foster global pathogen surveillance and mitigation. This award is supported by the cross-directorate Predictive Intelligence for Pandemic Prevention Phase I (PIPP) program, which is jointly funded by the Directorates for Biological Sciences (BIO), Computer Information Science and Engineering (CISE), Engineering (ENG), and Social, Behavioral and Economic Sciences (SBE).This award reflects NSF's statutory mission and has been deemed worthy of support through evaluation using the Foundation's intellectual merit and broader impacts review criteria.

大流行预防预测情报（PIPP）第一阶段：新兴病原体预测和整合发展赠款中心（CEPPI）将在不断变化的环境中领导野生动物病原体的战略监测。了解和预防新的传染病的出现需要解释许多类型的数据（例如，关于致病病原体、人类和野生动物种群之间的相互作用及其相关环境变化的信息）。该团队将利用博物馆等生物储存库中的大量历史数据和采样，系统地调查病原体的出现，以实现对人畜共患病的可靠预测，从而帮助预防或减轻未来的大流行。野生动物中病原体生物学的许多方面在世界范围内仍然缺乏记录，特别是在低收入、生物多样性地区。流行病带来的挑战需要国际合作，积极主动的解决方案，因此该中心将专注于开发培训下一代病原体生物学家的最佳方法，改善基本的生物多样性基础设施，数据库和工作流程，然后在全球范围内分享这些新方法。该中心将特别与美洲的合作伙伴博物馆合作，扩大野生动物采样策略，以建立一个更全面、分散的标本库和研究人员网络，以改善病原体识别和监测。为了改善病原体检测、监测和缓解，该中心将推广最先进的生物库、基因组筛选和生物信息学工作流程，其通过直观交互式可视化web工具、计算和数学建模以及机器学习而被授权。 将病理生物学快速可视化和智能化整合到野生哺乳动物的庞大全球数字基础设施中是该中心的基石，该中心将作为大流行预测和预防的预警系统。在第一阶段，跨学科团队旨在开发国际可扩展的多学科工作流程，以建立：1）来自现有档案生物储存库的病原体和宿主的信息学基线，这些生物储存库代表哺乳动物群落的十年采样，将直接与改进监测和监督的目标战略相联系; 2）简化测序和生物信息学方法的管道，用于快速，负担得起，大规模筛选哺乳动物宿主和寄生虫样本，以提供多样性的可扩展视图以及随时间和空间的变化; 3）病原体风险评估，将整合社会和环境参数以及病原体多样性的新方法联系起来，以预测加速人为变化的结果; 4）当地生物储存库之间的合作，以制定战略采样和数字化协议，以扩大地理，时间和分类覆盖范围;以及5）通过教育模块，直接参与和协作学习解决问题的网络。CEPPI通过与当地社区、测序和生物信息学设施以及公共卫生和自然资源机构建立新的联系，帮助规范病原体和生物多样性的探索。可视化、信息学解释和翻译的新能力源于快速、负担得起和可扩展的测序和生物信息学技术的发展。这些能力将促进病原体检测、发现和监测的新方法，从而促进全球病原体监测和缓解。该奖项得到了跨部门的大流行预防阶段预测情报（PIPP）计划的支持，该计划由生物科学（BIO），计算机信息科学与工程（CISE），工程（ENG）和社会部门共同资助。行为与经济科学（SBE）该奖项反映了NSF的法定使命，并通过使用基金会的知识价值和更广泛的影响审查标准进行评估，被认为值得支持。

项目成果

Engaging with the Nagoya Protocol on Access and Benefit-Sharing: recommendations for noncommercial biodiversity researchers

• DOI: 10.1093/jmammal/gyac122
• 发表时间: 2023-06-06
• 期刊: JOURNAL OF MAMMALOGY
• 影响因子: 1.7
• 作者: Colella，Jocelyn P.;Silvestri，Luciana;Lessa，Enrique P.
• 通讯作者: Lessa，Enrique P.