CAREER: Integrating Chemical Biology Methods and RNA Virus Models to Elucidate How the Metazoan Proteostasis Network Modulates Protein Evolutionary Landscapes

职业：整合化学生物学方法和 RNA 病毒模型，阐明后生动物蛋白质稳态网络如何调节蛋白质进化景观

• 批准号: 1652390
• 负责人: Matthew Shoulders
• 金额: $ 103.46万
• 依托单位: Massachusetts Institute of Technology
• 依托单位国家: 美国
• 项目类别: Continuing Grant
• 财政年份: 2017
• 资助国家: 美国
• 起止时间: 2017-01-15 至 2022-06-30
• 项目状态: 已结题
• 来源: https://www.nsf.gov/awardsearch/showAward?AWD_ID=1652390&HistoricalAwards=false
• 关键词: CAREER; Integrating; Chemical; Biology; Methods

What are the mutations, harmful or beneficial, that may occur in a protein? The answers to this fundamental question underpin the ability to understand and predict evolution. While trying to study this question by introducing mutations in the lab, it was learned that mutations very often result in the production of protein variants that do not fold correctly in space. In the living cell, there are several systems that assist the protein folding process (known as the cellular proteostasis network), and they help some of the mutant proteins fold correctly. By perturbing the proteostasis systems, the investigator hopes to learn more about the mutations that actually happen during protein evolution. This project will use the influenza viruses, which can evolve rapidly in the lab and chemical probes that can turn on and off various parts of the proteostasis machinery. The research is linked to developing and testing an outreach program targeted at the local homeschooled student community. Opportunities offered include high school student internships related to the research, chemistry demonstration shows, and the development and testing of biomolecule models for take-home experiments that teach students about evolution and protein folding.This research is uncovering how metazoan proteostasis mechanisms beyond the HSP90 chaperone influence protein evolution at the molecular level. A battery of custom-designed chemical biology tools is used to perturb the composition and activities of key components of the metazoan proteostasis network with high precision using small molecules. The effects of these different proteostasis environments on protein evolutionary trajectories are studied by leveraging rapidly evolving RNA viruses propagating in metazoan cells, with a focus on influenza A. The highly interdisciplinary experimental approach encompasses deep mutational scanning of individual viral proteins, and optimized sequencing, modeling, and biophysical analysis strategies to enable quantitative assessment of the results. The outcomes will be a new appreciation for the complex interplay between the proteostasis network and client protein evolution, with important implications for understanding and predicting viral evolution at the molecular level. Testing roles of the proteostasis network in buffering protein evolution will also elucidate previously unknown functions of specific proteostasis network components. Thus, fundamental science contributions will impact fields ranging from virology and evolutionary biology to biophysics.

蛋白质中可能发生的突变是什么，有害的还是有益的？这个基本问题的答案是理解和预测进化的基础。在试图通过在实验室中引入突变来研究这个问题时，人们了解到突变通常会导致产生在空间中不能正确折叠的蛋白质变体。在活细胞中，有几个系统帮助蛋白质折叠过程（称为细胞蛋白质稳态网络），它们帮助一些突变蛋白质正确折叠。通过扰乱蛋白质稳定系统，研究人员希望更多地了解蛋白质进化过程中实际发生的突变。这个项目将使用流感病毒，它可以在实验室和化学探针，可以打开和关闭蛋白质稳定机制的各个部分迅速演变。这项研究与开发和测试一项针对当地在家上学的学生社区的推广计划有关。提供的机会包括与研究相关的高中生实习，化学演示节目，以及开发和测试生物分子模型，用于带回家的实验，教授学生关于进化和蛋白质折叠。这项研究揭示了后生动物蛋白质稳定机制如何超越HSP 90分子伴侣在分子水平上影响蛋白质进化。一组定制设计的化学生物学工具用于使用小分子以高精度干扰后生动物蛋白质稳态网络的关键组分的组成和活性。这些不同的蛋白质稳定环境对蛋白质进化轨迹的影响通过利用在后生动物细胞中繁殖的快速进化的RNA病毒来研究，重点是甲型流感。高度跨学科的实验方法包括对单个病毒蛋白的深度突变扫描，以及优化的测序，建模和生物物理分析策略，以实现对结果的定量评估。这些结果将是对蛋白质稳定网络和客户蛋白进化之间复杂相互作用的新认识，对在分子水平上理解和预测病毒进化具有重要意义。蛋白质稳定网络在缓冲蛋白质进化中的测试作用也将阐明以前未知的特定蛋白质稳定网络组件的功能。因此，基础科学的贡献将影响从病毒学和进化生物学到生物物理学的各个领域。

项目成果

Host proteostasis modulates influenza evolution

• DOI: 10.7554/elife.28652
• 发表时间: 2017-09
• 期刊: eLife
• 影响因子: 7.7
• 作者: Angela M. Phillips;Luna O Gonzalez;Emmanuel E. Nekongo;A. I. Ponomarenko;Seán McHugh;Vincent L. Butty;S. Levine;Yu-Shan Lin;L. Mirny;M. Shoulders

HSF1 Activation Can Restrict HIV Replication

• DOI: 10.1021/acsinfecdis.0c00166
• 发表时间: 2020-07-10
• 期刊: ACS INFECTIOUS DISEASES
• 影响因子: 5.3
• 作者: Nekongo, Emmanuel E.;Ponomarenko, Anna, I;Shoulders, Matthew D.
• 通讯作者: Shoulders, Matthew D.