Role of Post-transcription RNA Modifications on Zika Virus Gene Expression

转录后 RNA 修饰对寨卡病毒基因表达的作用

• 批准号: 9385604
• 负责人: Daniele Fabris
• 金额: $ 22.68万
• 依托单位: STATE UNIVERSITY OF NEW YORK AT ALBANY
• 依托单位国家: 美国
• 财政年份: 2017
• 资助国家: 美国
• 起止时间: 2017-09-06 至 2019-08-31
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/9385604
• 关键词: 3' Untranslated Regions; Adult; Affect; Affinity; Americas; Antibodies; Antisense DNA; Antiviral Agents; Antiviral Therapy; Area; Biological; Biological Process; Biology; Cell Line; Cells; Cleaved cell; Conscious; Culicidae; Cytosine; DNA Probes; Detection; Development; Enzymes; Evolution; Flavivirus; Gene Expression; General Population; Genetic Transcription; Genome; Goals; Grant; HIV-1; Health; Hepatitis C; Human; Immunoprecipitation; Incidence; Infection; Integration Host Factors; Investigation; Knowledge; Location; Medical emergency; Metabolic Pathway; Modification; Molecular; Mutate; Neurologic; Newborn Infant; Nucleic Acid Regulatory Sequences; Pathogenesis; Pathogenicity; Pattern; Play; Positioning Attribute; Post-Transcriptional RNA Processing; Process; RNA; RNA Viruses; RNA analysis; Regulation; Reporting; Research; Research Infrastructure; Ribonuclease H; Ribonucleotides; Role; Route; Sampling; Seminal; Sexual Transmission; Site; Syndrome; Technology; Time; Time Study; Translations; United States National Institutes of Health; Untranslated RNA; Vaccines; Variant; Viral; Viral Genes; Viral Genome; Viral Physiology; Virion; Virus; Virus Diseases; Virus Replication; Zika Virus; base; congenital anomaly; experimental study; genomic RNA; global health; insight; neuron development; novel; prevent; technology development; transcriptome sequencing; transmission process; viral RNA; virus host interaction

PROJECT ABSTRACT Zika virus (ZIKV) is a reemerging mosquito-borne flavivirus that presents a formidable health threat substantiated by neurological and developmental anomalies and a sexual transmission route. The significant knowledge gap, as well as the lack of antiviral therapies and vaccines, has greatly increased the urgency of ZIKV research. Based on the precedents set by the investigations of N6-methyladenosine (m6A) in HIV-1, HCV, and ZIKV, we hypothesize that RNA post-transcriptional modifications (PTMs) play important roles in ZIKV infection by regulating essential functions in viral gene expression in different hosts. Understanding these functions will reveal new promising targets for antiviral development. The presence of PTMs on the genome of various RNA viruses has been known for decades. A concerted approach combining immunoprecipitation of m6A-containing fragments and RNA-seq analysis has facilitated functional analysis of m6A. The lack of detection capabilities has however severely hindered such knowledge of the more than 140 other known PTMs. The development of a more versatile platform based on mass spectrometric (MS) analysis has allowed us to examine the global landscape of PTMs present in total RNA extracts of mock- and ZIKV-infected cells, as well as on viral genomic RNA isolated by affinity capture from infected cells and virions. Our exciting results have shown that the genome of ZIKV is decorated by 38 different types of PTMs other than m6A, and that these astonishing constellations present noticeable variations as a function of origin and conditions. In this proposal, we will initiate the functional study of viral PTMs by initially pursuing those with distinctive expression patterns in infected cells and virions. More specifically, we will use MS-sequencing to target different dimethyl-cytosine modifications that were prominent on intracellular ZIKV RNA, but not on packaged RNA. We will deplete the enzymes that install/remove dimethyl-cytosine modifications, mutate the ZIKV RNA to prevent PTM addition, and examine the biological impact on viral translation, replication, and assembly. We will perform these experiments with different viral strains and in different cell and mosquito lines. The results will provide unique insights into the impact of PTMs on virus-host interactions and gene expression during development. These insights will lay the groundwork for the development of novel antivirals targeting host factor essential for ZIKV infection, but also possible broad- spectrum antivirals active across all flaviviruses. This study will help establish the priorities and framework for the elucidation of the remaining viral PTMs, which will be pursued by dedicated project grants. Beyond the investigation of ZIKV biology, these principles and the enabling technologies developed in this R21 will be applicable to study other conditions involving RNA malfunctions, which will further substantiate the broad transformative impact of this project.

项目摘要 寨卡病毒（ZIKV）是一种重新出现的蚊媒黄病毒，对健康构成巨大威胁 神经和发育异常以及性传播途径证实了这一点。的 严重的知识差距，以及缺乏抗病毒疗法和疫苗， ZIKV研究的紧迫性。根据N6-甲基腺苷研究的先例， (m6A)在HIV-1、HCV和ZIKV中，我们假设RNA转录后修饰（PTM）发挥作用， 在ZIKV感染中的重要作用，通过调节不同细胞中病毒基因表达的基本功能， hosts.了解这些功能将揭示新的有希望的抗病毒药物开发的目标。 几十年来，人们已经知道各种RNA病毒基因组上存在PTM。一 结合含m6 A片段的免疫沉淀和RNA-seq分析的协同方法 有助于对m6 A进行功能分析。然而，由于缺乏检测能力， 阻碍了对140多个其他已知PTM的了解。开发一种更通用的 基于质谱（MS）分析的平台使我们能够检查全球景观， 存在于模拟和ZIKV感染的细胞的总RNA提取物中以及病毒基因组RNA上的PTM 通过亲和捕获从感染的细胞和病毒体分离。我们令人兴奋的结果表明， ZIKV的基因组由除了m6 A之外的38种不同类型的PTM装饰，并且这些惊人的 星座呈现出作为起源和条件的函数的显著变化。 在这项建议中，我们将启动病毒PTM的功能研究，首先研究那些具有 感染细胞和病毒体中独特的表达模式。更具体地说，我们将使用MS测序 靶向不同的二甲基胞嘧啶修饰，这些修饰在细胞内ZIKV RNA上很突出，但在细胞内ZIKV RNA上不突出。 包装RNA。我们将耗尽安装/移除二甲基胞嘧啶修饰的酶， 突变ZIKV RNA以防止PTM添加，并检查对病毒翻译的生物学影响， 复制和组装。我们将用不同的病毒株在不同的环境中进行这些实验。 细胞和蚊子线。这些结果将为PTM对病毒宿主的影响提供独特的见解 在发育过程中的相互作用和基因表达。这些见解将奠定基础， 开发靶向ZIKV感染所必需的宿主因子的新型抗病毒药物，但也可能是广泛的， 对所有黄病毒都有效的广谱抗病毒药物。这项研究将有助于确定优先事项， 阐明其余病毒性PTM的框架，这将由专门的项目进行 赠款。除了对ZIKV生物学的研究，这些原理和使能技术 在本R21中开发的技术将适用于研究涉及RNA故障的其他条件， 进一步证实了该项目的广泛变革影响。