Role of age-associated epigenetic repetitive element derepression in Alzheimer's Disease

年龄相关的表观遗传重复元件去抑制在阿尔茨海默病中的作用

• 批准号: 10758192
• 负责人: Alyssa Nicole Cavalier
• 金额: $ 4.01万
• 依托单位: COLORADO STATE UNIVERSITY
• 依托单位国家: 美国
• 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://reporter.nih.gov/project-details/10758192
• 关键词: ATAC-seq; Age; Aging; Alzheimer' s Disease; Alzheimer' s disease brain; Alzheimer' s disease patient; Automobile Driving; Bioinformatics; Biological; Biological Process; Biology; Biometry; Blood; Blood Cells; Brain; ChIP-seq; Chromatin; Chromatin Structure; Clinical Data; Clinical Research; Code; Colorado; Complementary DNA; Cytoplasm; DNA; DNA Methylation; DNA Transposable Elements; DNA methylation profiling; Data; Data Set; Development; Development Plans; Diagnosis; Double-Stranded RNA; Environment; Epigenetic Process; Family; Fluorescent in Situ Hybridization; Funding; Genes; Genetic Transcription; Genome; Genomic Segment; Goals; Heterochromatin; Histone Acetylation; Human; Human Genome; Immune; Immune signaling; Immunofluorescence Immunologic; Inflammation; Interferons; Junk DNA; Laboratories; Learning; Link; Mentors; Methods; Methylation; Molecular; Molecular Biology; Nerve Degeneration; Neurodegenerative Disorders; Patients; Process; RNA; RNA Editing; Repetitive Sequence; Research; Research Personnel; Research Training; Risk Factors; Role; Sampling; Signal Transduction; Site; Source; Stimulator of Interferon Genes; Techniques; Training; Transcript; Translational Research; United States National Institutes of Health; Universities; Untranslated RNA; XCL1 gene; age related; aging brain; antiviral immunity; bisulfite sequencing; career; career development; chromatin modification; derepression; experience; genome wide methylation; genome-wide; healthspan; human old age (65+); insight; meetings; mild cognitive impairment; multiple omics; neuroinflammation; new therapeutic target; next generation sequencing; sensor; skills; symposium; therapeutic target; transcriptome; transcriptome sequencing; transcriptomics; translational scientist; whole genome

PROJECT SUMMARY Age is the primary risk factor for sporadic (i.e., age-related, not genetic/familial) Alzheimer’s disease (AD), and neuroinflammation is a key driver of brain aging and AD. Recent advances in next-generation sequencing (e.g., RNA-seq/transcriptomics) may help to identify causes of age/AD-related neuroinflammation; however, most transcriptome studies of aging have largely focused on coding genes, while non-coding repetitive sequences (which represent >50% of the human genome) have been largely ignored. Growing evidence from our lab and others shows that expression of repetitive element (RE) transcripts increases with age and may contribute to aging/AD, but the exact mechanisms by which RE dysregulation occurs are incompletely understood. One possibility is that epigenetic changes (which are an established feature of aging/AD) may be involved. How these epigenetic changes contribute to RE transcript accumulation is unclear, but there are two possibilities: 1) age-associated changes in chromatin structure and loss of heterochromatin (highly compact and inaccessible); or 2) reduced DNA methylation of REs. Both of these epigenetic changes could increase activation/expression of REs that are normally suppressed, and both could represent novel therapeutic targets. In this F31 application, the candidate, Alyssa Cavalier, proposes to gain valuable translational research training by using a “multi-omics approach” to study epigenetic dysregulation of RE transcripts and their role in aging, neuroinflammation and AD. She will take advantage of existing samples to generate chromatin accessibility and whole genome methylation sequencing data, and use bioinformatics analyses to determine if REs increased with aging/AD originate from genomic regions that show epigenetic dysregulation. Her immediate goal is to gain the fundamental experience and professional skills necessary to perform independent research. Her long-term goal is to become an academic, translational scientist investigating the biological mechanisms of brain aging and neurodegeneration. Ms. Cavalier will train in a state-of-the-art environment with an exceptional mentoring team at Colorado State University (CSU). The sponsor, Dr. Tom LaRocca, has an extensive background studying aging and RE, and directs the NIH-funded Healthspan Biology Laboratory at CSU. Consulting mentors Drs. Chris Link, Karyn Hamilton, and Brianne Bettcher will provide expertise on topics ranging from molecular to clinical research to prepare Ms. Cavalier for a career as a translational scientist. Ms. Cavalier’s career development plan consists of: 1) training in bioinformatics, biostatistics and interpretation/analyses of clinical data; 2) learning state-of-the-art wet-lab techniques to develop her translational research skills; 3) strengthening and broadening her molecular biology skillset; and 4) further developing her professional skills through interaction with her mentoring team, coursework, weekly lab meetings, and scientific conferences.

项目摘要 年龄是散发性（即，年龄相关的，非遗传/家族性的）阿尔茨海默病（AD）， 而神经炎症是大脑老化和AD的关键驱动因素。下一代技术的最新进展 测序（例如，RNA-seq/转录组学）可能有助于确定年龄/AD相关神经炎症的原因; 然而，大多数关于衰老的转录组研究主要集中在编码基因上，而非编码基因 重复序列（占人类基因组的50%以上）在很大程度上被忽视了。增长 来自我们实验室和其他实验室的证据表明，重复元件（RE）转录本的表达随着时间的推移而增加， 年龄和可能有助于衰老/AD，但RE失调发生的确切机制是 不完全理解。一种可能性是表观遗传变化（这是一个既定的特征， 老年/AD）可能涉及。这些表观遗传变化如何促进RE转录物积累尚不清楚， 但有两种可能：1）与年龄相关的染色质结构变化和异染色质丢失 （高度紧凑和不可接近）;或2）RE的DNA甲基化减少。 可以增加通常被抑制的RE的激活/表达，两者都可以代表新的 治疗目标在这个F31应用程序中，候选人Alyssa Cavalier提出要获得宝贵的 通过使用“多组学方法”研究RE的表观遗传失调的转化研究培训 转录本及其在衰老、神经炎症和AD中的作用。她将利用现有的样本， 生成染色质可及性和全基因组甲基化测序数据，并使用生物信息学 分析以确定RE是否随着衰老/AD而增加，其是否来源于表现出表观遗传的基因组区域， 失调她的近期目标是获得必要的基本经验和专业技能， 进行独立研究。她的长期目标是成为一名学术、翻译科学家 研究大脑老化和神经退化的生物学机制。卡瓦利埃女士将在一个 在科罗拉多州立大学（CSU）拥有一流的环境和出色的辅导团队。的 发起人Tom LaRocca博士具有广泛的研究衰老和RE的背景，并指导NIH资助的 加州州立大学的Healthspan生物学实验室。咨询导师Chris Link、Karyn汉密尔顿和Brianne博士 Bettcher将提供从分子到临床研究等主题的专业知识，为Cavalier女士做好准备。 作为一名翻译科学家的职业生涯。卡瓦利埃女士的职业发展计划包括：1）培训 生物信息学，生物统计学和临床数据的解释/分析; 2）学习最先进的湿实验室 技术，以发展她的转化研究技能; 3）加强和扩大她的分子生物学 技能;以及4）通过与她的指导团队的互动进一步发展她的专业技能， 课程作业、每周实验室会议和科学会议。