Transcription factor regulation of CD4 and CD8 T cell effector and memory differentiation and function

CD4 和 CD8 T 细胞效应及记忆分化和功能的转录因子调节

• 批准号: 10024583
• 负责人: Shane P Crotty
• 金额: $ 205.7万
• 依托单位: LA JOLLA INSTITUTE FOR IMMUNOLOGY
• 依托单位国家: 美国
• 财政年份: 2020
• 资助国家: 美国
• 起止时间: 2020-08-01 至 2021-07-31
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/10024583
• 关键词: Antibody Response; Antiviral Agents; B-Lymphocytes; Biology; CD4 Positive T Lymphocytes; CD8-Positive T-Lymphocytes; CD8B1 gene; CHD7 gene; Cells; Cellular biology; Chromatin; Complex; Consumption; Custom; Cytotoxic T-Lymphocytes; Data; Development; Effector Cell; Gene Expression; Gene Expression Regulation; Generations; Genes; Genetic Epistasis; Genetic Screening; Genetic Transcription; Helper-Inducer T-Lymphocyte; Heterogeneity; Histone Deacetylase; Human; IRF4 gene; Immunity; Intervention; Knockout Mice; Knowledge; Libraries; Link; Malignant Neoplasms; Medical; Memory; Molecular; Nature; NuRD complex; Paper; Pathway interactions; Population; Process; Provider; RUNX3 gene; Regulation; Regulator Genes; Role; System; T cell differentiation; T cell response; T memory cell; T-Lymphocyte; T-Lymphocyte Subsets; Testing; Time; Tissues; Vaccine Design; Vaccines; Virus Diseases; Work; adaptive immunity; base; cost effective; cytotoxic CD8 T cells; effector T cell; epigenetic regulation; experience; experimental study; in vivo; insight; memory CD4 T lymphocyte; neoplasm immunotherapy; pathogen; programs; synergism; technology development; transcription factor; tumor; vector

ABSTRACT (Overall Component) The three Projects vigorously pursue an understanding of antiviral CD4 and CD8 T cells, linked by the theme: what transcription factors regulate these cells and how do they do so? T cell differentiation into various effector cells, and the capacity to differentiate into memory cells, are important parts of adaptive immunity to pathogens and cancers. Transcription factors (TFs) are central regulators of these differentiation processes. The identification of key TFs regulating different pathways of CD4 and CD8 T cell differentiation have been central to understanding the biology of these cells. However, it is abundantly clear that TFs do not act in isolation and many TFs may be important inducers or repressors of a T cell differentiation pathway. The biggest challenge to studying TF network biology is that experimental manipulation of more than 1 factor at a time under controlled conditions has not been generally feasible, particularly in primary cells in vivo. Therefore, the focus on 1 gene at a time has been an experimental necessity for decades; the generation of double and triple knockout mice is excessively time consuming. Therefore, our approach as a group to this serious problem has been focused on experimental approaches whereby we can modulate and test many genes in parallel for their roles in antiviral T cell responses in vivo, using custom shRNAmir vector-based approaches. We have established these systems, and are able to perform genetic screens, in vivo, in primary CD4 or CD8 T cells, probing differentiation and function. Our projects propose a highly integrated approach to revealing the biology of regulation and differentiation of T follicular helper (Tfh) CD4 T cells, memory CD4 T cells, CTL CD8 T cells, circulating memory CD8 T cells, and tissue-resident CD8 and CD4 T cells (Trm). The three PIs have worked intensively together over the past 5 years to develop important insights into TF biology in T cells. The interactions are not simply via shared cores, they involve extensive shared experiments and ideas regarding TFs, CRs, epigenetics, and gene regulation networks. This is most clearly seen in our 2017 Nature paper on Trm and Runx3. That work is connected to our earlier work together predicting TF regulators of gene expression in T cells, and our most recent paper together, defining the dominant pioneer factor role of Runx3 in the earliest steps of effector CD8 T cell differentiation and defining how Runx3 interacts with other TFs that we have studied, including T-bet, Blimp-1, IRF4, TCF1, and Id2. Our collective experience is that our screens identify multiple critical factors, more than can be comprehensively studied in the context of a single project. Therefore, the equally important challenge—and where our Program’s synergy stands out—is narrowing down the candidate molecules to particular ‘high value’ TFs and CRs that have a major influence on T cell programming. Our three Projects acquire such data in the orthogonal screens and epistasis experiments proposed by each Project, which allow us to converge quickly on important targets to study in detail.

摘要 （整体组成部分） 这三个项目积极追求对抗病毒CD4和CD8 T细胞的理解，主题是： 哪些转录因子调控这些细胞，它们又是如何调控的？T细胞分化为各种效应子 细胞和分化成记忆细胞的能力是对病原体的适应性免疫的重要组成部分 和癌症。转录因子（TF）是这些分化过程的中心调节因子。的 鉴定调节CD4和CD8 T细胞分化的不同途径的关键TF已经成为中心 来理解这些细胞的生物学。然而，非常清楚的是，信托基金并不是孤立地发挥作用， 许多TF可能是T细胞分化途径的重要诱导物或阻遏物。的最大挑战 研究TF网络生物学是在受控条件下同时对1个以上因素进行实验操作 条件通常不可行，特别是在体内原代细胞中。因此，关注1个基因 几十年来，基因敲除一直是实验的必需品;双基因敲除和三基因敲除小鼠的产生， 过于耗时。因此，我们作为一个团体对这一严重问题的处理办法一直集中在 实验方法，使我们可以调节和测试许多基因在抗病毒T 使用定制的基于shRNAmir载体的方法在体内观察细胞应答。我们已经建立了这些 系统，并且能够在体内在原代CD4或CD8 T细胞中进行遗传筛选，探测 分化和功能。我们的项目提出了一种高度综合的方法来揭示生物学的 T滤泡辅助（Tfh）CD4 T细胞、记忆CD4 T细胞、CTL CD8 T细胞的调节和分化， 循环记忆CD8 T细胞和组织驻留的CD8和CD4 T细胞（Trm）。这三个私家侦探 在过去的5年里，我们紧密合作，对T细胞中的TF生物学产生了重要的见解。的 互动不仅仅是通过共享核心，它们涉及广泛的共享实验和想法， 转录因子、CRs、表观遗传学和基因调控网络。这一点在我们2017年的《自然》论文中最为清楚地体现出来， Trm和Runx3。这项工作与我们早期预测基因转录因子调节因子的工作有关。 T细胞中的表达，以及我们最近的论文一起定义了Runx 3在T细胞中的主导先锋因子作用 效应CD8 T细胞分化的最早阶段，并确定Runx3如何与其他TF相互作用， 已经研究了包括T-bet、Blimp-1、IRF 4、TCF 1和Id2。我们的集体经验是，我们的屏幕 确定多个关键因素，而不是在单个项目的背景下进行全面研究。 因此，同样重要的挑战--也是我们计划的协同作用突出的地方--正在缩小 候选分子对特定的"高价值" TF和CRs具有重要影响， 编程.我们的三个项目通过正交筛选和上位性实验获得了这些数据 每个项目都提出了一些建议，这使我们能够迅速集中在重要的目标上进行详细研究。