Genomics of Inflammatory Bowel Disease

炎症性肠病的基因组学

• 批准号: 10242842
• 负责人: Leah Claire Kottyan
• 金额: $ 77.06万
• 依托单位: CINCINNATI CHILDRENS HOSP MED CTR
• 依托单位国家: 美国
• 财政年份: 2019
• 资助国家: 美国
• 起止时间: 2019-09-20 至 2024-08-31
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/10242842
• 关键词: Address; Alleles; Antineutrophil Cytoplasmic Antibodies; Autoimmune; Autoimmune Diseases; Autoimmunity; B-Lymphocytes; BZLF1 gene; Binding; Binding Sites; Catalogs; ChIP-seq; Characteristics; Childhood; DNA; DNA Binding; Data; Data Set; Disease; Disease Resistance; Enhancers; Environmental Risk Factor; Epstein-Barr Virus Infections; Epstein-Barr Virus Nuclear Antigens; Epstein-Barr Virus latency; Etiology; Freezing; Gene Expression; Genetic; Genetic Predisposition to Disease; Genetic Risk; Genomics; Human; Human Herpesvirus 4; Immune system; Individual; Inflammatory; Inflammatory Bowel Diseases; Inflammatory Response; Informatics; Lesion; Letters; Libraries; Lytic Virus; Molecular; Mucous Membrane; Natural Killer Cells; Pathogenesis; Pathologic; Pathology; Pathway interactions; Patients; Peroxidases; Phenotype; Prevalence; Protein Biosynthesis; Protein Microchips; Proteins; Qualifying; Regulator Genes; SPI1 gene; Serology; Serum; Severity of illness; T-Lymphocyte; Techniques; Technology; Testing; Ulcerative Colitis; Viral; Viral Genes; Virus; Work; cell type; chromatin immunoprecipitation; disorder risk; experimental study; gene product; genome wide association study; improved; infected B cell; inhibitor/antagonist; mRNA Expression; microbiome; next generation sequencing; novel therapeutics; programs; risk variant; therapy resistant; transcription factor; transforming virus

In Inflammatory Bowel Disease (EBV) Epstein-Barr virus (EBV) infection is thought to contribute to disease severity and resistance to therapy. Recently, we discovered a powerful association between the DNA immunoprecipitated by EBNA2 and the risk loci of IBD, intersecting 38 of 112 evaluated loci (from the GWAS catalog in 2015) (RR=3.3, Pc=1.24x10-13) (1). Newer data confirm the EBNA2 association and also show that EBNA3C and EBNALP ChIP-seq (chromatin immunoprecipitation with next generation sequencing) data are also associated with IBD loci (RR=2.3, Pc=2.3x10-12 & RR=2.3, Pc=2.3x10-12, respectively) while BZLF1 (ZTA), an EBV Lytic program transcription factor (TF), is not associated. EBNA2, EBNA3C, and EBNALP are expressed in the EBV Latency III program of viral gene expression, causing the infected B cell to transform and becoming a major target for incomplete destruction by the normal human immune system. Interestingly, human transcription factors (TFs) tend to bind the same loci that are bound by these Latency III EBV gene products, forming intersection clusters that identify the contributing, presumably, regulatory IBD loci. Our interpretation is that these associations strongly suggest that at the intersecting loci viral mechanisms commandeering the cellular phenotype are shared with the genetic mechanisms of IBD risk. We conclude that this relationship likely represents related molecular pathways. The question is whether these associations are correlations, reflecting converging but independent mechanisms, or whether these correlations are interdependent and exist because the virus is etiologic and involved in disease pathogenesis. Establishing either possibility would be a major advance for IBD with viral constituents being probes to dissect mechanism. If EBV infection is etiologic, then, perhaps, the initial EBV-related lesion interferes with the barrier function, allowing the endogenous microbiome to induce the inflammatory response that we recognize as one or more of the pathologies of IBD. Since other EBNA2 associated disorders are autoimmune (1) and some EBV associations with IBD severity are colonic, if EBV is etiologic, then the autoimmunity of Ulcerative Colitis (UC) would be a most likely suspect. We propose to: Aim 1.) Exploit the discovery of additional IBD risk loci; improvements in our informatics, including allele specific analysis; and the new chromatin immunoprecipitation data accumulated to redefine the associations previously discovered (1). Aim 2.) Better understand the genomic mechanisms of IBD by applying state-of-the-art genomic technologies. Aim 3.) Develop new therapeutics for IBD directed against EBV, particularly against the Latency III transforming expression program of EBV, and Aim 4.) Test the prediction of the etiologic possibility that EBV-infection is increased in IBD and, if so, then identify the characteristics of the IBD subset whose illness is related to the inflammatory pathology of IBD, perhaps those with autoimmune UC. This project will determine whether EBV is a plausible etiology for some IBD, characterize regulatory genomic mechanisms in risk loci, and initiate experiments to find new therapies to reduce the impact of EBV on IBD.

在炎症性肠病（EBV）中，EB病毒（EBV）感染被认为是导致疾病的原因。 严重程度和对治疗的抵抗力。最近，我们发现了一个强大的关联， EBNA 2和IBD的风险基因座的免疫沉淀，与112个评估的基因座中的38个相交（来自GWAS 2015年目录）（RR=3.3，Pc=1.24x10-13）（1）。新的数据证实了EBNA 2的关联，并表明， EBNA 3C和EBNALP ChIP-seq（染色质免疫沉淀与下一代测序）数据是 也与IBD基因座相关（RR=2.3，Pc= 2.3 × 10 ~（-12）和RR=2.3，Pc= 2.3 × 10 ~（-12）），而BZLF 1（ZTA）， 一种EBV裂解程序转录因子（TF）。EBNA 2、EBNA 3C和EBNALP表达 在病毒基因表达的EBV潜伏期III程序中，引起感染的B细胞转化并变成 是正常人体免疫系统不完全破坏的主要目标。有趣的是，人类 转录因子（TF）倾向于结合与这些潜伏期III EBV基因产物结合的相同基因座， 形成交叉簇，识别可能起作用的调节性IBD基因座。我们的解释是 这些关联强烈表明，在交叉位点， 细胞表型与IBD风险的遗传机制相同。我们得出结论，这种关系可能 代表了相关的分子途径。问题是这些关联是否是相关性，反映了 相互融合但独立的机制，或者这些相关性是否是相互依赖的， 该病毒是病原性的，并参与疾病的发病机制。建立任何一种可能性都是一个重大的问题。 以病毒成分为探针剖析IBD发病机制的研究进展。如果EB病毒感染是病因，那么， 也许，最初的EBV相关病变干扰了屏障功能， 诱导炎症反应，我们认为这是IBD的一种或多种病理。因为其他 EBNA 2相关疾病是自身免疫性疾病（1），某些EBV与IBD严重程度相关的疾病是结肠性疾病，如果 EBV是病因，那么溃疡性结肠炎（UC）的自身免疫性将是最可能的怀疑。 我们建议：目标1。利用其他IBD风险位点的发现;改进我们的信息学， 包括等位基因特异性分析;以及积累的新染色质免疫沉淀数据来重新定义 以前发现的关联（1）。目标2）更好地了解IBD的基因组机制， 最先进的基因组技术目标3）开发针对EBV的IBD新疗法， 特别是针对EBV的潜伏期III转化表达程序和Aim 4。测试的预测 IBD中EBV感染增加的病因学可能性，如果是这样，然后确定IBD的特征。 IBD亚群，其疾病与IBD的炎性病理学相关，可能患有自身免疫性UC。 该项目将确定EBV是否是某些IBD的合理病因，表征调控基因组， 研究人员正在研究风险位点的机制，并启动实验以寻找新的治疗方法来减少EBV对IBD的影响。