Microbiome Core

微生物组核心

基本信息

批准号：
9886189
负责人：
Julia S Oh
金额：
$ 14.18万
依托单位：
JACKSON LABORATORY
依托单位国家：
美国
项目类别：
财政年份：
资助国家：
美国
起止时间：
至
项目状态：
未结题

来源：
https://reporter.nih.gov/project-details/9886189
关键词：
16S ribosomal RNA sequencing Aerobic Algorithms Anaerobic Bacteria Antigens Bioinformatics Cell physiology Cells Characteristics Clinical Collaborations Computer Analysis Custom Data Databases Dendritic Cells Equilibrium Genes Genome Goals Human Immune Immune response Immunity Immunology Investigation Laboratories Length Libraries Literature Lung Lymphocyte Mediating Metagenomics Microbe Microfluidics Mining Molecular Motivation Mucous Membrane Oral Pathway interactions Patients Phenotype Process Research Personnel Research Project Grants Resolution Respiratory physiology Sampling Services Shapes Shotgun Sequencing Site Skin Specificity Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization Spectroscopy, Fourier Transform Infrared Structure of parenchyma of lung Surface System Technology The Jackson Laboratory Tissues Validation Variant Viral Virus Diseases base comparative genomics computational pipelines computer infrastructure cost dysbiosis experimental study genome sequencing gut microbiota human microbiota immune function immunoregulation in silico in vitro Assay innovation interest macrophage metagenome microbial microbial community microbial genomics microbiome microbiome analysis microbiota novel oral bacteria oral microbial community overexpression pathogen reconstruction response reverse genetics stem technology development whole genome

项目摘要

PROJECT SUMMARY MICROBIOME CORE The microbiome is a critical factor in educating both systemic as well as local immunity. Compartmentalized immune interactions with the resident flora have been identified at barrier tissues of the body, including the skin, gut, and lung. Each of these niches has different microbes and microbial community characteristics, which in turn uniquely shape and maintain innate and adaptive responses. In the lung, host immune responses to pathogen colonization—whether bacterial, fungal, or viral—are highly influenced by the local microbiota. A central hypothesis of this center is that the activity and specificity of the lung immune response can be amplified or diminished based on microbial configurations. Thus, to understand the milieu and activity of tissue-resident lung cells, including macrophages, lung dendritic cells, and lymphocytes, we must investigate the composition and functional interactions of the local microbiome with the host tissue. The central goal of the Microbiome Core is to enable discovery of mechanisms by which the microbiome influences lung immune function, as per the goals of The Jackson Laboratory Cooperative Center on Human Immunology (JAX CCHI). The Microbiome Core will be closely integrated with the Sample Core, providing sequence data, microbial cultivars, and computational analyses for both Research Projects and the Technology Development project. The Microbiome Core provides unique experimental and computational infrastructures that are not available as commodity services within or outside of The Jackson Laboratory. Key innovations that the Core brings to the JAX CCHI include: state-of-the-art metagenomic shotgun sequencing technologies and analyses at species- and strain-resolution; functional reconstructions; associative analyses with immune phenotypes; low-cost, microfluidics-based microbial isolate genome extraction; and MALDI (Matrix Assisted Laser Desorption/Ionization) technology for rapid assessment of strain identity and diversity. The application of these technologies to the goals of the JAX CCHI will be organized around three Specific Aims: AIM 1. Reconstruct microbial community composition from clinical samples at high resolution. AIM 2. Systematic cultivation of microbiota. AIM 3. Computational prediction of microbiome-immune interactions. Impact: The Core’s experimental and computational infrastructure will provide both the associative and mechanistic underpinnings for the CCHI’s central goals of understanding how the microbiome may modulate the lung’s immune response to viral perturbation.

项目摘要微生物组核心微生物组是教育系统性和局部免疫力的关键因素。分室化在包括皮肤在内的屏障组织中已经确定了与常驻菌群的免疫相互作用肠和肺。这些壁ni的每一个都有不同的微生物和微生物社区特征，这在转动独特的形状并保持先天和适应性的反应。在肺中，宿主免疫反应病原体定殖（包括细菌，真菌或病毒）受局部微生物群的影响很大。一个该中心的中心假设是肺免疫反应的活性和特异性可以是放大器或根据微生物配置减少。这是为了了解组织居民的环境和活动肺细胞，包括巨噬细胞，肺树突状细胞和淋巴细胞，我们必须研究组成局部微生物组与宿主组织的功能相互作用。微生物组核心的核心目标是实现微生物组的机制根据杰克逊实验室合作中心的目标，影响肺免疫功能免疫学（JAX CCHI）。微生物组核心将与样品核心密切集成，提供研究项目和技术的序列数据，微生物品种和计算分析开发项目。微生物组核心提供了独特的实验和计算基础架构在杰克逊实验室内部或外部没有作为商品服务。关键创新核心带来JAX CCHI包括：最先进的元基因组shot枪测序技术和物种和应变分析的分析；功能重建；免疫的联想分析表型；低成本，基于微流体的微生物分离株基因组提取；和Maldi（Matrix辅助）激光解吸/电离）技术，用于快速评估应变身份和多样性。应用这些技术达到JAX CCHI的目标将围绕三个具体目标组织： AIM 1。从高分辨率的临床样本中重建微生物群落组成。目标2。微生物群的系统培养。目标3。微生物 - 免疫相互作用的计算预测。影响：核心的实验和计算基础架构将提供关联和 CCHI了解微生物组如何调节的机械基础肺对病毒扰动的免疫反应。