Microbiome Core

微生物核心项目总结 微生物组是培养全身和局部免疫力的关键因素。划分 与常驻植物群的免疫相互作用已经在身体的屏障组织，包括皮肤， 内脏和肺这些生态位中的每一个都具有不同的微生物和微生物群落特征， 独特地形成和维持先天和适应性反应。在肺中，宿主对 病原体定殖--无论是细菌、真菌还是病毒--都受到当地微生物群的高度影响。一 该中心的中心假设是肺免疫应答的活性和特异性可以被放大 或者根据微生物的结构而减少。因此，为了了解组织驻留的环境和活动， 肺细胞，包括巨噬细胞，肺树突状细胞和淋巴细胞，我们必须研究其组成 以及局部微生物组与宿主组织的功能相互作用。 微生物组核心的中心目标是能够发现微生物组 影响肺免疫功能，根据杰克逊实验室合作中心的目标， 免疫学（JAX CCHI）。微生物组核心将与样本核心紧密结合， 研究项目和技术的序列数据、微生物品种和计算分析 发展项目。微生物组核心提供独特的实验和计算基础设施， 不得作为商品服务在杰克逊实验室内外提供。关键创新， 为JAX CCHI带来的核心包括：最先进的宏基因组鸟枪测序技术和 种属和菌株解析分析;功能重建;免疫关联分析 表型;低成本，基于微流体的微生物分离物基因组提取;和MALDI（基质辅助 激光解吸/电离）技术，用于快速评估菌株身份和多样性。的应用 这些技术与JAX CCHI目标的关系将围绕三个具体目标进行组织： AIM 1.以高分辨率重建临床样品中的微生物群落组成。 AIM 2.微生物群的系统培养。 AIM 3.微生物组-免疫相互作用的计算预测。 影响：核心的实验和计算基础设施将提供相关和 CCHI的中心目标是了解微生物组如何调节微生物， 肺部对病毒干扰的免疫反应

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.