Systems Biology of Glycosylation

糖基化的系统生物学

基本信息

批准号：
8885874
负责人：
SRIRAM NEELAMEGHAM
金额：
$ 51.81万
依托单位：
STATE UNIVERSITY OF NEW YORK AT BUFFALO
依托单位国家：
美国
项目类别：
财政年份：
2011
资助国家：
美国
起止时间：
2011-09-05 至 2017-06-30
项目状态：
已结题

来源：
https://reporter.nih.gov/project-details/8885874
关键词：
Adhesions Adoptive Transfer Agreement Anabolism Animal Model Assimilations Binding Biochemical Process Biological Assay Biomedical Engineering Blood Blood Cells Blood Circulation Blood Vessels Bone Marrow Bone Marrow Cells Cardiovascular Diseases Cell Adhesion Cell Adhesion Molecules Cell Line Cells Chronic Obstructive Airway Disease Code Collaborations Computer Simulation Cytometry Data Development Disease Endothelial Cells Environment Enzymes Experimental Models Family Flow Cytometry Gene Expression Gene Silencing Genes Glycobiology Glycolipids Glycoproteins Glycosaminoglycans Glycosyltransferase Gene Golgi Apparatus Greater sac of peritoneum HL60 Hematopoietic Home environment Human Human Development Human Resources Immunity Immunology In Vitro Inflammation Inflammatory Language Leukocytes Ligands Link Lipids Liquid substance Literature Marrow Mass Spectrum Analysis Measurement Measures Metabolic Methodology Modeling Modification Mus Nature Outcome P-Selectin P-selectin ligand protein Pathway interactions Peptides Peritonitis Physiological Play Polysaccharides Post-Translational Protein Processing Postdoctoral Fellow Process Property Proteins Proteomics Reaction Research Research Personnel Role Schedule Selectins Sialyltransferases Site Staging Stem cells Structure Structure of parenchyma of lung Study models Subfamily lentivirinae Substrate Specificity System Systems Biology Testing Time TimeLine Tissues Transferase Validation Vascular Endothelial Cell Vertebral column Western Blotting Work base carbohydrate structure cell motility computer generated computerized tools design enzyme activity galactoside 3-fucosyltransferase glycosylation glycosyltransferase improved in vivo knock-down mathematical model migration model development mouse model novel programs research study screening signal processing simulation small hairpin RNA stem sugar tandem mass spectrometry theories tool

项目摘要

DESCRIPTION (provided by applicant): Glycosylation is an important post-translational modification of proteins and lipids. This process controls cell recognition and signaling processes that regulate human development, immunity and disease. The current proposal aims to develop Systems Biology based computational and experimental methodologies to enhance our understanding of cellular glycosylation pathways. In particular, our focus is on better understanding the features that regulate the formation of O-linked glycans on human leukocytes. By binding adhesion molecules belonging to the selecting family, these O-glycans play a critical role in regulating leukocyte adhesion to vascular endothelial cells that line blood vessel walls at sites of inflammation and cardiovascular disease. Our overall hypothesis is that "In silico modeling of glycosylation reaction networks can identify rate limiting steps that control the formation of selectin-ligands on human leukocytes. Defined and specific perturbation of these rate-limiting steps can reduce leukocyte-endothelial cell adhesion/migration in vivo during inflammation." The specific aims are: 1) to develop computational models to predict the rate-limiting steps that control cellular glycosylation. 2) To quantify the role of selected glycosyltransferases and the peptide backbone in regulating O-linked glycosylation and leukocyte selecting-binding function. 3) To test the effect of silencing glycosyltransferases on leukocyte retention in the bone marrow, and cell migration to sites of inflammation. The project involves collaboration between investigators with expertise in Systems Biology based modeling, quantitative bioengineering experimentation, proteomics, glycobiology, immunology and animal models. Experimental studies span multiple scales from genes, to proteins/enzymes, to carbohydrate structure and cell adhesion function, both in vitro and in vivo. The computer modeling integrates this information to determine the effect of system perturbation on glycan structure and function. Expected project outcomes include: I) Definition of a new standard called GlycoML for the description of glycosylation reaction networks. ii) Combined use of experiment and theory to reveal potential intra-cellular/metabolic targets of glycosylation that can quantitatively and definitively alter selectin-ligand structures. iii) Definition of the precise a (2, 3)sialyltransferase(s) and a (1, 3) fucosyltransferases(s) that regulate selectin-ligand biosynthesis in human leukocytes. iv) Improved understanding of the role of the peptide backbone in regulating O-glycosylation chain initiation, extension and termination. v) Validation in animal models of inflammation, peritonitis and COPD (chronic obstructive pulmonary disease), key hypothesis generated using computer simulation and ex vivo experimentation.

描述（由申请人提供）：糖基化是蛋白质和脂质的重要后翻译后修饰。该过程控制了调节人类发育，免疫和疾病的细胞识别和信号传导过程。当前的建议旨在开发基于系统生物学的计算方法和实验方法，以增强我们对细胞糖基化途径的理解。特别是，我们的重点是更好地理解调节人类白细胞中O连锁聚糖形成的特征。通过结合属于选择家族的粘附分子，这些O-聚糖在调节白细胞粘附到血管内皮细胞的粘附方面起着关键作用，该血管内皮细胞在炎症部位和心血管疾病部位排列血管壁。我们的总体假设是：“在糖基化反应网络的硅基化模型中，可以识别速率限制步骤，以控制人类白细胞上选择蛋白 - 凸素的形成。在体内的体内，这些速率限制步骤的定义和特定扰动可以减少白细胞 - 内皮细胞粘附/迁移。”具体目的是：1）开发计算模型，以预测控制细胞糖基化的速率限制步骤。 2）量化选定的糖基转移酶和肽骨架在调节O连接糖基化和白细胞选择结合功能中的作用。 3）测试沉默的糖基转移酶对骨髓中白细胞保留的影响，以及细胞迁移到炎症部位。该项目涉及在基于系统生物学的建模，定量生物工程实验，蛋白质组学，糖生物学，免疫学和动物模型方面具有专业知识的研究人员之间的合作。实验研究跨越了从基因到蛋白质/酶，再到碳水化合物结构和细胞粘附功能的多个尺度，包括体外和体内。计算机建模集成了此信息，以确定系统扰动对聚糖结构和功能的影响。预期的项目结果包括：i）用于描述糖基化反应网络的新标准的定义称为GlyComl。 ii）结合实验和理论的结合使用，以揭示可以定量和确定地改变选择素 - 配体结构的糖基化的潜在细胞内/代谢靶标。 iii）定义精确的A（2，3）辅助转移酶（S）和A（1，3）的岩藻糖基转移酶（S）（S）调节人类白细胞中选择蛋白 - 配体生物合成的定义。 iv）提高了对肽主链在调节O-糖基化链开始，扩展和终止中的作用的理解。 v）在炎症，腹膜炎和COPD（慢性阻塞性肺疾病）的动物模型中，使用计算机模拟和离体实验产生的关键假设。