Pseudotime Ordering Single-Cell Transcriptomic ofβCells Pancreatic Islets in Health and Type 2 Diabetes  

作　　者：Kaixuan Bao Zhicheng Cui Hui Wang Hui Xiao Ting Li Xingxing Kong Tiemin Liu 

机构地区：[1]Human Phenome Institute,Fudan University,825 Zhangheng Road,Shanghai 201203,China [2]State Key Laboratory of Genetic Engineering,School of Life Sciences,and Collaborative Innovation Center for Genetics and Development,Fudan University,Shanghai 200438,China [3]Shanghai Key Laboratory of Metabolic Remodeling and Health,Institute of Metabolism and Integrative Biology,Fudan University,Shanghai 200433,China [4]Department of Endocrinology and Metabolism,Zhongshan Hospital,Fudan University,Shanghai 200032,China

出　　处：《Phenomics》2021年第5期199-210,共12页表型组学（英文）

基　　金：supported by the National Key R&D Program of China(2019YFA0801900,2018YFA0800300);the National Natural Science Foundation of China(31971074);the Science and Technology Innovation Action Plan of Shanghai Science and Technology Committee(18140901300);the Open Research Fund of the National key laboratory of genetic engineering(SKLGE1803);the Shanghai Municipal Science and Technology Major Project(2017SHZDZX01);Shanghai Frontiers Science Research Base of Exercise and Metabolic Health.

摘　　要：βcells are defined by the ability to produce and secret insulin.Recent studies have evaluated that human pancreaticβcells are heterogeneous and demonstrated the transcript alterations ofβcell subpopulation in diabetes.Single-cell RNA sequence(scRNA-seq)analysis helps us to refine the cell types signatures and understand the role of theβcells during metabolic challenges and diseases.Here,we construct the pseudotime trajectory ofβcells from publicly available scRNA-seq data in health and type 2 diabetes(T2D)based on highly dispersed and highly expressed genes using Monocle2.We identified three major states including 1)Normal branch,2)Obesity-like branch and 3)T2D-like branch based on biomarker genes and genes that give rise to bifurcation in the trajectory.βcell function-maintain-related genes,insulin expression-related genes,and T2D-related genes enriched in three branches,respectively.Continuous pseudotime spectrum might suggest thatβcells transition among different states.The application of pseudotime analysis is conducted to clarify the different cell states,providing novel insights into the pathology ofβcells in T2D.

关 键 词：Single-cell RNA seq ISLETS βcell Pseudotime T2D 

分 类 号：R73[医药卫生—肿瘤]