摘要： 目的 利用ATAC-seq技术研究人骨髓间充质干细胞（hMSCs）成脂分化过程中染色质开放性的动态变化。方法 第6代人源hMSCs经成脂诱导剂分别刺激0 d、3 d、5 d和7 d。收集各组细胞，转座酶Tn5捕获DNA序列并测序，生物信息学分析各组间染色质开放区域数量分布、转录因子结合序列（motif）、邻近基因功能（GO）及相关信号通路（Pathway）。结果 在hMSCs成脂分化早期的不同时间点，细胞染色质开放区域数量发生显著动态变化；各组功能性区域Peak分布主要富集在转录起始点（TSS）附近；Motif分析显示各组细胞间参与转录调控的活化DNA序列发生改变；Peak邻近基因功能的GO分析结果显示，新增的染色质开放区域的生物过程主要集中在各种细胞黏附、血管生成以及细胞外基质生成等；而差异基因显著性富集通路主要集中在Rap1信号通路，PPAR信号通路等。结论 hMSCs成脂分化早期染色质开放区域出现显著动态变化，为进一步了解成脂分化的调控机制及寻找有效靶基因提供了新的思路。

ATAC-seq技术在间充质干细胞成脂分化早期研究中的应用

刘建云¹, 江和², 张杰², 马百成², 吴萍¹, 熊建军^1,2

1. 江西省系统生物医学重点实验室, 江西 九江 332000;
2. 九江学院医学院组织胚胎学与医学遗传学教研室, 江西 九江 332000

收稿日期:2020-07-01出版日期:2021-07-30发布日期:2021-06-24
通讯作者:熊建军E-mail:jcyx_xiongjianjun@jju.edu.cn
作者简介:刘建云(1980-),女,实验师,硕士研究生.
基金资助:国家自然科学基金（81860165）


关键词: 间充质干细胞, 转座酶和高通量测序的染色质分析, 脂肪分化
Abstract: Objective To study dynamic changes in chromatin accessibility during early stage adipogenic differentiation of mesenchymal stem cells (MSCs) using ATAC-Seq. Methods Sixth generation primary cultured MSCs were stimulated with an adipogenic cocktail for 0,3,5,or 7 days. Each group of cells was collected and lysed to extract DNA. Regions of open euchromatin were captured using Tn5 transposase and sequenced. Bioinformatics was used to analyze the numbers/distributions of open euchromatin regions,transcription factor binding motifs,functions of genes adjacent to open regions,and related signaling pathways. Results At different time points in early stage adipogenic differentiation,the number of open euchromatin areas changed significantly,and the peak distribution of each group was mainly concentrated near transcription start sites (TSS). Motif analysis showed that the activated DNA sequences involved in transcription regulation changed with time;GO analysis identified significant differences among groups. Biological processes associated with increasing open euchromatin included cell adhesion,angiogenesis,extracellular matrix organization,etc. In addition,involved pathways include the Rap1 and PPAR signaling pathways. Conclusion In early stage adipogenic differentiation,hMSCs undergo obvious dynamic changes in chromatin organization,providing new insights into the regulatory mechanisms of adipogenic differentiation,and identifying candidate target genes for manipulation of MSC adipogenic differentiation.
Key words: mesenchymal stem cells, assay for transposase-accessible chromatin using sequencing, adipogenic differentiation
PDF全文下载地址:

https://journal.cmu.edu.cn/CN/article/downloadArticleFile.do?attachType=PDF&id=2791