西藏小型猪多组织组蛋白修饰谱研究  

Profiling of histone modifications in different tissues of the Tibet minipig

作　　者：陈娜 刘闻 秦锐 于欣鑫 顾为望 高飞 CHEN Na;LIU Wen;QIN Rui;YU Xinxin;GU Weiwang;GAO Fei(Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen 518116, China;Laboratory Animal Center, Southern Medical University, Guangzhou 510515;Pearl Lab Animal Sci & Tech Co., Ltd., Dongguan 523808)

机构地区：[1]中国农业科学院深圳农业基因组研究所,广东深圳518116 [2]南方医科大学实验动物中心,广州510515 [3]东莞松山湖明珠实验动物科技有限公司,广东东莞523808

出　　处：《中国比较医学杂志》2019年第5期17-22,共6页Chinese Journal of Comparative Medicine

基　　金：中国农业科学院科技创新工程

摘　　要：目的对西藏小型猪全基因组范围内的组蛋白修饰位点进行注释,并比较不同组织间组蛋白修饰的差异。方法取三月龄的雄性非同胎西藏小型猪两只,分别取其血液、肝、小肠(回肠段)和背最长肌的组织样本,进行染色质免疫共沉淀实验,捕获DNA片段进行高通量测序。下机数据经过滤后比对到参考基因组上,并使用MACS软件统计reads在基因组上的富集情况。结果不同组蛋白在基因启动子区域分布的偏好位置不同,分布规律大致分为两类,一类如H3K4me3组蛋白修饰主要分布在转录起始位点附近的两侧,并在距离TSS较近的下游位置出现一个宽度较窄的明显的峰值,另一类如H3K9me3组蛋白修饰在整个启动子区域内分布较为平均,整体呈现出中间低两边高的宽峰形状;组织特异性组蛋白修饰影响的基因存在差异,对应的功能通路比较广泛,但都参与了RNA聚合酶II启动子的转录调控。结论本研究提供了西藏小型猪四种组织的组蛋白修饰注释数据,为今后以西藏小型猪为生物医学模型的转录调控研究提供了基础数据。Objective To perform a genome-wide histone modification profiling of Tibet minipigs and to compare with the differences in histone modifications in different tissues. Methods Tissue samples of blood, liver, ileum, and muscle of two three-month-old male Tibet minipigs were collected and used for chromatin immunoprecipitation sequencing. Through quality control, raw data were filtered and compared with the reference genome, then we used MACS software to enrich clean reads in the genome. Results The enrichment positions of different histone modifications differed in the gene promoter region, and the distribution patterns were roughly divided into two types. One type, H3K4me3, was mainly distributed on both sides near the transcription start site, exhibiting a peak with a narrow range at the downstream position.The second type, H3K9me3, was distributed more evenly throughout the gene promoter, exhibiting a broad peak shape with a low middle and two high sides. Genes affected by the tissue-specific histone modifications differed, and the corresponding functional pathways were relatively extensive, but they were all involved in the transcriptional regulation of the RNA polymerase II promoter. Conclusions Our study provides a dataset of histone modification annotations for four types of different tissues of Tibet minipigs, which will serve as a foundation for future studies using transcriptional regulation of the Tibet minipig as a biomedical animal model.

关 键 词：西藏小型猪 动物模型 CHIP-SEQ 组蛋白修饰 

分 类 号：R-33[医药卫生]