Genomic data of the Chinese tree shrew (Tupaia chinensis)

Chinese tree shrews (Tupaia belangeri chinensis) possess many features valuable in animals used as experimental models in biomedical research. Currently, there are numerous attempts to employ tree shrews as models for a variety of human disorders: depression, myopia, hepatitis B and C virus infections, and hepatocellular carcinoma, to name a few. Here we present a publicly available annotated genome sequence for the Chinese tree shrew. Phylogenomic analysis of the tree shrew and other mammalians highly support its close affinity to primates. DNA form the tree shrew was collected in Yunnan, China. We sequenced the 3.2 Gb genome to a depth of approximately 79.2x with short reads from a series of libraries with various insert sizes ( 170bp, 500bp, 800bp, 2kb, 5kb, 10kb, 20kb and 40kb).The assembled scaffolds of high quality sequences total 253.5 Gb, with the contig and scaffold N50 values of 22 kb and 3.65 Mb respectively. We identified 22,063 protein-coding genes. Experimental procedures and animal care were conducted in strict accordance with guidelines approved by the RIKEN Animal Experiments Committee (Approval IDs H14-23 and H16-10).

中国树鼩（Chinese tree shrew，学名Tupaia belangeri chinensis）具备诸多适用于生物医学研究实验动物模型的优良特性。目前，已有诸多研究尝试将树鼩作为多种人类疾病的动物模型，例如抑郁症、近视、乙型及丙型肝炎病毒感染、肝细胞癌等。本研究公开了中国树鼩的注释版基因组序列。通过对树鼩与其他哺乳动物的系统基因组学分析，有力证实了树鼩与灵长类具有紧密的亲缘关系。研究所用树鼩的DNA采集自中国云南省。我们采用一系列不同插入片段长度（170bp、500bp、800bp、2kb、5kb、10kb、20kb及40kb）的文库的短读长测序数据，对3.2 Gb的树鼩基因组进行了约79.2倍的测序覆盖。经组装的高质量序列支架总长度达253.5 Gb，重叠群（contig）与支架（scaffold）的N50值分别为22 kb与3.65 Mb。本研究共注释得到22063个蛋白质编码基因。本研究的实验操作与动物护理流程严格遵循了理化学研究所（RIKEN）动物实验委员会批准的指南（批准编号：H14-23与H16-10）。