Characteristics of the tree shrew gut virome
Characteristics of the tree shrew gut virome
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DOI：
10.1371/journal.pone.0212774
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发表时间：
2019-02-26
期刊：
影响因子：
3.7
通讯作者：
Dai, Jiejie
中科院分区：
文献类型：
--
作者：
Chen, Linxia;Gu, Wenpeng;Dai, Jiejie
近年来，树鼩（Tupaia belangeri）被认为是生物医学研究中灵长类动物的替代实验动物。然而，树鼩肠道病毒的特征仍不清楚。本研究采用宏基因组分析方法对该动物粪便样本的肠道病毒组特征进行鉴定。结果显示，文库中有5.80%的序列与病毒参考数据库（NCBI非冗余核苷酸数据库、病毒蛋白数据库和ACLAME数据库）中的序列具有显著的相似性，并将这些序列进一步划分为Caudovirales（58.0%）、Picornavirales（16.0%）和Herpesvirales(6.0%) 3大目。尾病毒科以Siphoviridae（46.0%）、Myoviridae（45.0%）和Podoviridae（8.0%）为主。小核糖核酸病毒科（99.9%）和疱疹病毒科（99.0%）分别为小核糖核酸病毒科和疱疹病毒科的主要科。根据宿主类型和核酸分类，本研究所有相关病毒分为细菌噬菌体（61.83%）、动物特异性病毒（34.50%）、植物特异性病毒（0.09%）、昆虫特异性病毒（0.08%）和其他病毒（3.50%）。dsDNA病毒占51.13%，其次是ssRNA（33.51%）和ssDNA病毒（15.36%）。本研究初步了解了树鼩肠道病毒的群落结构，为今后树鼩病毒的研究奠定了基础。
The tree shrew (Tupaia belangeri) has been proposed as an alternative laboratory animal to primates in biomedical research in recent years. However, characteristics of the tree shrew gut virome remain unclear. In this study, the metagenomic analysis method was used to identify the features of gut virome from fecal samples of this animal. Results showed that 5.80% of sequence reads in the libraries exhibited significant similarity to sequences deposited in the viral reference database (NCBI non-redundant nucleotide databases, viral protein databases and ACLAME database), and these reads were further classified into three major orders: Caudovirales (58.0%), Picornavirales (16.0%), and Herpesvirales (6.0%). Siphoviridae (46.0%), Myoviridae (45.0%), and Podoviridae (8.0%) comprised most Caudovirales. Picornaviridae (99.9%) and Herpesviridae (99.0%) were the primary families of Picornavirales and Herpesvirales, respectively. According to the host types and nucleic acid classifications, all of the related viruses in this study were divided into bacterial phage (61.83%), animal-specific virus (34.50%), plant-specific virus (0.09%), insect-specific virus (0.08%) and other viruses (3.50%). The dsDNA virus accounted for 51.13% of the total, followed by ssRNA (33.51%) and ssDNA virus (15.36%). This study provides an initial understanding of the community structure of the gut virome of tree shrew and a baseline for future tree shrew virus investigation.