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Host specificity and cophylogeny in the "animal-gut bacteria-phage" tripartite system

文献类型： 外文期刊

作者： Feng, Ye 1 ; Wei, Ruike 3 ; Chen, Qiuli 2 ; Shang, Tongyao 2 ; Zhou, Nihong 3 ; Wang, Zeyu 2 ; Chen, Yanping 4 ; Chen, Gongwen 3 ; Zhang, Guozhi 3 ; Dong, Kun 5 ; Zhong, Yihai 6 ; Zhao, Hongxia 7 ; Hu, Fuliang 3 ; Zheng, Huoqing 3 ;

作者机构： 1.Zhejiang Univ, Sir Run Run Shaw Hosp, Sch Med, Hangzhou, Peoples R China

2.Zhejiang Univ, Inst Translat Med, Sch Med, Hangzhou, Peoples R China

3.Zhejiang Univ, Coll Anim Sci, Hangzhou, Peoples R China

4.USDA ARS, Bee Res Lab, Beltsville, MD USA

5.Yunnan Agr Univ, Eastern Bee Res Inst, Coll Anim Sci & Technol, Kunming, Yunnan, Peoples R China

6.Chinese Acad Trop Agr Sci, Environm & Plant Protect Inst, Haikou, Hainan, Peoples R China

7.Guangdong Acad Sci, Inst Zool, Guangdong Key Lab Anim Conservat & Resource Utiliz, Guangdong Publ Lab Wild Anim Conservat & Utilizat, Guangzhou, Peoples R China

期刊名称：NPJ BIOFILMS AND MICROBIOMES （ 影响因子：9.2； 五年影响因子：9.9 ）

ISSN：

年卷期： 2024 年 10 卷 1 期

页码：

收录情况： SCI

摘要： Cophylogeny has been identified between gut bacteria and their animal host and is highly relevant to host health, but little research has extended to gut bacteriophages. Here we use bee model to investigate host specificity and cophylogeny in the "animal-gut bacteria-phage" tripartite system. Through metagenomic sequencing upon different bee species, the gut phageome revealed a more variable composition than the gut bacteriome. Nevertheless, the bacteriome and the phageome showed a significant association of their dissimilarity matrices, indicating a reciprocal interaction between the two kinds of communities. Most of the gut phages were host generalist at the viral cluster level but host specialist at the viral OTU level. While the dominant gut bacteria Gilliamella and Snodgrassella exhibited matched phylogeny with bee hosts, most of their phages showed a diminished level of cophylogeny. The evolutionary rates of the bee, the gut bacteria and the gut phages showed a remarkably increasing trend, including synonymous and non-synonymous substitution and gene content variation. For all of the three codiversified tripartite members, however, their genes under positive selection and genes involving gain/loss during evolution simultaneously enriched the functions into metabolism of nutrients, therefore highlighting the tripartite coevolution that results in an enhanced ecological fitness for the whole holobiont.

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