Integrating metagenomics and cultivation unveils oral phage diversity and potential impact on hosts.

IF 9.2 1区生物学 Q1 BIOTECHNOLOGY & APPLIED MICROBIOLOGY

npj Biofilms and Microbiomes Pub Date : 2025-07-26 DOI:10.1038/s41522-025-00773-z

Zhuye Jie, Hewei Liang, Yanzheng Meng, Jiahao Zhang, Tao Zhang, Wenxi Li, Xiaoqian Lin, Tongyuan Hu, Mo Han, Weiting Liang, Yanmei Ju, Xin Tong, Xin Jin, Xun Xu, Wenwei Zhang, Jian Wang, Huanming Yang, Karsten Kristiansen, Liang Xiao, Yuanqiang Zou

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Abstract

Bacteriophages play important roles in the regulation of bacterial communities and may thus impact human health. However, the scarcity of genomic data of oral microorganism has limited information on oral phages. We collected data on 5427 metagenomic samples and 2178 cultivated bacterial genomes across different geographical areas and populations, generating the Oral Phage Database (OPD), comprising 189,859 representative phage genome sequences, including 3416 huge phages (genome size > 200 kbp). OPD reveals that most oral viruses are unknown and encode an enormous variety of dark proteins. Numerous oral phages infecting a broad range of hosts carry anti-defense genes, auxiliary metabolic genes, and virulence factors that may affect bacterial metabolism and influence human health. The composition of oral phages varies among different populations, and several phages have the potential to act as biomarkers for disease. OPD expands our knowledge of phage-bacteria interactions, huge phages diversity, and potential impacts on human health.

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整合宏基因组学和培养揭示了口腔噬菌体多样性及其对宿主的潜在影响。

噬菌体在调节细菌群落中发挥重要作用，从而可能影响人类健康。然而，口腔微生物基因组数据的缺乏限制了对口腔噬菌体的了解。我们收集了来自不同地理区域和人群的5427个元基因组样本和2178个培养细菌基因组数据，建立了口腔噬菌体数据库（Oral Phage Database， OPD），包含189,859个代表性噬菌体基因组序列，其中包括3416个巨大噬菌体（基因组大小为> 200 kbp）。OPD显示，大多数口腔病毒是未知的，并编码各种各样的暗蛋白。大量感染广泛宿主的口腔噬菌体携带抗防御基因、辅助代谢基因以及可能影响细菌代谢和影响人类健康的毒力因子。口腔噬菌体的组成在不同的人群中有所不同，并且有几种噬菌体具有作为疾病生物标志物的潜力。OPD扩展了我们对噬菌体-细菌相互作用、巨大的噬菌体多样性以及对人类健康的潜在影响的认识。

本文章由计算机程序翻译，如有差异，请以英文原文为准。

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来源期刊

npj Biofilms and Microbiomes Immunology and Microbiology-Microbiology

CiteScore

12.10

自引率

3.30%

发文量

审稿时长

9 weeks

期刊介绍： npj Biofilms and Microbiomes is a comprehensive platform that promotes research on biofilms and microbiomes across various scientific disciplines. The journal facilitates cross-disciplinary discussions to enhance our understanding of the biology, ecology, and communal functions of biofilms, populations, and communities. It also focuses on applications in the medical, environmental, and engineering domains. The scope of the journal encompasses all aspects of the field, ranging from cell-cell communication and single cell interactions to the microbiomes of humans, animals, plants, and natural and built environments. The journal also welcomes research on the virome, phageome, mycome, and fungome. It publishes both applied science and theoretical work. As an open access and interdisciplinary journal, its primary goal is to publish significant scientific advancements in microbial biofilms and microbiomes. The journal enables discussions that span multiple disciplines and contributes to our understanding of the social behavior of microbial biofilm populations and communities, and their impact on life, human health, and the environment.