数字农科院2.0

ESKtides: a comprehensive database and mining method for ESKAPE phage-derived antimicrobial peptides

文献类型： 外文期刊

作者： Wu, Hongfang;Chen, Rongxian;Li, Xuejian;Zhang, Yue;Zhang, Jianwei;Yang, Yanbo;Wan, Jun;Zhou, Yang;Chen, Huanchun;Li, Jinquan;Li, Runze;Zou, Geng

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期刊名称： DATABASE-THE JOURNAL OF BIOLOGICAL DATABASES AND CURATION

ISSN： 1758-0463

年卷期： 2024 年 2024 卷

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收录情况： SCIE（2024版）

摘要： 'Superbugs' have received increasing attention from researchers, such as ESKAPE bacteria (Enterococcus faecium, Staphylococcus aureus, Klebsiella pneumoniae, Acinetobacter baumannii, Pseudomonas aeruginosa and Enterobacter spp.), which directly led to about 1 270 000 death cases in 2019. Recently, phage peptidoglycan hydrolases (PGHs)-derived antimicrobial peptides were proposed as new antibacterial agents against multidrug-resistant bacteria. However, there is still a lack of methods for mining antimicrobial peptides based on phages or phage PGHs. Here, by using a collection of 6809 genomes of ESKAPE isolates and corresponding phages in public databases, based on a unified annotation process of all the genomes, PGHs were systematically identified, from which peptides were mined. As a result, a total of 12 067 248 peptides with high antibacterial activities were respectively determined. A user-friendly tool was developed to predict the phage PGHs-derived antimicrobial peptides from customized genomes, which also allows the calculation of peptide phylogeny, physicochemical properties, and secondary structure. Finally, a user-friendly and intuitive database, ESKtides (http://www.phageonehealth.cn:9000/ESKtides), was designed for data browsing, searching and downloading, which provides a rich peptide library based on ESKAPE prophages and phages.Database URL: 10.1093/database/baae022

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