肠道微生物基因数据库v2.0：肠道微生物及其代谢产物靶基因的更新综合数据库

gutMGene v2.0: an updated comprehensive database for target genes of gut microbes and microbial metabolites.

作者信息

Qi Changlu, He Guoyou, Qian Kai, Guan Siyuan, Li Zhaohai, Liang Shuang, Liu Juntao, Ke Xianzhe, Zhang Sainan, Lu Minke, Cheng Liang, Zhang Xue

机构信息

College of Bioinformatics Science and Technology, Harbin Medical University, Harbin, Heilongjiang 150081, China.

School of Basic Medical Sciences, Harbin Medical University, Harbin, Heilongjiang 150081, China.

出版信息

Nucleic Acids Res. 2025 Jan 6;53(D1):D783-D788. doi: 10.1093/nar/gkae1002.

DOI:10.1093/nar/gkae1002

PMID:39475181

原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC11701569/

Abstract

The gut microbiota is essential for various physiological functions in the host, primarily through the metabolites it produces. To support researchers in uncovering how gut microbiota contributes to host homeostasis, we launched the gutMGene database in 2022. In this updated version, we conducted an extensive review of previous papers and incorporated new papers to extract associations among gut microbes, their metabolites, and host genes, carefully classifying these as causal or correlational. Additionally, we performed metabolic reconstructions for representative gut microbial genomes from both human and mouse. gutMGene v2.0 features an upgraded web interface, providing users with improved accessibility and functionality. This upgraded version is freely available at http://bio-computing.hrbmu.edu.cn/gutmgene. We believe that this new version will greatly advance research in the gut microbiota field by offering a comprehensive resource.

摘要

肠道微生物群对宿主的各种生理功能至关重要，主要是通过其产生的代谢物来实现。为了支持研究人员揭示肠道微生物群如何促进宿主内稳态，我们在2022年推出了gutMGene数据库。在这个更新版本中，我们对以前的论文进行了广泛回顾，并纳入了新的论文，以提取肠道微生物、其代谢物和宿主基因之间的关联，并仔细将这些关联分类为因果关系或相关关系。此外，我们对来自人类和小鼠的代表性肠道微生物基因组进行了代谢重建。gutMGene v2.0具有升级的网络界面，为用户提供了更高的可访问性和功能。这个升级版本可在http://bio-computing.hrbmu.edu.cn/gutmgene免费获取。我们相信，这个新版本将通过提供全面的资源极大地推动肠道微生物群领域的研究。