Integrating multi-omics data to reveal the host-microbiota interactome in inflammatory bowel disease.

IF 11 1区医学 Q1 GASTROENTEROLOGY & HEPATOLOGY Gut Microbes Pub Date : 2025-12-01 Epub Date: 2025-03-10 DOI:10.1080/19490976.2025.2476570

Fengyuan Su, Meng Su, Wenting Wei, Jiayun Wu, Leyan Chen, Xiqiao Sun, Moyan Liu, Shiqiang Sun, Ren Mao, Arno R Bourgonje, Shixian Hu

{"title":"Integrating multi-omics data to reveal the host-microbiota interactome in inflammatory bowel disease.","authors":"Fengyuan Su, Meng Su, Wenting Wei, Jiayun Wu, Leyan Chen, Xiqiao Sun, Moyan Liu, Shiqiang Sun, Ren Mao, Arno R Bourgonje, Shixian Hu","doi":"10.1080/19490976.2025.2476570","DOIUrl":null,"url":null,"abstract":"Numerous studies have accelerated the knowledge expansion on the role of gut microbiota in inflammatory bowel disease (IBD). However, the precise mechanisms behind host-microbe cross-talk remain largely undefined, due to the complexity of the human intestinal ecosystem and multiple external factors. In this review, we introduce the interactome concept to systematically summarize how intestinal dysbiosis is involved in IBD pathogenesis in terms of microbial composition, functionality, genomic structure, transcriptional activity, and downstream proteins and metabolites. Meanwhile, this review also aims to present an updated overview of the relevant mechanisms, high-throughput multi-omics methodologies, different types of multi-omics cohort resources, and computational methods used to understand host-microbiota interactions in the context of IBD. Finally, we discuss the challenges pertaining to the integration of multi-omics data in order to reveal host-microbiota cross-talk and offer insights into relevant future research directions.","PeriodicalId":12909,"journal":{"name":"Gut Microbes","volume":"17 1","pages":"2476570"},"PeriodicalIF":11.0000,"publicationDate":"2025-12-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11901428/pdf/","citationCount":"0","resultStr":null,"platform":"Semanticscholar","paperid":null,"PeriodicalName":"Gut Microbes","FirstCategoryId":"3","ListUrlMain":"https://doi.org/10.1080/19490976.2025.2476570","RegionNum":1,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"2025/3/10 0:00:00","PubModel":"Epub","JCR":"Q1","JCRName":"GASTROENTEROLOGY & HEPATOLOGY","Score":null,"Total":0}

引用次数: 0

Abstract

Numerous studies have accelerated the knowledge expansion on the role of gut microbiota in inflammatory bowel disease (IBD). However, the precise mechanisms behind host-microbe cross-talk remain largely undefined, due to the complexity of the human intestinal ecosystem and multiple external factors. In this review, we introduce the interactome concept to systematically summarize how intestinal dysbiosis is involved in IBD pathogenesis in terms of microbial composition, functionality, genomic structure, transcriptional activity, and downstream proteins and metabolites. Meanwhile, this review also aims to present an updated overview of the relevant mechanisms, high-throughput multi-omics methodologies, different types of multi-omics cohort resources, and computational methods used to understand host-microbiota interactions in the context of IBD. Finally, we discuss the challenges pertaining to the integration of multi-omics data in order to reveal host-microbiota cross-talk and offer insights into relevant future research directions.

Abstract Image

查看原文

微信好友朋友圈 QQ好友复制链接

本刊更多论文

整合多组学数据，揭示炎症性肠病中宿主-微生物群相互作用组。

大量的研究加速了对肠道微生物群在炎症性肠病（IBD）中的作用的认识扩展。然而，由于人类肠道生态系统的复杂性和多种外部因素，宿主-微生物串扰背后的确切机制在很大程度上仍未明确。在这篇综述中，我们引入相互作用组的概念，从微生物组成、功能、基因组结构、转录活性、下游蛋白和代谢物等方面系统地总结肠道生态失调如何参与IBD的发病过程。同时，本综述还旨在介绍IBD相关机制、高通量多组学方法、不同类型的多组学队列资源以及用于了解宿主-微生物群相互作用的计算方法的最新概述。最后，我们讨论了与多组学数据整合相关的挑战，以揭示宿主-微生物群串扰，并为相关的未来研究方向提供见解。

本文章由计算机程序翻译，如有差异，请以英文原文为准。

求助全文

约1分钟内获得全文去求助

来源期刊

Gut Microbes Medicine-Microbiology (medical)

CiteScore

18.20

自引率

3.30%

发文量

196

审稿时长

10 weeks

期刊介绍： The intestinal microbiota plays a crucial role in human physiology, influencing various aspects of health and disease such as nutrition, obesity, brain function, allergic responses, immunity, inflammatory bowel disease, irritable bowel syndrome, cancer development, cardiac disease, liver disease, and more. Gut Microbes serves as a platform for showcasing and discussing state-of-the-art research related to the microorganisms present in the intestine. The journal emphasizes mechanistic and cause-and-effect studies. Additionally, it has a counterpart, Gut Microbes Reports, which places a greater focus on emerging topics and comparative and incremental studies.