时间标签：数据日期 2026-11-05 · 生成时间 2026-11-05 05:30（Asia/Shanghai）｜ 检索窗口 PubMed edat 2026/11/02 – 2026/11/06 ｜ 情报发生日期 2026-11-05
研究问题
Determining whether predicted pathways are expressed and contribute to host-associated phenotypes requires integration with transcriptomic, proteomic, metabolomic, spatial, and experimental evidence.The term “microbial dark matter” therefore describes an important knowledge gap rather than a predefined group of pathogenic or beneficial organisms.；By placing microbial dark matter within an evidence-based ecological and mechanistic framework, we aim to clarify both its potential contribution to obesity and the limitations that currently constrain translational application.2Emerging evidence for the potential metabolic functions of uncultured microorganismsConventional microbiological studies have preferentially characterized organisms that can be readily cultivated and experimentally manipulated.；However, these predictions require functional validation to determine whether specific uncultured populations actively contribute to obesity-associated metabolic phenotypes.3Multi-omics integration for functional attribution and causal hypothesis generationWhile single-omics approaches provide valuable insights, they face intrinsic limitations in comprehensively capturing the functional dynamics of complex intestinal ecosystems, particularly regarding uncultured microbial populations.
方法
At the same time, the rapid expansion of reference genome collections and metagenomic sequencing has demonstrated that uncultured or poorly characterized organisms can be investigated without requiring immediate isolation in pure culture (Zou et al., 2019; Pasolli et al., 2019; Kim et al., 2022).；Advanced cultivation systems can recreate selected aspects of the intestinal environment and may enable the recovery of previously inaccessible organisms (Jung et al., 2025); Metagenomic and long-read sequencing, together with improved assembly and binning strategies, can recover genomes from uncultured populations and provide estimates of their metabolic potential (Zou et al., 2019; Pasolli et al., 2019; Kim et al., 2022).；Current microbiome research increasingly combines 16S profiling, shotgun metagenomics, metatranscriptomics, metabolomics, single-cell sequencing, and spatial omics (Kumar et al., 2023).
核心结论
Increasing evidence indicates that the gut microbiome contributes to this complex network by influencing nutrient processing, immune homeostasis, metabolite production, and host signaling (Hall et al., 2017; Harley and Karp, 2012; Zhao, 2013).；At the same time, the rapid expansion of reference genome collections and metagenomic sequencing has demonstrated that uncultured or poorly characterized organisms can be investigated without requiring immediate isolation in pure culture (Zou et al., 2019; Pasolli et al., 2019; Kim et al., 2022).；However, genomic potential should not be equated with demonstrated physiological activity.
局限
However, genomic potential should not be equated with demonstrated physiological activity.；Each approach provides a different layer of information but also introduces specific limitations in taxonomic resolution, functional attribution, temporal interpretation, metabolite assignment, or spatial resolution (Rehner et al., 2025; Shen et al., 2025; Dell'olio et al., 2024).；Importantly, however, multi-omics integration should be viewed as a framework for functional attribution and mechanistic hypothesis generation rather than as a stand-alone method for establishing causality.Accordingly, the major challenge is not merely to expand the catalog of uncultured taxa, but to determine which populations encode, express, and causally mediate obesity-relevant functions.
对本项目的价值
中高价值：属「微生物组及其代谢物干预」方向；微生物组及其代谢物干预栏目可用作本项目文献库与综述素材。 ｜ 价值分 3.1/5（★★★☆☆）
全文来源
PubMed PMC JATS（正文 51,584 字符，题名指纹 0.95，已过 PubMed PMCID 官方关联 + 题名指纹 + 正文长度归属校验）
原文题录
- 中文题名：照亮肥胖中的微生物暗物质：整合多组学刻画未培养类群及其与宿主通路的代谢串扰
- 英文标题：Illuminating the microbial 'dark matter' in obesity: integrated multi-omics approaches to characterize uncultured taxa and their potential metabolic crosstalk with host pathways.
- 期刊与标识：Frontiers in microbiology · PMID 42979151 · DOI 10.3389/fmicb.2026.1940402 · PMC PMC13729799