Integrative microbiome-metabolomics identifies Pseudomonas as a potential pathogenic factor in endometriosis

Xiaodong Lü, Xinyang Lu, Yue Yang, Yifang Peng, Runrong Li, Christine Chen, Chuxi Chen, Yarui Luo, Yetong Jiang, Mohan Xu, Maosen Xu, Zhizhang Wang, Fanliang Meng
Genomics · 2025 · vol. 117(6) , pp. 111149 · doi:10.1016/j.ygeno.2025.111149 · PMID:41176097 · W4415706417
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Integrative microbiome-metabolomics analysis identified Pseudomonas enrichment in pelvic washings as a potential pathogenic factor in endometriosis, correlating with disease severity and offering targets for non-hormonal therapies.

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Abstract

Endometriosis (EMS) is a chronic disease characterized by unclear etiology, influenced by various genetic and environmental factors, with no definitive biomarkers available for early screening. Recent studies suggest that the abdominal microbiome and its metabolites, shaped by the host's genetic composition and environmental exposures, play significant roles in the pathogenesis and regulation of EMS. This study aims to integrate microbiome and metabolomics analyses to identify bacteria and metabolites critical to the progression of EMS. Multi–omics characterization was performed on pelvic cavity washings (PCW) from 7 EMS patients and 8 matched controls using 16S rRNA gene sequencing and liquid chromatography-mass spectrometry (LC–MS). A validation cohort of 42 EMS patients and 42 controls was assessed for clinical measures. Metabolomics revealed 7 metabolites across 12 metabolic pathways, with three uniquely distinguished in the endometriosis group. Microbial diversity analysis identified 2471 operational taxonomic units (OTUs), showing significant compositional disparities between groups. Notably, Pseudomonas enrichment in PCW was associated with advanced disease progression, especially in stage III and IV EMS, characterized by extensive pelvic adhesions and larger lesion sizes. Our findings highlight Pseudomonas as a potential biomarker for EMS severity, advancing the understanding of its pathogenesis and offering promising implications for non-hormonal therapeutic strategies. Comprehensive analyses show significant interactions between Pseudomonas and its metabolite guanylate in endometriosis patients. Increased Pseudomonas levels correlate with larger lesions and more severe pelvic adhesions, suggesting it may serve as a biomarker and potential driver of disease severity, informing new preventive strategies and non-hormonal treatments. • Integrated microbiome-metabolomics analysis identifies Pseudomonas enrichment in pelvic cavity washings as a potential pathogenic factor in endometriosis (EMS). • Elevated Pseudomonas abundance correlates with larger lesion size, severe pelvic adhesions, and advanced EMS stages (III and IV). • Key metabolites associated with Pseudomonas, including guanine and linolenic acid, serve as promising molecular biomarkers for EMS severity. • Through relevant basic experiments using clinical samples, Pseudomonas is validated as a potential dynamic biomarker and driver of disease progression. • Findings provide a foundation for novel non-hormonal therapeutic strategies targeting microbiome-metabolome interactions in EMS.

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Condition tags

mesh:D004715endometriosis

MeSH descriptors

Endometriosis Endometriosis Endometriosis Endometriosis Endometriosis Endometriosis Endometriosis Endometriosis Endometriosis Endometriosis Endometriosis Endometriosis Endometriosis Endometriosis Endometriosis Endometriosis Endometriosis Endometriosis Endometriosis Endometriosis

Citation neighborhood

Papers in the corpus that this work cites (lower rings, blue) and that cite this one (upper rings, green). Dot size scales with the paper's in-corpus citation count — bigger dot = more influential within the endo/adeno field. Click a dot to open that paper. [ expand to 2 hops ] — adds papers reached through this work's immediate citers/citees. Heavier; up to 60 extra dots.

References (44)

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