Identification and Characterization of the Intra-Articular Microbiome in the Osteoarthritic Knee.

International Journal of Molecular Sciences
Joseph C TsaiEric Y Chang

Abstract

Osteoarthritis (OA) is the most common joint disorder in the United States, and the gut microbiome has recently emerged as a potential etiologic factor in OA development. Recent studies have shown that a microbiome is present at joint synovia. Therefore, we aimed to characterize the intra-articular microbiome within osteoarthritic synovia and to illustrate its role in OA disease progression. RNA-sequencing data from OA patient synovial tissue was aligned to a library of microbial reference genomes to identify microbial reads indicative of microbial abundance. Microbial abundance data of OA and normal samples was compared to identify differentially abundant microbes. We computationally explored the correlation of differentially abundant microbes to immunological gene signatures, immune signaling pathways, and immune cell infiltration. We found that microbes correlated to OA are related to dysregulation of two main functional pathways: increased inflammation-induced extracellular matrix remodeling and decreased cell signaling pathways crucial for joint and immune function. We also confirmed that the differentially abundant and biologically relevant microbes we had identified were not contaminants. Collectively, our findings contr...Continue Reading

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Citations

Apr 4, 2021·International Journal of Molecular Sciences·Elena RezuşCiprian Rezuş

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Datasets Mentioned

BETA
GSE89408

Methods Mentioned

BETA
GTPase
biopsy
biopsies
RNA-seq

Software Mentioned

GSEA
STAR aligner
Cytoscape ReactomeFIViz
Bowtie2
Htseq
PathoScope
Gene Set Enrichment Analysis ( GSEA ) Gene Co - expression Net...
WGCNA
FastQC

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