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Isolation and Profiling of MicroRNA-containing Exosomes from Human Bile
Published on: June 13, 2016
Stabilization of Urinary MicroRNAs by Association with Exosomes and Argonaute 2 Protein
Cristina Beltrami1, Aled Clayton2, Lucy J Newbury3
1Department of Nephrology, Wales Kidney Research Unit, School of Medicine, College of Biomedical and Life Sciences, Cardiff University, Heath Park, Cardiff CF14 4XN, UK. c.beltrami@bristol.ac.uk.
Abstract:
A pressing need for new chronic kidney disease (CKD) biomarkers persists. MicroRNAs (miRNAs) are emerging as a novel class of disease biomarkers in body fluids, but mechanisms conferring their stability in urine have not been fully elucidated. Here we investigated stabilization in human urine of ubiquitously expressed miR-16, and miR-192, which we have shown previously to be downregulated in renal fibrosis, by association with extracellular vesicles and with argonaute protein (AGO) 2. Endogenous urinary miR-16 was significantly more resistant to RNase-mediated degradation than exogenous, spiked-in, Caenorhabditis elegans cel-miR-39. We used our previously optimized high-resolution exosome isolation protocol with sucrose gradient ultracentrifugation to sub-fractionate the primary extracellular vesicle-rich urinary pellet. MiR-16 and miR-192 were enriched in exosomal sucrose gradient fractions, but were also detected in all other fractions. This suggested association of urinary miRNAs with other urinary extracellular vesicles and/or pellet components, complicating previous estimates of miRNA:exosome stoichiometry. Proteinase K digestion destabilized urinary miR-16 and we showed, for the first time, RNA-immunoprecipitation of urinary miR-16:AGO2 and miR-192:AGO2 complexes. Association with exosomes and AGO2 stabilized urinary miR-16 and miR-192, suggesting quantitative urinary miRNA analysis has the potential to identify novel, non-invasive CKD biomarkers.
Insights
Urinary microRNAs (miRNAs) show stability through association with extracellular vesicles and Argonaute protein 2 (AGO2). This finding supports the potential for using urinary miRNAs as novel, non-invasive biomarkers for chronic kidney disease (CKD).
Area of Science:
- Biochemistry
- Molecular Biology
- Urology
Background:
- Chronic kidney disease (CKD) lacks sufficient non-invasive biomarkers.
- MicroRNAs (miRNAs) are promising biomarkers found in body fluids, but their urinary stability mechanisms are unclear.
Purpose of the Study:
- To investigate the stabilization mechanisms of urinary miR-16 and miR-192.
- To determine the role of extracellular vesicles (EVs) and Argonaute protein 2 (AGO2) in urinary miRNA stability.
Main Methods:
- Assessed RNase resistance of endogenous and exogenous miRNAs.
- Utilized sucrose gradient ultracentrifugation for EV sub-fractionation.
- Performed proteinase K digestion and RNA-immunoprecipitation (RIP) to identify miRNA-protein complexes.
Main Results:
- Endogenous urinary miR-16 exhibited greater RNase resistance than exogenous cel-miR-39.
- miR-16 and miR-192 were enriched in exosomal fractions but also found in other urinary pellet components.
- Proteinase K digestion destabilized urinary miR-16, and RIP confirmed miR-16:AGO2 and miR-192:AGO2 complexes.
Conclusions:
- Association with EVs and AGO2 stabilizes urinary miR-16 and miR-192.
- Urinary miRNA stability is influenced by multiple interactions.
- Quantitative urinary miRNA analysis holds potential for identifying novel, non-invasive CKD biomarkers.
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