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| Status |
Public on Mar 10, 2023 |
| Title |
Time trajectory analysis reveals age-modulated small RNA cargo of circulating extracellular vesicles |
| Organism |
Mus musculus |
| Experiment type |
Non-coding RNA profiling by high throughput sequencing
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| Summary |
Previous work on murine models and humans demonstrated global as well as tissue-specific molecular ageing trajectories of RNAs. Extracellular vesicles (EVs) are membrane vesicles mediating the horizontal transfer of genetic information between different tissues. We sequenced small regulatory RNAs (sncRNAs) in two mouse plasma fractions at five time points across the lifespan from 2-18 months: (1) sncRNAs that are free-circulating (fc-RNA) and (2) sncRNAs bound outside or inside EVs (EV-RNA). Different sncRNA classes exhibit unique ageing patterns that vary between the fcRNA and EV-RNA fractions. While tRNAs showed the highest correlation with ageing in both fractions, rRNAs exhibited inverse correlation trajectories between the EV- and fc-fractions. For miRNAs, the EV-RNA fraction was exceptionally strongly associated with ageing, especially the miR-29 family in adipose tissues. Sequencing of sncRNAs and coding genes in fat tissue of an independent cohort of aged mice up to 27 months highlighted the pivotal role of miR-29a-3p and miR-29b-3p in ageing-related gene regulation that we validated in a third cohort by RT-qPCR.
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| Overall design |
The main aim of our study was to provide a data resource of small non-coding RNAs included in EV cargo and freely circulating in plasma (fc-RNAs) in mice of different ages and to identify differences between the molecular information in these fractions associated with ageing that might advance our understanding of the systemic ageing process. Therefore, plasma fc-RNA and EV-RNA of individual mice were sequenced for noncoding RNA profiling and contrasted by computational approaches. We initially conducted the EV-RNA and fc-RNA isolation workflow on 18 female C57BL/6N mice, 14 of which resulted in a sufficient amount of biological material. Overall, we thus generated non-coding RNA-sequencing samples from mice at the age of 2 months (n = 3; body weight (bw): 19-20 g), 6 months (n = 4; bw: 25-29 g), 8 months (n = 3; bw: 23-26 g), 12 months (n = 2; bw: 31 g) and 18 months (n = 2; bw: 34 & 41 g).
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| Contributor(s) |
Kern F, Kuhn T, Ludwig N, Simon M, Gröger L, Fabis N, Salhab A, Fehlmann T, Hahn O, Engel A, Koch M, Koehler J, Winek K, Soreq H, Nazarenko I, Fuhrmann G, Wyss-Coray T, Meese E, Keller V, Laschke MW, Keller A |
| Citation(s) |
37498213 |
| Submission date |
Jan 13, 2023 |
| Last update date |
Aug 22, 2023 |
| Contact name |
Fabian Michael Kern |
| Organization name |
Saarland University
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| Department |
Center for Bioinformatics
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| Lab |
Chair for Clinical Bioinformatics
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| Street address |
Campus E2 1
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| City |
Saarbrücken |
| State/province |
Saarland |
| ZIP/Postal code |
66123 |
| Country |
Germany |
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| Platforms (1) |
| GPL17021 |
Illumina HiSeq 2500 (Mus musculus) |
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| Samples (28)
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| Relations |
| BioProject |
PRJNA923662 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE222857_sncRNA_quantification_raw.tsv.gz |
1.9 Mb |
(ftp)(http) |
TSV |
| GSE222857_sncRNA_quantification_rpm_norm.tsv.gz |
3.0 Mb |
(ftp)(http) |
TSV |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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