Small Non-Coding RNAome of Ageing Chondrocytes

P. Balaskas*, J.A. Green, T.M. Haqqi, P. Dyer, Y.A. Kharaz, Y.X. Fang, X. Liu, T.J. Welting, M.J. Peffers*

*Corresponding author for this work

Research output: Contribution to journalArticleAcademicpeer-review

12 Citations (Web of Science)

Abstract

Ageing is a leading risk factor predisposing cartilage to osteoarthritis. However, little research has been conducted on the effect of ageing on the expression of small non-coding RNAs (sncRNAs). RNA from young and old chondrocytes from macroscopically normal equine metacarpophalangeal joints was extracted and subjected to small RNA sequencing (RNA-seq). Differential expression analysis was performed in R using package DESeq2. For transfer RNA (tRNA) fragment analysis, tRNA reads were aligned to horse tRNA sequences using Bowtie2 version 2.2.5. Selected microRNA (miRNAs or miRs) and small nucleolar RNA (snoRNA) findings were validated using real-time quantitative Polymerase Chain Reaction (qRT-PCR) in an extended cohort of equine chondrocytes. tRNA fragments were further investigated in low- and high-grade OA human cartilage tissue. In total, 83 sncRNAs were differentially expressed between young and old equine chondrocytes, including miRNAs, snoRNAs, small nuclear RNAs (snRNAs), and tRNAs. qRT-PCR analysis confirmed findings. tRNA fragment analysis revealed that tRNA halves (tiRNAs), tiRNA-5035-GluCTC and tiRNA-5031-GluCTC-1 were reduced in both high grade OA human cartilage and old equine chondrocytes. For the first time, we have measured the effect of ageing on the expression of sncRNAs in equine chondrocytes. Changes were detected in a number of different sncRNA species. This study supports a role for sncRNAs in ageing cartilage and their potential involvement in age-related cartilage diseases.
Original languageEnglish
Article number5675
Number of pages22
JournalInternational Journal of Molecular Sciences
Volume21
Issue number16
DOIs
Publication statusPublished - 1 Aug 2020

Keywords

  • age
  • ageing
  • chondrocyte
  • database
  • equine
  • fragments trfs
  • gene-expression
  • human articular-cartilage
  • osteoarthritis
  • progression
  • senescence
  • small non-coding rna
  • small nucleolar rnas
  • snornas
  • SMALL NUCLEOLAR RNAS
  • GENE-EXPRESSION
  • OSTEOARTHRITIS
  • PROGRESSION
  • AGE
  • FRAGMENTS TRFS
  • HUMAN ARTICULAR-CARTILAGE
  • DATABASE
  • small non-coding RNA
  • SENESCENCE
  • SNORNAS

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