Unknown

Dataset Information

0

Small Non-Coding RNAome of Ageing Chondrocytes.


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.

SUBMITTER: Balaskas P 

PROVIDER: S-EPMC7461137 | biostudies-literature | 2020 Aug

REPOSITORIES: biostudies-literature

altmetric image

Publications

Small Non-Coding RNAome of Ageing Chondrocytes.

Balaskas Panagiotis P   Green Jonathan A JA   Haqqi Tariq M TM   Dyer Philip P   Kharaz Yalda A YA   Fang Yongxiang Y   Liu Xuan X   Welting Tim J M TJM   Peffers Mandy J MJ  

International journal of molecular sciences 20200807 16


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  ...[more]

Similar Datasets

| S-EPMC8128755 | biostudies-literature
2019-10-28 | GSE131174 | GEO
2017-12-12 | E-MTAB-4878 | biostudies-arrayexpress
| S-EPMC6226517 | biostudies-literature
| S-EPMC7011423 | biostudies-literature
| S-EPMC9045488 | biostudies-literature
| PRJNA542815 | ENA
| S-EPMC5647052 | biostudies-literature
| S-EPMC3932949 | biostudies-literature
| S-EPMC6248440 | biostudies-literature