Summary
Objective
In cartilage, the osteoarthritis (OA) associated single nucleotide polymorphism (SNP) rs11780978 correlates with differential expression of
PLEC
, and with differential methylation of
PLEC
CpG dinucleotides, forming eQTLs and mQTLs respectively. This implies that methylation links chondrocyte genotype and phenotype, thus driving the functional effect of this genetic risk signal.
PLEC
encodes plectin, a cytoskeletal protein that enables tissues to respond to mechanical forces. We sought to assess whether these
PLEC
functional effects were cartilage specific.
Method
Cartilage, fat pad, synovium and peripheral blood were collected from patients undergoing arthroplasty.
PLEC
CpGs were analysed for mQTLs and allelic expression imbalance (AEI) was performed to test for eQTLs. Plectin was knocked down in a mesenchymal stem cell (MSC) line using CRISPR/Cas9 and cells phenotyped by RNA-sequencing.
Results
mQTLs were discovered in fat pad, synovium and blood. Their effects were however stronger in the joint tissues and of comparable effect between these tissues. We observed AEI in synovium in the same direction as for cartilage and correlations between methylation and
PLEC
expression. Knocking-down plectin impacted on pathways reported to have a role in OA, including Wnt signalling, glycosaminoglycan biosynthesis and immune regulation.
Conclusions
Synovium is also a target of the rs11780978 OA association functionally operating on
PLEC
. In fat pad, mQTLs were identified but these did not correlate with
PLEC
expression, suggesting the functional effect is not joint-wide. Our study highlights interplay between genetic risk, DNA methylation and gene expression in OA, and reveals clear differences between tissues from the same diseased joint.