Genome-wide identification of mA-associated SNPs as potential functional variants for bone mineral density.

UNLABELLED

This study investigated the effect of the N-methyladenosine (mA)-associated SNPs on bone mineral density (BMD) and found plenty of mA-SNPs that were associated with BMD. This study increases our understanding on the regulation patterns of SNP and may provide new clues for further detection of functional mechanism underlying the associations between SNPs and osteoporosis.

INTRODUCTION

mA plays critical roles in many fundamental biological processes and a variety of diseases. The mA-associated SNPs may be potential functional variants for BMD. The aim of this study was to investigate the effect of the genome-wide mA-SNPs on BMD.

METHODS

We examined the association of mA-SNPs with femoral neck (FN) and lumbar spine (LS) BMD in 32,961 individuals and quantitative heel ultrasounds (eBMD) in 142,487 individuals. Furthermore, we performed expression quantitative trait locus (eQTL) analyses for the mA-SNPs using whole genome data of about 10.5 million SNPs and 21,323 mRNAs from 43 Chinese individuals, as well as public available data. Differential expression analyses were also performed to support the identified genes.

RESULTS

We found 138, 125, and 993 mA-SNPs which were associated with FN-BMD, LS-BMD, and eBMD (P < 0.05), respectively. The associations of rs11614913 (P = 8.92 × 10) in MIR196A2 and rs1110720 (P = 2.05 × 10) in ESPL1 with LS-BMD reached the genome-wide significance level. In addition, a total of 24 mA-SNPs were significantly associated with eBMD (P < 5.0 × 10). Further eQTL analyses showed that 47 of these BMD-associated mA-SNPs were associated with expressions of the 46 corresponding local genes. Moreover, the expressions of 26 of these genes were associated with BMD.

CONCLUSION

The present study represents the first effort of investigating the associations and the mechanisms underlying the link between mA-SNPs and BMD. The results suggested that mA-SNP may play important roles in the pathology of osteoporosis.