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Targeted Next-generation Sequencing and Bioinformatics Pipeline to Evaluate Genetic Determinants of Constitutional Disease
Published on: April 4, 2018
Genetic analysis identifies DDR2 as a novel gene affecting bone mineral density and osteoporotic fractures in Chinese
Yan Guo1, Tie-Lin Yang1, Shan-Shan Dong1
1Key Laboratory of Biomedical Information Engineering of Ministry of Education, and Institute of Molecular Genetics, School of Life Science and Technology, Xi'an Jiaotong University, Xi'an, Shaanxi, P. R. China.
Abstract:
DDR2 gene, playing an essential role in regulating osteoblast differentiation and chondrocyte maturation, may influence bone mineral density (BMD) and osteoporosis, but the genetic variations actually leading to the association remain to be elucidated. Therefore, the aim of this study was to investigate whether the genetic variants in DDR2 are associated with BMD and fracture risk. This study was performed in three samples from two ethnicities, including 1,300 Chinese Han subjects, 700 Chinese Han subjects (350 with osteoporotic hip fractures and 350 healthy controls) and 2,286 US white subjects. Twenty-eight SNPs in DDR2 were genotyped and tested for associations with hip BMD and fractures. We identified 3 SNPs in DDR2 significantly associated with hip BMD in the Chinese population after multiple testing adjustments, which were rs7521233 (P = 1.06×10-4, β: -0.018 for allele C), rs7553831 (P = 1.30×10-4, β: -0.018 for allele T), and rs6697469 (P = 1.59×10-3, β: -0.015 for allele C), separately. These three SNPs were in high linkage disequilibrium. Haplotype analyses detected two significantly associated haplotypes, including one haplotype in block 2 (P = 9.54×10-4, β: -0.016) where these three SNPs located. SNP rs6697469 was also associated with hip fractures (P = 0.043, OR: 1.42) in the Chinese population. The effect on fracture risk was consistent with its association with lower BMD. However, in the white population, we didn't observe significant associations with hip BMD. eQTL analyses revealed that SNPs associated with BMD also affected DDR2 mRNA expression levels in Chinese. Our findings, together with the prior biological evidence, suggest that DDR2 could be a new candidate for osteoporosis in Chinese population. Our results also reveal an ethnic difference, which highlights the need for further genetic studies in each ethnic group.
Insights
Genetic variations in the DDR2 gene are linked to bone mineral density (BMD) and osteoporosis risk in the Chinese population. These findings suggest DDR2 as a potential target for osteoporosis research, with observed ethnic differences warranting further investigation.
Area of Science:
- Genetics
- Bone Biology
- Osteoporosis Research
Background:
- The DDR2 gene plays a crucial role in bone cell differentiation and maturation.
- Genetic variations in DDR2 may influence bone mineral density (BMD) and osteoporosis susceptibility.
- Previous studies have not fully elucidated the specific genetic variants associated with these effects.
Purpose of the Study:
- To investigate the association between genetic variants in the DDR2 gene and BMD.
- To examine the relationship between DDR2 genetic variants and the risk of hip fractures.
- To explore potential ethnic differences in these associations.
Main Methods:
- Genotyping of 28 single nucleotide polymorphisms (SNPs) in the DDR2 gene.
- Association analyses were performed in three cohorts: 1,300 Chinese Han subjects, 700 Chinese Han subjects (including fracture cases and controls), and 2,286 US white subjects.
- Haplotype and expression quantitative trait loci (eQTL) analyses were conducted.
Main Results:
- Three DDR2 SNPs (rs7521233, rs7553831, rs6697469) were significantly associated with hip BMD in the Chinese population.
- SNP rs6697469 was also associated with an increased risk of hip fractures in Chinese individuals.
- No significant associations with hip BMD were observed in the US white population.
- eQTL analyses indicated that BMD-associated SNPs influenced DDR2 mRNA expression in Chinese subjects.
Conclusions:
- The DDR2 gene is a potential candidate gene for osteoporosis in the Chinese population.
- Genetic variants in DDR2 are associated with BMD and fracture risk in Chinese individuals.
- Significant ethnic differences exist in the association between DDR2 variants and BMD, highlighting the need for ethnicity-specific genetic studies.
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