Format

Send to

Choose Destination
Hum Genet. 2019 Jul 24. doi: 10.1007/s00439-019-02049-x. [Epub ahead of print]

Ancestry-specific polygenic scores and SNP heritability of 25(OH)D in African- and European-ancestry populations.

Author information

1
Department of Population Health Sciences, University of Wisconsin-Madison School of Medicine and Public Health, Madison, WI, 53706, USA. khatchell@geisinger.edu.
2
Department of Biostatistics and Medical Informatics, University of Wisconsin-Madison School of Medicine and Public Health, Madison, WI, 53706, USA.
3
Center for Human Genetics, Marshfield Clinic Research Institute, Marshfield, WI, 54449, USA.
4
Ciccarone Center for the Prevention of Cardiovascular Disease, Johns Hopkins University School of Medicine, Baltimore, MD, 21287, USA.
5
USDA/ARS Children's Nutrition Research Center, Baylor College of Medicine, Houston, TX, 77030, USA.
6
Department of Population Health Sciences, University of Wisconsin-Madison School of Medicine and Public Health, Madison, WI, 53706, USA.

Abstract

Vitamin D inadequacy, assessed by 25-hydroxyvitamin D [25(OH)D], affects around 50% of adults in the United States and is associated with numerous adverse health outcomes. Blood 25(OH)D concentrations are influenced by genetic factors that may determine how much vitamin D intake is required to reach optimal 25(OH)D. Despite large genome-wide association studies (GWASs), only a small portion of the genetic factors contributing to differences in 25(OH)D has been discovered. Therefore, knowledge of a fuller set of genetic factors could be useful for risk prediction of 25(OH)D inadequacy, personalized vitamin D supplementation, and prevention of downstream morbidity and mortality. Using PRSice and weights from published African- and European-ancestry GWAS summary statistics, ancestry-specific polygenic scores (PGSs) were created to capture a more complete set of genetic factors in those of European (n = 9569) or African ancestry (n = 2761) from three cohort studies. The PGS for African ancestry was derived using all input SNPs (a p value cutoff of 1.0) and had an R2 of 0.3%; for European ancestry, the optimal PGS used a p value cutoff of 3.5 × 10-4 in the target/tuning dataset and had an R2 of 1.0% in the validation cohort. Those with highest genetic risk had 25(OH)D that was 2.8-3.0 ng/mL lower than those with lowest genetic risk (p = 0.0463-3.2 × 10-13), requiring an additional 467-500 IU of vitamin D intake to maintain equivalent 25(OH)D. PGSs are a powerful predictive tool that could be leveraged for personalized vitamin D supplementation to prevent the negative downstream effects of 25(OH)D inadequacy.

PMID:
31342140
DOI:
10.1007/s00439-019-02049-x

Grant support

Grant support

Supplemental Content

Full text links

Icon for Springer
Loading ...
Support Center