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

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.

SUBMITTER: Hatchell KE

PROVIDER: S-EPMC7041489 | biostudies-literature | 2019 Oct

REPOSITORIES: biostudies-literature

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

Hatchell Kathryn E KE Lu Qiongshi Q Hebbring Scott J SJ Michos Erin D ED Wood Alexis C AC Engelman Corinne D CD

Human genetics 20190724 10

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 ...[more]

PMID: 31342140

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

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

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