Linkage and association analysis of circulating vitamin D and parathyroid hormone identifies novel loci in Alaska native Yup’ik people

Stella Aslibekyan, Laura K. Vaughan, Howard W. Wiener, Bertha A. Hidalgo, Dominick J. Lemas, Diane M. O’Brien, Scarlett E. Hopkins, Kimber Stanhope, Peter J Havel, Kenneth E. Thummel, Bert B. Boyer, Hemant K. Tiwar

Research output: Contribution to journalArticle

1 Citation (Scopus)

Abstract

Background Vitamin D deficiency is a well-documented public health issue with both genetic and environmental determinants. Populations living at far northern latitudes are vulnerable to vitamin D deficiency and its health sequelae, although consumption of traditional native dietary pattern rich in fish and marine mammals may buffer the effects of reduced sunlight exposure. To date, few studies have investigated the genetics of vitamin D metabolism in circumpolar populations or considered genediet interactions with fish and n-3 fatty acid intake. Methods We searched for genomic regions exhibiting linkage and association with circulating levels of vitamin D and parathyroid hormone (PTH) in 982 Yup’ik individuals from the Center for Alaska Native Health Research Study. We also investigated potential interactions between genetic variants and a biomarker of traditional dietary intake, the δ15N value. Results We identified several novel regions linked with circulating vitamin D and PTH as well as replicated a previous linkage finding on 2p16.2 for vitamin D. Bioinformatic analysis revealed multiple candidate genes for both PTH and vitamin D, including CUBN, MGAT3, and NFKBIA. Targeted association analysis identified NEBL as a candidate gene for vitamin D and FNDC3B for PTH. We observed significant associations between a variant in MXD1 and vitamin D only when an interaction with the δ15N value was included. Finally, we integrated pathway level information to illustrate the biological validity of the proposed candidate genes. Conclusion We provide evidence of linkage between several biologically plausible genomic regions and vitamin D metabolism in a circumpolar population. Additionally, these findings suggest that a traditional dietary pattern may modulate genetic effects on circulating vitamin D.

Original languageEnglish (US)
Article number23
JournalGenes and Nutrition
Volume11
Issue number1
DOIs
StatePublished - Aug 2 2016

Fingerprint

Parathyroid Hormone
Vitamin D
Vitamin D Deficiency
Fishes
Population
Genes
Alaska Natives
Sunlight
Health
Omega-3 Fatty Acids
Computational Biology
Mammals
Buffers
Public Health
Biomarkers
Research

Keywords

  • Alaska native
  • Linkage
  • N-3 fatty acids
  • Parathyroid hormone
  • Vitamin D

ASJC Scopus subject areas

  • Endocrinology, Diabetes and Metabolism
  • Genetics

Cite this

Aslibekyan, S., Vaughan, L. K., Wiener, H. W., Hidalgo, B. A., Lemas, D. J., O’Brien, D. M., ... Tiwar, H. K. (2016). Linkage and association analysis of circulating vitamin D and parathyroid hormone identifies novel loci in Alaska native Yup’ik people. Genes and Nutrition, 11(1), [23]. https://doi.org/10.1186/s12263-016-0538-y

Linkage and association analysis of circulating vitamin D and parathyroid hormone identifies novel loci in Alaska native Yup’ik people. / Aslibekyan, Stella; Vaughan, Laura K.; Wiener, Howard W.; Hidalgo, Bertha A.; Lemas, Dominick J.; O’Brien, Diane M.; Hopkins, Scarlett E.; Stanhope, Kimber; Havel, Peter J; Thummel, Kenneth E.; Boyer, Bert B.; Tiwar, Hemant K.

In: Genes and Nutrition, Vol. 11, No. 1, 23, 02.08.2016.

Research output: Contribution to journalArticle

Aslibekyan, S, Vaughan, LK, Wiener, HW, Hidalgo, BA, Lemas, DJ, O’Brien, DM, Hopkins, SE, Stanhope, K, Havel, PJ, Thummel, KE, Boyer, BB & Tiwar, HK 2016, 'Linkage and association analysis of circulating vitamin D and parathyroid hormone identifies novel loci in Alaska native Yup’ik people', Genes and Nutrition, vol. 11, no. 1, 23. https://doi.org/10.1186/s12263-016-0538-y
Aslibekyan, Stella ; Vaughan, Laura K. ; Wiener, Howard W. ; Hidalgo, Bertha A. ; Lemas, Dominick J. ; O’Brien, Diane M. ; Hopkins, Scarlett E. ; Stanhope, Kimber ; Havel, Peter J ; Thummel, Kenneth E. ; Boyer, Bert B. ; Tiwar, Hemant K. / Linkage and association analysis of circulating vitamin D and parathyroid hormone identifies novel loci in Alaska native Yup’ik people. In: Genes and Nutrition. 2016 ; Vol. 11, No. 1.
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abstract = "Background Vitamin D deficiency is a well-documented public health issue with both genetic and environmental determinants. Populations living at far northern latitudes are vulnerable to vitamin D deficiency and its health sequelae, although consumption of traditional native dietary pattern rich in fish and marine mammals may buffer the effects of reduced sunlight exposure. To date, few studies have investigated the genetics of vitamin D metabolism in circumpolar populations or considered genediet interactions with fish and n-3 fatty acid intake. Methods We searched for genomic regions exhibiting linkage and association with circulating levels of vitamin D and parathyroid hormone (PTH) in 982 Yup’ik individuals from the Center for Alaska Native Health Research Study. We also investigated potential interactions between genetic variants and a biomarker of traditional dietary intake, the δ15N value. Results We identified several novel regions linked with circulating vitamin D and PTH as well as replicated a previous linkage finding on 2p16.2 for vitamin D. Bioinformatic analysis revealed multiple candidate genes for both PTH and vitamin D, including CUBN, MGAT3, and NFKBIA. Targeted association analysis identified NEBL as a candidate gene for vitamin D and FNDC3B for PTH. We observed significant associations between a variant in MXD1 and vitamin D only when an interaction with the δ15N value was included. Finally, we integrated pathway level information to illustrate the biological validity of the proposed candidate genes. Conclusion We provide evidence of linkage between several biologically plausible genomic regions and vitamin D metabolism in a circumpolar population. Additionally, these findings suggest that a traditional dietary pattern may modulate genetic effects on circulating vitamin D.",
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AU - Hidalgo, Bertha A.

AU - Lemas, Dominick J.

AU - O’Brien, Diane M.

AU - Hopkins, Scarlett E.

AU - Stanhope, Kimber

AU - Havel, Peter J

AU - Thummel, Kenneth E.

AU - Boyer, Bert B.

AU - Tiwar, Hemant K.

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N2 - Background Vitamin D deficiency is a well-documented public health issue with both genetic and environmental determinants. Populations living at far northern latitudes are vulnerable to vitamin D deficiency and its health sequelae, although consumption of traditional native dietary pattern rich in fish and marine mammals may buffer the effects of reduced sunlight exposure. To date, few studies have investigated the genetics of vitamin D metabolism in circumpolar populations or considered genediet interactions with fish and n-3 fatty acid intake. Methods We searched for genomic regions exhibiting linkage and association with circulating levels of vitamin D and parathyroid hormone (PTH) in 982 Yup’ik individuals from the Center for Alaska Native Health Research Study. We also investigated potential interactions between genetic variants and a biomarker of traditional dietary intake, the δ15N value. Results We identified several novel regions linked with circulating vitamin D and PTH as well as replicated a previous linkage finding on 2p16.2 for vitamin D. Bioinformatic analysis revealed multiple candidate genes for both PTH and vitamin D, including CUBN, MGAT3, and NFKBIA. Targeted association analysis identified NEBL as a candidate gene for vitamin D and FNDC3B for PTH. We observed significant associations between a variant in MXD1 and vitamin D only when an interaction with the δ15N value was included. Finally, we integrated pathway level information to illustrate the biological validity of the proposed candidate genes. Conclusion We provide evidence of linkage between several biologically plausible genomic regions and vitamin D metabolism in a circumpolar population. Additionally, these findings suggest that a traditional dietary pattern may modulate genetic effects on circulating vitamin D.

AB - Background Vitamin D deficiency is a well-documented public health issue with both genetic and environmental determinants. Populations living at far northern latitudes are vulnerable to vitamin D deficiency and its health sequelae, although consumption of traditional native dietary pattern rich in fish and marine mammals may buffer the effects of reduced sunlight exposure. To date, few studies have investigated the genetics of vitamin D metabolism in circumpolar populations or considered genediet interactions with fish and n-3 fatty acid intake. Methods We searched for genomic regions exhibiting linkage and association with circulating levels of vitamin D and parathyroid hormone (PTH) in 982 Yup’ik individuals from the Center for Alaska Native Health Research Study. We also investigated potential interactions between genetic variants and a biomarker of traditional dietary intake, the δ15N value. Results We identified several novel regions linked with circulating vitamin D and PTH as well as replicated a previous linkage finding on 2p16.2 for vitamin D. Bioinformatic analysis revealed multiple candidate genes for both PTH and vitamin D, including CUBN, MGAT3, and NFKBIA. Targeted association analysis identified NEBL as a candidate gene for vitamin D and FNDC3B for PTH. We observed significant associations between a variant in MXD1 and vitamin D only when an interaction with the δ15N value was included. Finally, we integrated pathway level information to illustrate the biological validity of the proposed candidate genes. Conclusion We provide evidence of linkage between several biologically plausible genomic regions and vitamin D metabolism in a circumpolar population. Additionally, these findings suggest that a traditional dietary pattern may modulate genetic effects on circulating vitamin D.

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