Linkage and association analysis of obesity traits reveals novel loci and interactions with dietary n-3 fatty acids in an Alaska Native (Yup'ik) population

Laura Kelly Vaughan, Howard W. Wiener, Stella Aslibekyan, David B. Allison, Peter J Havel, Kimber Stanhope, Diane M. O'Brien, Scarlett E. Hopkins, Dominick J. Lemas, Bert B. Boyer, Hemant K. Tiwari

Research output: Contribution to journalArticle

11 Citations (Scopus)

Abstract

Objective To identify novel genetic markers of obesity-related traits and to identify gene-diet interactions with n-3 polyunsaturated fatty acid (n-3 PUFA) intake in Yup'ik people. Material and methods We measured body composition, plasma adipokines and ghrelin in 982 participants enrolled in the Center for Alaska Native Health Research (CANHR) Study. We conducted a genome-wide SNP linkage scan and targeted association analysis, fitting additional models to investigate putative gene-diet interactions. Finally, we performed bioinformatic analysis to uncover likely candidate genes within the identified linkage peaks. Results We observed evidence of linkage for all obesity-related traits, replicating previous results and identifying novel regions of interest for adiponectin (10q26.13-2) and thigh circumference (8q21.11-13). Bioinformatic analysis revealed DOCK1, PTPRE (10q26.13-2) and FABP4 (8q21.11-13) as putative candidate genes in the newly identified regions. Targeted SNP analysis under the linkage peaks identified associations between three SNPs and obesity-related traits: rs1007750 on chromosome 8 and thigh circumference (P = 0.0005), rs878953 on chromosome 5 and thigh skinfold (P = 0.0004), and rs1596854 on chromosome 11 for waist circumference (P = 0.0003). Finally, we showed that n-3 PUFA modified the association between obesity related traits and two additional variants (rs2048417 on chromosome 3 for adiponectin, P for interaction = 0.0006 and rs730414 on chromosome 11 for percentage body fat, P for interaction = 0.0004). Conclusions This study presents evidence of novel genomic regions and gene-diet interactions that may contribute to the pathophysiology of obesity-related traits among Yup'ik people.

Original languageEnglish (US)
Pages (from-to)689-697
Number of pages9
JournalMetabolism: Clinical and Experimental
Volume64
Issue number6
DOIs
StatePublished - Jun 1 2015

Fingerprint

Omega-3 Fatty Acids
Obesity
Thigh
Single Nucleotide Polymorphism
Chromosomes, Human, Pair 11
Population
Genes
Adiponectin
Diet
Computational Biology
Chromosomes, Human, Pair 8
Chromosomes, Human, Pair 5
Ghrelin
Adipokines
Chromosomes, Human, Pair 3
Waist Circumference
Body Composition
Genetic Markers
Adipose Tissue
Alaska Natives

Keywords

  • Alaska Native
  • Linkage
  • n-3 fatty acids
  • Obesity

ASJC Scopus subject areas

  • Endocrinology
  • Endocrinology, Diabetes and Metabolism

Cite this

Linkage and association analysis of obesity traits reveals novel loci and interactions with dietary n-3 fatty acids in an Alaska Native (Yup'ik) population. / Vaughan, Laura Kelly; Wiener, Howard W.; Aslibekyan, Stella; Allison, David B.; Havel, Peter J; Stanhope, Kimber; O'Brien, Diane M.; Hopkins, Scarlett E.; Lemas, Dominick J.; Boyer, Bert B.; Tiwari, Hemant K.

In: Metabolism: Clinical and Experimental, Vol. 64, No. 6, 01.06.2015, p. 689-697.

Research output: Contribution to journalArticle

Vaughan, LK, Wiener, HW, Aslibekyan, S, Allison, DB, Havel, PJ, Stanhope, K, O'Brien, DM, Hopkins, SE, Lemas, DJ, Boyer, BB & Tiwari, HK 2015, 'Linkage and association analysis of obesity traits reveals novel loci and interactions with dietary n-3 fatty acids in an Alaska Native (Yup'ik) population', Metabolism: Clinical and Experimental, vol. 64, no. 6, pp. 689-697. https://doi.org/10.1016/j.metabol.2015.02.008
Vaughan, Laura Kelly ; Wiener, Howard W. ; Aslibekyan, Stella ; Allison, David B. ; Havel, Peter J ; Stanhope, Kimber ; O'Brien, Diane M. ; Hopkins, Scarlett E. ; Lemas, Dominick J. ; Boyer, Bert B. ; Tiwari, Hemant K. / Linkage and association analysis of obesity traits reveals novel loci and interactions with dietary n-3 fatty acids in an Alaska Native (Yup'ik) population. In: Metabolism: Clinical and Experimental. 2015 ; Vol. 64, No. 6. pp. 689-697.
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abstract = "Objective To identify novel genetic markers of obesity-related traits and to identify gene-diet interactions with n-3 polyunsaturated fatty acid (n-3 PUFA) intake in Yup'ik people. Material and methods We measured body composition, plasma adipokines and ghrelin in 982 participants enrolled in the Center for Alaska Native Health Research (CANHR) Study. We conducted a genome-wide SNP linkage scan and targeted association analysis, fitting additional models to investigate putative gene-diet interactions. Finally, we performed bioinformatic analysis to uncover likely candidate genes within the identified linkage peaks. Results We observed evidence of linkage for all obesity-related traits, replicating previous results and identifying novel regions of interest for adiponectin (10q26.13-2) and thigh circumference (8q21.11-13). Bioinformatic analysis revealed DOCK1, PTPRE (10q26.13-2) and FABP4 (8q21.11-13) as putative candidate genes in the newly identified regions. Targeted SNP analysis under the linkage peaks identified associations between three SNPs and obesity-related traits: rs1007750 on chromosome 8 and thigh circumference (P = 0.0005), rs878953 on chromosome 5 and thigh skinfold (P = 0.0004), and rs1596854 on chromosome 11 for waist circumference (P = 0.0003). Finally, we showed that n-3 PUFA modified the association between obesity related traits and two additional variants (rs2048417 on chromosome 3 for adiponectin, P for interaction = 0.0006 and rs730414 on chromosome 11 for percentage body fat, P for interaction = 0.0004). Conclusions This study presents evidence of novel genomic regions and gene-diet interactions that may contribute to the pathophysiology of obesity-related traits among Yup'ik people.",
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AU - Vaughan, Laura Kelly

AU - Wiener, Howard W.

AU - Aslibekyan, Stella

AU - Allison, David B.

AU - Havel, Peter J

AU - Stanhope, Kimber

AU - O'Brien, Diane M.

AU - Hopkins, Scarlett E.

AU - Lemas, Dominick J.

AU - Boyer, Bert B.

AU - Tiwari, Hemant K.

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N2 - Objective To identify novel genetic markers of obesity-related traits and to identify gene-diet interactions with n-3 polyunsaturated fatty acid (n-3 PUFA) intake in Yup'ik people. Material and methods We measured body composition, plasma adipokines and ghrelin in 982 participants enrolled in the Center for Alaska Native Health Research (CANHR) Study. We conducted a genome-wide SNP linkage scan and targeted association analysis, fitting additional models to investigate putative gene-diet interactions. Finally, we performed bioinformatic analysis to uncover likely candidate genes within the identified linkage peaks. Results We observed evidence of linkage for all obesity-related traits, replicating previous results and identifying novel regions of interest for adiponectin (10q26.13-2) and thigh circumference (8q21.11-13). Bioinformatic analysis revealed DOCK1, PTPRE (10q26.13-2) and FABP4 (8q21.11-13) as putative candidate genes in the newly identified regions. Targeted SNP analysis under the linkage peaks identified associations between three SNPs and obesity-related traits: rs1007750 on chromosome 8 and thigh circumference (P = 0.0005), rs878953 on chromosome 5 and thigh skinfold (P = 0.0004), and rs1596854 on chromosome 11 for waist circumference (P = 0.0003). Finally, we showed that n-3 PUFA modified the association between obesity related traits and two additional variants (rs2048417 on chromosome 3 for adiponectin, P for interaction = 0.0006 and rs730414 on chromosome 11 for percentage body fat, P for interaction = 0.0004). Conclusions This study presents evidence of novel genomic regions and gene-diet interactions that may contribute to the pathophysiology of obesity-related traits among Yup'ik people.

AB - Objective To identify novel genetic markers of obesity-related traits and to identify gene-diet interactions with n-3 polyunsaturated fatty acid (n-3 PUFA) intake in Yup'ik people. Material and methods We measured body composition, plasma adipokines and ghrelin in 982 participants enrolled in the Center for Alaska Native Health Research (CANHR) Study. We conducted a genome-wide SNP linkage scan and targeted association analysis, fitting additional models to investigate putative gene-diet interactions. Finally, we performed bioinformatic analysis to uncover likely candidate genes within the identified linkage peaks. Results We observed evidence of linkage for all obesity-related traits, replicating previous results and identifying novel regions of interest for adiponectin (10q26.13-2) and thigh circumference (8q21.11-13). Bioinformatic analysis revealed DOCK1, PTPRE (10q26.13-2) and FABP4 (8q21.11-13) as putative candidate genes in the newly identified regions. Targeted SNP analysis under the linkage peaks identified associations between three SNPs and obesity-related traits: rs1007750 on chromosome 8 and thigh circumference (P = 0.0005), rs878953 on chromosome 5 and thigh skinfold (P = 0.0004), and rs1596854 on chromosome 11 for waist circumference (P = 0.0003). Finally, we showed that n-3 PUFA modified the association between obesity related traits and two additional variants (rs2048417 on chromosome 3 for adiponectin, P for interaction = 0.0006 and rs730414 on chromosome 11 for percentage body fat, P for interaction = 0.0004). Conclusions This study presents evidence of novel genomic regions and gene-diet interactions that may contribute to the pathophysiology of obesity-related traits among Yup'ik people.

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KW - Linkage

KW - n-3 fatty acids

KW - Obesity

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