title: Single nucleotide polymorphisms in CETP, SLC46A1, SLC19A1, CD36, BCMO1, APOA5, and ABCA1 are significant predictors of plasma HDL in healthy adults.
abstract: BACKGROUND
  In a marker-trait association study we estimated the statistical significance of 65 single nucleotide polymorphisms (SNP) in 23 candidate genes on HDL levels of two independent Caucasian populations. Each population consisted of men and women and their HDL levels were adjusted for gender and body weight. We used a linear regression model. Selected genes corresponded to folate metabolism, vitamins B-12, A, and E, and cholesterol pathways or lipid metabolism.
  
  
  METHODS
  Extracted DNA from both the Sacramento and Beltsville populations was analyzed using an allele discrimination assay with a MALDI-TOF mass spectrometry platform. The adjusted phenotype, y, was HDL levels adjusted for gender and body weight only statistical analyses were performed using the genotype association and regression modules from the SNP Variation Suite v7.
  
  
  RESULTS
  Statistically significant SNP (where P values were adjusted for false discovery rate) included: CETP (rs7499892 and rs5882); SLC46A1 (rs37514694; rs739439); SLC19A1 (rs3788199); CD36 (rs3211956); BCMO1 (rs6564851), APOA5 (rs662799), and ABCA1 (rs4149267). Many prior association trends of the SNP with HDL were replicated in our cross-validation study. Significantly, the association of SNP in folate transporters (SLC46A1 rs37514694 and rs739439; SLC19A1 rs3788199) with HDL was identified in our study.
  
  
  CONCLUSIONS
  Given recent literature on the role of niacin in the biogenesis of HDL, focus on status and metabolism of B-vitamins and metabolites of eccentric cleavage of β-carotene with lipid metabolism is exciting for future study.
authors: Department of Nutrition, University of California, One Shields Avenue, Davis, CA 95616, USA. ajclifford@ucdavis.edu
authors: Andrew J
authors: AJ
authors: Clifford
authors: Gonzalo
authors: G
authors: Rincon
authors: Janel E
authors: JE
authors: Owens
authors: Juan F
authors: JF
authors: Medrano
authors: Alanna J
authors: AJ
authors: Moshfegh
authors: David J
authors: DJ
authors: Baer
authors: Janet A
authors: JA
authors: Novotny
mesh_terms: D064286:ATP Binding Cassette Transporter 1 / Q000235:genetics; D000328:Adult; D000368:Aged; D000072040:Apolipoprotein A-V; D001054:Apolipoproteins A / Q000235:genetics; D018955:CD36 Antigens / Q000235:genetics; D002784:Cholesterol / Q000097:blood*; D053480:Cholesterol Ester Transfer Proteins / Q000235:genetics; D005260:Female; D058972:Folic Acid Transporters / Q000235:genetics*; D056726:Genetic Association Studies; D006801:Humans; D008075:Lipoproteins, HDL / Q000097:blood* / Q000235:genetics; D008297:Male; D008875:Middle Aged; D020641:Polymorphism, Single Nucleotide; D011379:Prognosis; D058979:Proton-Coupled Folate Transporter / Q000235:genetics; D058978:Reduced Folate Carrier Protein / Q000235:genetics; D050559:beta-Carotene 15,15'-Monooxygenase / Q000235:genetics
chemical_list: C577836:ABCA1 protein, human; C437704:APOA5 protein, human; D064286:ATP Binding Cassette Transporter 1; D000072040:Apolipoprotein A-V; D001054:Apolipoproteins A; D018955:CD36 Antigens; C506642:CETP protein, human; D053480:Cholesterol Ester Transfer Proteins; D058972:Folic Acid Transporters; D008075:Lipoproteins, HDL; D058979:Proton-Coupled Folate Transporter; D058978:Reduced Folate Carrier Protein; C548699:SLC19A1 protein, human; C505058:SLC46A1 protein, human; D002784:Cholesterol; C493358:BCO1 protein, human; D050559:beta-Carotene 15,15'-Monooxygenase
references: Nat Chem Biol. 2012 Feb 19;8(4):342-9
references: 22344176
references: J Lipid Res. 2012 May;53(5):941-950
references: 22389325
references: J Lipid Res. 2012 May;53(5):929-940
references: 22383685
references: J Biol Chem. 2007 Aug 24;282(34):25123-30
references: 17604270
references: Thromb Haemost. 2011 Dec;106(6):1170-8
references: 22011848
references: Lancet. 2012 Aug 11;380(9841):572-80
references: 22607825
references: Obesity (Silver Spring). 2011 May;19(5):1004-9
references: 20966915
references: J Nutr. 2012 Jan;142(1):161S-5S
references: 22113863
references: Biochim Biophys Acta. 2012 Apr;1821(4):561-72
references: 22353356
references: Obesity (Silver Spring). 2006 Nov;14(11):1874-9
references: 17135600
references: Am J Clin Nutr. 2012 Nov;96(5):1189S-92S
references: 23053561
references: Am J Obstet Gynecol. 2011 Jul;205(1):83.e17-25
references: 21514551
references: Diabetologia. 2009 Oct;52(10):2117-21
references: 19662379
references: Am J Hum Genet. 2009 Feb;84(2):123-33
references: 19185284
references: Physiol Genomics. 2008 Oct 8;35(2):182-90
references: 18697859
references: Cell Metab. 2005 Feb;1(2):121-31
references: 16054053
references: J Biol Chem. 2012 May 4;287(19):15886-95
references: 22418437
references: Cancer Chemother Pharmacol. 2008 Nov;62(6):937-48
references: 18283461
references: Atherosclerosis. 2009 Sep;206(1):141-7
references: 19339012
references: Hum Mol Genet. 2009 Jun 15;18(12):2305-16
references: 19336475
references: Transpl Int. 2011 Nov;24(11):1094-102
references: 21848901
references: Circ Cardiovasc Genet. 2012 Oct 1;5(5):538-46
references: 22923419
references: J Lipid Res. 2012 Nov;53(11):2450-8
references: 22896672
references: Eur J Clin Nutr. 2008 May;62(5):644-50
references: 17457338
references: J Cardiovasc Med (Hagerstown). 2012 Sep;13(9):546-53
references: 22854712
references: Curr Treat Options Cardiovasc Med. 2012 Aug;14(4):384-90
references: 22723175
references: Am J Clin Nutr. 2008 Aug;88(2):324-32
references: 18689367
references: PLoS One. 2012;7(8):e37437
references: 22952570
references: Arterioscler Thromb Vasc Biol. 2000 Aug;20(8):1983-9
references: 10938021
references: Atherosclerosis. 2010 Feb;208(2):427-32
references: 19732897
references: Am Heart J. 2007 Dec;154(6):1052-8
references: 18035074
references: Arterioscler Thromb Vasc Biol. 2005 Oct;25(10):2177-84
references: 16123327
references: Ann Nutr Metab. 2010;57(2):112-5
references: 20948192
references: Cancer Biol Ther. 2012 Dec;13(14):1355-73
references: 22954694
references: J Lipid Res. 2012 Sep;53(9):1890-909
references: 22750655
references: J Lipid Res. 2007 Jun;48(6):1409-16
references: 17372331
references: Nature. 2010 Aug 5;466(7307):707-13
references: 20686565
references: Nat Genet. 1999 Aug;22(4):347-51
references: 10431237
references: Nat Genet. 1999 Aug;22(4):336-45
references: 10431236
references: JAMA. 2008 Jun 18;299(23):2777-88
references: 18560005
references: Nutr Metab Cardiovasc Dis. 2011 Dec;21(12):947-56
references: 20708914
references: Int J Mol Med. 2006 May;17(5):791-4
references: 16596262
references: Int J Epidemiol. 2012 Jun;41(3):828-43
references: 22421054
references: J Nutr. 2012 Sep;142(9):1764-71
references: 22833659
references: Curr Opin Lipidol. 2012 Aug;23(4):372-6
references: 22517614
references: Biochem Genet. 2012 Feb;50(1-2):103-11
references: 22113854
references: J Biol Chem. 2008 Jun 6;283(23):16178-86
references: 18385134
references: Lipids Health Dis. 2011 Aug 19;10:140
references: 21854571
references: Nutr J. 2010 Jul 28;9:31
references: 20667074
references: Lipids Health Dis. 2012 Dec 18;11:174
references: 23249574
references: Lipids Health Dis. 2012 Feb 15;11:26
references: 22336474