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Silver MJ, Corbin KD, Hellenthal G, da Costa KA, Dominguez-Salas P, Moore SE, Owen J, Prentice AM, Hennig BJ, Zeisel SH. Evidence for negative selection of gene variants that increase dependence on dietary choline in a Gambian cohort. FASEB J 2015; 29:3426-35. [PMID: 25921832 PMCID: PMC4511208 DOI: 10.1096/fj.15-271056] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/09/2015] [Accepted: 04/16/2015] [Indexed: 01/26/2023]
Abstract
Choline is an essential nutrient, and the amount needed in the diet is modulated by
several factors. Given geographical differences in dietary choline intake and
disparate frequencies of single-nucleotide polymorphisms (SNPs) in choline metabolism
genes between ethnic groups, we tested the hypothesis that 3 SNPs that increase
dependence on dietary choline would be under negative selection pressure in settings
where choline intake is low: choline dehydrogenase (CHDH) rs12676,
methylenetetrahydrofolate reductase 1 (MTHFD1) rs2236225, and
phosphatidylethanolamine-N-methyltransferase
(PEMT) rs12325817. Evidence of negative selection was assessed in
2 populations: one in The Gambia, West Africa, where there is historic evidence of a
choline-poor diet, and the other in the United States, with a comparatively
choline-rich diet. We used 2 independent methods, and confirmation of our hypothesis
was sought via a comparison with SNP data from the Maasai, an East
African population with a genetic background similar to that of Gambians but with a
traditional diet that is higher in choline. Our results show that frequencies of SNPs
known to increase dependence on dietary choline are significantly reduced in the
low-choline setting of The Gambia. Our findings suggest that adequate intake levels
of choline may have to be reevaluated in different ethnic groups and highlight a
possible approach for identifying novel functional SNPs under the influence of
dietary selective pressure.—Silver, M. J., Corbin, K. D., Hellenthal, G., da
Costa, K.-A., Dominguez-Salas, P., Moore, S. E., Owen, J., Prentice, A. M., Hennig,
B. J., Zeisel, S. H. Evidence for negative selection of gene variants that increase
dependence on dietary choline in a Gambian cohort.
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Affiliation(s)
- Matt J Silver
- *Medical Research Council International Nutrition Group, London School of Hygiene and Tropical Medicine, London, United Kingdom; Medical Research Council Unit, Banjul, The Gambia; Nutrition Research Institute, North Carolina Research Campus, Kannapolis, North Carolina, USA; Department of Nutrition, Gillings School of Global Public Health, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, USA; University College London Genetics Institute, University College London, United Kingdom; Toxicology Services, Incorporated, Chapel Hill, North Carolina, USA; and Maternal and Child Nutrition Group, Medical Research Council Human Nutrition Research, Cambridge, United Kingdom
| | - Karen D Corbin
- *Medical Research Council International Nutrition Group, London School of Hygiene and Tropical Medicine, London, United Kingdom; Medical Research Council Unit, Banjul, The Gambia; Nutrition Research Institute, North Carolina Research Campus, Kannapolis, North Carolina, USA; Department of Nutrition, Gillings School of Global Public Health, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, USA; University College London Genetics Institute, University College London, United Kingdom; Toxicology Services, Incorporated, Chapel Hill, North Carolina, USA; and Maternal and Child Nutrition Group, Medical Research Council Human Nutrition Research, Cambridge, United Kingdom
| | - Garrett Hellenthal
- *Medical Research Council International Nutrition Group, London School of Hygiene and Tropical Medicine, London, United Kingdom; Medical Research Council Unit, Banjul, The Gambia; Nutrition Research Institute, North Carolina Research Campus, Kannapolis, North Carolina, USA; Department of Nutrition, Gillings School of Global Public Health, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, USA; University College London Genetics Institute, University College London, United Kingdom; Toxicology Services, Incorporated, Chapel Hill, North Carolina, USA; and Maternal and Child Nutrition Group, Medical Research Council Human Nutrition Research, Cambridge, United Kingdom
| | - Kerry-Ann da Costa
- *Medical Research Council International Nutrition Group, London School of Hygiene and Tropical Medicine, London, United Kingdom; Medical Research Council Unit, Banjul, The Gambia; Nutrition Research Institute, North Carolina Research Campus, Kannapolis, North Carolina, USA; Department of Nutrition, Gillings School of Global Public Health, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, USA; University College London Genetics Institute, University College London, United Kingdom; Toxicology Services, Incorporated, Chapel Hill, North Carolina, USA; and Maternal and Child Nutrition Group, Medical Research Council Human Nutrition Research, Cambridge, United Kingdom
| | - Paula Dominguez-Salas
- *Medical Research Council International Nutrition Group, London School of Hygiene and Tropical Medicine, London, United Kingdom; Medical Research Council Unit, Banjul, The Gambia; Nutrition Research Institute, North Carolina Research Campus, Kannapolis, North Carolina, USA; Department of Nutrition, Gillings School of Global Public Health, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, USA; University College London Genetics Institute, University College London, United Kingdom; Toxicology Services, Incorporated, Chapel Hill, North Carolina, USA; and Maternal and Child Nutrition Group, Medical Research Council Human Nutrition Research, Cambridge, United Kingdom
| | - Sophie E Moore
- *Medical Research Council International Nutrition Group, London School of Hygiene and Tropical Medicine, London, United Kingdom; Medical Research Council Unit, Banjul, The Gambia; Nutrition Research Institute, North Carolina Research Campus, Kannapolis, North Carolina, USA; Department of Nutrition, Gillings School of Global Public Health, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, USA; University College London Genetics Institute, University College London, United Kingdom; Toxicology Services, Incorporated, Chapel Hill, North Carolina, USA; and Maternal and Child Nutrition Group, Medical Research Council Human Nutrition Research, Cambridge, United Kingdom
| | - Jennifer Owen
- *Medical Research Council International Nutrition Group, London School of Hygiene and Tropical Medicine, London, United Kingdom; Medical Research Council Unit, Banjul, The Gambia; Nutrition Research Institute, North Carolina Research Campus, Kannapolis, North Carolina, USA; Department of Nutrition, Gillings School of Global Public Health, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, USA; University College London Genetics Institute, University College London, United Kingdom; Toxicology Services, Incorporated, Chapel Hill, North Carolina, USA; and Maternal and Child Nutrition Group, Medical Research Council Human Nutrition Research, Cambridge, United Kingdom
| | - Andrew M Prentice
- *Medical Research Council International Nutrition Group, London School of Hygiene and Tropical Medicine, London, United Kingdom; Medical Research Council Unit, Banjul, The Gambia; Nutrition Research Institute, North Carolina Research Campus, Kannapolis, North Carolina, USA; Department of Nutrition, Gillings School of Global Public Health, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, USA; University College London Genetics Institute, University College London, United Kingdom; Toxicology Services, Incorporated, Chapel Hill, North Carolina, USA; and Maternal and Child Nutrition Group, Medical Research Council Human Nutrition Research, Cambridge, United Kingdom
| | - Branwen J Hennig
- *Medical Research Council International Nutrition Group, London School of Hygiene and Tropical Medicine, London, United Kingdom; Medical Research Council Unit, Banjul, The Gambia; Nutrition Research Institute, North Carolina Research Campus, Kannapolis, North Carolina, USA; Department of Nutrition, Gillings School of Global Public Health, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, USA; University College London Genetics Institute, University College London, United Kingdom; Toxicology Services, Incorporated, Chapel Hill, North Carolina, USA; and Maternal and Child Nutrition Group, Medical Research Council Human Nutrition Research, Cambridge, United Kingdom
| | - Steven H Zeisel
- *Medical Research Council International Nutrition Group, London School of Hygiene and Tropical Medicine, London, United Kingdom; Medical Research Council Unit, Banjul, The Gambia; Nutrition Research Institute, North Carolina Research Campus, Kannapolis, North Carolina, USA; Department of Nutrition, Gillings School of Global Public Health, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, USA; University College London Genetics Institute, University College London, United Kingdom; Toxicology Services, Incorporated, Chapel Hill, North Carolina, USA; and Maternal and Child Nutrition Group, Medical Research Council Human Nutrition Research, Cambridge, United Kingdom
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