Multiple Rare Variants as a Cause of a Common Phenotype: Several Different Lactase Persistence Associated Alleles in a Single Ethnic Group
| Autor: | Dallas M. Swallow, Mark G. Thomas, Sarah L. Browning, Endashaw Bekele, Neil Bradman, Catherine J. E. Ingram, Tamiru Oljira Raga, Mohamed F. Elamin, Michael E. Weale, Ayele Tarekegn |
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| Rok vydání: | 2009 |
| Předmět: |
Genotype
Somalia medicine.medical_treatment Population Black People Single-nucleotide polymorphism Biology Polymorphism Single Nucleotide Cohort Studies Evolution Molecular Lactose Intolerance Gene Frequency Ethnicity Genetics medicine Animals Humans Selection Genetic Allele education Molecular Biology Allele frequency Alleles Ecology Evolution Behavior and Systematics Lactase education.field_of_study Lactose intolerance Directional selection Genetic Variation medicine.disease Lactase persistence Enhancer Elements Genetic Genetics Population Milk Phenotype Ethiopia |
| Zdroj: | Journal of Molecular Evolution. 69:579-588 |
| ISSN: | 1432-1432 0022-2844 |
| DOI: | 10.1007/s00239-009-9301-y |
| Popis: | Persistence of intestinal lactase into adulthood allows humans to use milk from other mammals as a source of food and water. This genetic trait has arisen by convergent evolution and the derived alleles of at least three different single nucleotide polymorphisms (-13910C>T, -13915T>G, -14010G>C) are associated with lactase persistence in different populations. Each allele occurs on an extended haplotype, consistent with positive directional selection. The SNPs are located in an 'enhancer' sequence in an intron of a neighboring gene (MCM6) and modulate lactase transcription in vitro. However, a number of lactase persistent individuals carry none of these alleles, but other low-frequency single nucleotide polymorphisms have been observed in the same region. Here we examine a cohort of 107 milk-drinking Somali camel-herders from Ethiopia. Eight polymorphic sites are identified in the enhancer. -13915*G and -13907*G (a previously reported candidate) are each significantly associated with lactase persistence. A new allele, -14009*G, has borderline association with lactase persistence, but loses significance after correction for multiple testing. Sequence diversity of the enhancer is significantly higher in the lactase persistent members of this and a second cohort compared with non-persistent members of the two groups (P = 7.7 x 10(-9) and 1.0 x 10(-3)). By comparing other loci, we show that this difference is not due to population sub-structure, demonstrating that increased diversity can accompany selection. This contrasts with the well-documented observation that positive selection decreases diversity by driving up the frequency of a single advantageous allele, and has implications for association studies. |
| Databáze: | OpenAIRE |
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