Mexican American ancestry-informative markers: examination of population structure and marker characteristics in european Americans, Mexican Americans, Amerindians and Asians

Markers with large differences in allele frequencies between ethnicities provide ancestry information that can be applied to genetic studies. We identified over 100 biallelic ancestry informative markers (AIMs) with large allele frequency differences between European Americans (EA) and Pima Amerindi...

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Bibliographic Details
Published in:Human genetics 2004-02, Vol.114 (3), p.263-271
Main Authors: COLLINS-SCHRAMM, Heather E, CHIMA, Bill, SELDIN, Michael F, MORII, Takanobu, WAH, Kimberly, FIGUEROA, Yolanda, CRISWELL, Lindsey A, HANSON, Robert L, KNOWLER, William C, SILVA, Gabriel, BELMONT, John W
Format: Article
Language:English
Subjects:
Alleles
Analysis
Asian Continental Ancestry Group - genetics
Biological and medical sciences
Chromosome Mapping
Classical genetics, quantitative genetics, hybrids
European Continental Ancestry Group - genetics
Feasibility Studies
Fundamental and applied biological sciences. Psychology
Gene Frequency
Genetic Markers
Genetic Variation
Genetics of eukaryotes. Biological and molecular evolution
Genetics, Population
Human
Humans
Indians, Central American - genetics
Mexican Americans
Mexican Americans - genetics
Polymorphism, Single Nucleotide
Population genetics
Single nucleotide polymorphisms
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Summary:Markers with large differences in allele frequencies between ethnicities provide ancestry information that can be applied to genetic studies. We identified over 100 biallelic ancestry informative markers (AIMs) with large allele frequency differences between European Americans (EA) and Pima Amerindians from laboratory and database screens. For 35 of these markers, Mayan, Yavapai and Quechuan Amerindians were genotyped and compared with EA and Pima allele frequencies. Markers with large allele frequency differences between EA and one Amerindian tribe showed only small differences between the Amerindian tribes. Examination of structure in individuals demonstrated a clear separation of subjects of European from those of Amerindian ancestry, and similarity between individuals from disparate Amerindian populations. The AIMs demonstrated the variation in ancestral composition of individual Mexican Americans, providing evidence of applicability in admixture mapping and in controlling for structure in association tests. In addition, a high percentage of single-nucleotide polymorphisms (SNPs) selected on the basis of large frequency differences between EA and Asian populations had large allele frequency differences between EA and Amerindians, suggesting an efficient method for greatly expanding AIMs for use in admixture mapping/structure analysis in Mexican Americans. Together, these data provide additional support for the practical application of admixture mapping in the Mexican American population.
ISSN:0340-6717
1432-1203
DOI:10.1007/s00439-003-1058-6