A minimum set of ancestry informative markers for determining admixture proportions in a mixed American population: The Brazilian set

European Journal of Human Genetics

Volumn 24, Issue 5, 2016, Pages 725-731

  Santos, Hadassa C ^a   Horimoto, Andréa V R ^a   Tarazona Santos, Eduardo ^b   Rodrigues Soares, Fernanda ^b   Barreto, Mauricio L ^c   Horta, Bernardo L ^d   Lima Costa, Maria F ^e   Gouveia, Mateus H ^b   Machado, Moara ^b   Silva, Thiago M ^c   Sanches, José M ^a   Esteban, Nubia ^a   Magalhaes, Wagner C S ^b   Rodrigues, Mara R ^b   Kehdy, Fernanda S G ^b   Pereira, Alexandre C ^a  

^a UNIVERSITY OF SÃO PAULO   (Brazil)

^b FEDERAL UNIVERSITY OF MINAS GERAIS   (Brazil)

^c FEDERAL UNIVERSITY OF BAHIA   (Brazil)

^d FEDERAL UNIVERSITY OF PELOTAS   (Brazil)

^e INSTITUTO OSWALDO CRUZ   (Brazil)

Author keywords

[No Author keywords available]

Indexed keywords

ADULT; AFRICAN; ALLELE; AMERICAN INDIAN; ANCESTRY GROUP; ANCESTRY INFORMATIVE MARKER; ARTICLE; BRAZILIAN; CHILD; COHORT ANALYSIS; COST EFFECTIVENESS ANALYSIS; EUROPEAN; GENE FREQUENCY; GENE MAPPING; GENETIC MARKER; GENETIC VARIABILITY; GENOMICS; GENOTYPE; HISPANIC; HUMAN; HUMAN GENOME; LONGITUDINAL STUDY; MAJOR CLINICAL STUDY; PRIORITY JOURNAL; SINGLE NUCLEOTIDE POLYMORPHISM; SKIN PIGMENTATION; YOUNG ADULT; BLACK PERSON; BRAZIL; CAUCASIAN; GENETICS; PEDIGREE; POPULATION;

GENETIC MARKER;

AFRICAN CONTINENTAL ANCESTRY GROUP; AMERICAN NATIVE CONTINENTAL ANCESTRY GROUP; BRAZIL; EUROPEAN CONTINENTAL ANCESTRY GROUP; GENETIC MARKERS; GENOME, HUMAN; HUMANS; PEDIGREE; POLYMORPHISM, SINGLE NUCLEOTIDE; POPULATION; SKIN PIGMENTATION;

EID: 84942156088     PISSN: 10184813     EISSN: 14765438     Source Type: Journal    
DOI: 10.1038/ejhg.2015.187     Document Type: Article

References (28)

1. Shtir CJ, Marjoram P, Azen S, et al. Variation in genetic admixture and population structure among Latinos: the Los Angeles Latino eye study (LALES). BMC Genet 2009; 10: 71
2. Wang Z, Hildesheim A, Wang SS, et al. Genetic admixture and population substructure in Guanacaste Costa Rica. PLoS One 2010; 5: e13336
3. Manichaikul A, Palmas W, Rodriguez CJ, et al. Population structure of Hispanics in the United States: the multi-ethnic study of atherosclerosis. PLoS Genet 2012; 8: e1002640
4. Gonçalves VF, Carvalho CMB, Bortolini MC, Bydlowski SP, Pena SDJ: The phylogeography of African Brazilians. Hum Hered 2008; 65: 23-32
5. Saloum De Neves Manta F, Pereira R, Vianna R, et al. Revisiting the genetic ancestry of Brazilians using autosomal AIM-Indels. PLoS One 2013; 8: e75145
6. Santos NPC, Ribeiro-Rodrigues EM, Ribeiro-Dos-Santos AKC, et al. Assessing individual interethnic admixture and population substructure using a 48-insertion-deletion (INSEL) ancestry-informative marker (AIM) panel. Hum Mutat 2010; 31: 184-190
7. Pena SDJ, Di Pietro G, Fuchshuber-Moraes M, et al. The genomic ancestry of individuals from different geographical regions of Brazil is more uniform than expected. PLoS One 2011; 6: e17063
8. Giolo SR, Soler JMP, Greenway SC, et al. Brazilian urban population genetic structure reveals a high degree of admixture. Eur J Hum Genet 2012; 20: 111-116
9. Price AL, Butler J, Patterson N, et al. Discerning the ancestry of European Americans in genetic association studies. PLoS Genet 2008; 4: e236
10. Tian C, Plenge RM, Ransom M, et al. Analysis and application of European genetic substructure using 300 K SNP information. PLoS Genet 2008; 4: e4
11. Cooper RS, Tayo B, Zhu X. Genome-wide association studies: implications for multiethnic samples. Hum Mol Genet 2008; 17: R151-R155
12. Tayo BO, Teil M, Tong L, et al. Genetic background of patients from a university medical center in Manhattan: implications for personalized medicine. PLoS One 2011; 6: e19166
13. Phillips C, Fernandez-Formoso L, Gelabert-Besada M, et al. Development of a novel forensic STR multiplex for ancestry analysis and extended identity testing. Electrophoresis 2013; 34: 1151-1162
14. Kosoy R, Nassir R, Tian C, White P. Ancestry informative marker sets for determining continental origin and admixture proportions in common populations in America. Hum Mutat 2009; 30: 69-78
15. Galanter JM, Fernandez-Lopez JC, Gignoux CR, et al. Development of a panel of genome-wide ancestry informative markers to study admixture throughout the Americas. PLoS Genet 2012; 8: e1002554
16. Victora CG, Barros FC. Cohort profile: the 1982 Pelotas (Brazil) birth cohort study. Int J Epidemiol 2006; 35: 237-242
17. Lima-Costa MF, Firmo JOA, Uchoa E. Cohort profile: the Bambui (Brazil) Cohort Study of Ageing. Int J Epidemiol 2011; 40: 862-867
18. Barreto ML, Cunha SS, Alcântara-Neves N, et al. Risk factors and immunological pathways for asthma and other allergic diseases in children: background and methodology of a longitudinal study in a large urban center in Northeastern Brazil (Salvador-SCAALA study). BMC Pulm Med 2006; 6: 15
19. Price AL, Patterson NJ, Plenge RM, Weinblatt ME, Shadick N a, Reich D. Principal components analysis corrects for stratification in genome-wide association studies. Nat Genet 2006; 38: 904-909
20. Alexander D, Novembre J, Lange K. Fast model-based estimation of ancestry in unrelated individuals. Genome Res 2009; 19: 1655-1664
21. Purcell S, Neale B, Todd-Brown K, et al. PLINK: a tool set for whole-genome association and population-based linkage analyses. Am J Hum Genet 2007; 81: 559-575
22. Holsinger KE, Weir BS. Genetics in geographically structured populations: defining, estimating and interpreting F(ST). Nat Rev Genet 2009; 10: 639-650
23. Rosenberg N a, Li LM, Ward R, Pritchard JK. Informativeness of genetic markers for inference of ancestry. Am J Hum Genet 2003; 73: 1402-1422
24. Shriver M, Kennedy G, Parra E. The genomic distribution of population substructure in four populations using 8525 autosomal SNPs. Hum genomics 2004; 1: 274-286
25. Lamason RL, Mohideen M-APK, Mest JR, et al. SLC24A5, a putative cation exchanger, affects pigmentation in zebrafish and humans. Science 2005; 310: 1782-1786
26. Beleza S, Johnson NA, Candille SI, et al. Genetic architecture of skin and eye color in an African-European admixed population. PLoS Genet 2013; 9: e1003372
27. Yang N, Li H, Criswell LA, et al. Examination of ancestry and ethnic affiliation using highly informative diallelic DNA markers: application to diverse and admixed populations and implications for clinical epidemiology and forensic medicine. Hum Genet 2005; 118: 382-392
28. Kuhn PC, Horimoto ARVR, Sanches JM, et al. Genome-wide analysis in Brazilian Xavante Indians reveals low degree of admixture. PLoS One 2012; 7: e42702