Admixture estimates for the population of Havana City

Annals of Human Biology

Volumn 36, Issue 3, 2009, Pages 350-360

  Cintado, A ^a   Companioni, O ^a   Nazabal, M ^a   Camacho, H ^a   Ferrer, A ^a   De Cossio, M E Fernandez ^a   Marrero, A ^a   Ale, M ^a   Villarreal, A ^a   Leal, L ^a   Casalvilla, R ^a   Benitez, J ^a   Novoa, L ^a   Diaz Horta, O ^b   Duenas, M ^a  

^a CENTER FOR GENETIC ENGINEERING AND BIOTECHNOLOGY   (Cuba)

^b INSTITUTO NACIONAL DE ENDOCRINOLOGÍA   (Cuba)

Author keywords

Admixture; Ancestry informative markers; Cuba; Population structure

Indexed keywords

ETHNIC GROUP; GENEALOGY; GENETIC STRUCTURE; ISLAND; POPULATION STRUCTURE; STATISTICAL ANALYSIS;

ADULT; AFRICA; AMERICAN INDIAN; ANTHROPOMETRY; ARTICLE; BLOOD DONOR; CAUCASIAN; COMPARATIVE STUDY; CUBA; ETHNIC GROUP; ETHNOLOGY; FEMALE; GENE FREQUENCY; GENETIC MARKER; GENETICS; HUMAN; MALE; MARRIAGE; NEGRO; SINGLE NUCLEOTIDE POLYMORPHISM; SPAIN; STATISTICS; URBAN POPULATION;

ADULT; AFRICA, WESTERN; AFRICAN CONTINENTAL ANCESTRY GROUP; ANTHROPOMETRY; BLOOD DONORS; CUBA; ETHNIC GROUPS; EUROPEAN CONTINENTAL ANCESTRY GROUP; FEMALE; GENE FREQUENCY; GENETIC MARKERS; HUMANS; INDIANS, SOUTH AMERICAN; MALE; MARRIAGE; POLYMORPHISM, SINGLE NUCLEOTIDE; SPAIN; URBAN POPULATION;

EID: 67649198208     PISSN: 03014460     EISSN: 14645033     Source Type: Journal    
DOI: 10.1080/03014460902817984     Document Type: Article

References (40)

1. Benn-Torres J, Bonilla C, Robbins CM, Waterman L, Moses TY, Hernandez W, Santos ER, Bennett F, Aiken W, Tullock T, Coard K, Hennis A, Wu S, Nemesure B, Leske MC, Freeman V, Carpten J, Kittles RA. 2008. Admixture and population stratification in African Caribbean Populations. Ann Hum Genet 72:90-98.
2. Bonilla C, Gutierrez G, Parra EJ, Kline C, Shriver MD. 2005. Admixture analysis of a rural population of the State of Guerrero, Mexico. Am J Phys Anthropol 128:861-869.
3. Bonilla C, Parra EJ, Pfaff CL, Dios S, Marshall JA, Hamman RF, Ferrell RE, Hoggart CL, Mc Keigue PM, Shriver MD. 2004a. Admixture in the Hispanics of the San Luis Valley, Colorado, and its implications for complex trait gene mapping. Ann Hum Genet 68:139-153.
4. Bonilla C, Shriver MD, Parra EJ, Jones A, Fernandez JR. 2004b. Ancestral proportions and their association with skin pigmentation and bone mineral density in Puerto Rican women from New York City. Hum Genet 115: 57-68.
5. Chakraborty R. 1975. Estimation of race admixture - a new method. Am J Phys Anthropol 42:507-511.
6. Chakraborty R, Weiss KM. 1988. Admixture as a tool for finding linked genes and detecting that difference from allelic associations between loci. Proc Natl Acad Sci USA 85:9119-9123.
7. Choudhry S, Coyle NE, Keyan HT, Lind D, Clark SL, Tsai HJ, Naqvi M, Phong A, Ngim Ung A, Matallana H, Avila PC, Casal J, Torres A, Nazario S, Castro R, Battle NC, Erez-Stable EJ, Kwok P, Sheppard D, Shriver MD, Rodriguez-Cintron W, Risch N, Ziv E, González E. 2006. Population stratification confounds genetic association studies among Latinos. Hum Genet 118:652-664.
8. Collado-Mesa F, Barceló A, Arheart KL, Messiah SE. 2004. An ecological analysis of childhood-onset type 1 diabetes incidence and prevalence in Latin America. Rev Panam Salud Publica. 15:388-394.
9. Darvasi A, Shifman S. 2005. The beauty of admixture. Nat Genet 37:118-119.
10. Dempster A, Laird N, Rubin D. 1977. Maximum likelihood estimation from incomplete data using the EM algorithm. J Roy Stat Soc 39:1-38.
11. Excoffier L, Slatkin M. 1995. Maximum-likelihood estimation of molecular haplotype frequencies in a diploid population. Mol Biol Evol 5:921-927.
12. Fernandez JR, Shriver MD, Beasley TM, Rafla-Demetrious N, Parra E, Albu J, Nicklas B, Ryan AS, McKeigue PM, Hoggart CJ, Weinsier RL, Allison DB. 2003. Association of African genetic admixture with resting metabolic rate and obesity among women. Obes Res 11:904-911.
13. Garcia M, Estrada M, Gutierrez A, Ballester A, Gonzalez R. 1982. Glyoxalase I polymorphism and racial admixture in the Cuban population. Hum Genet 61:50-51. (Pubitemid 12065668)
14. Gonzalez R, Ballester JM, Estrada M, Lima F, Martinez G, Wade M, Colombo B, Vento R. 1976. A study of the genetical structure of the Cuban population: Red cell and serum biochemical markers. Am J Hum Genet 28:585-596.
15. Gonzalez R, Estrada M, Colombo B. 1975. G-6-PD polymorphism and racial admixture in the Cuban population. Hum Genet 26:74-78.
16. Guanche J. 1997. Componentes étnicos nación cubana. Havana: Fundación Fernando Ortiz.
17. Guerra R. 1971. Manual de historia de Cuba, desde su descubrimiento hasta 1868. Havana: Editorial de Ciencias Sociales.
18. Gutierrez R, Hector G. 1987. El trasvase humano en el ú ltimo siglo. Madrid: Cuadernos Hispanoamericanos.
19. Halder I, Shriver MD. 2003. Measuring and using admixture to study the genetics of complex disease. Hum Genomics 1:52-62.
20. Hidalgo PC, Castellanos T, Carrazana M. 1999. Red cell glutamic-pyruvate transaminase (GPT) polymorphism and racial admixture in a sample of villa Clara province (Cuba). Cuban J Hum Genet 1:1-3.
21. Hoggart CJ, Parra EJ, Shriver MD, Bonilla C, Kittles RA, Clayton DG, McKeigue PM. 2003. Control of confounding of genetic associations in stratified populations. Am J Hum Genet 72:1492-1504.
22. Kittles RA, Chen W, Panguluri RK, Ahaghotu C, Jackson A, Adebamowo CA, Griffin R, Williams T, Ukoli F, Adams-Campbell L, Kwagyan J, Isaacs W, Freeman V, Dunston GM. 2002. CYP3A4-V and prostate cancer in African Americans: Causal or confounding association because of population stratification? Hum Genet 110:553-560.
23. Lancaster A, Nelson MP, Single RM, Meyer D, Thomson G. 2003. PyPop: A software framework for population genomics: Analyzing large-scale multi-locus genotype data. In: Altman R, ed. Pacific Symposium on Biocomputing 8 (p. 514). Singapore: World Scientific.
24. Le Riverend J. 1967. Historia económica de cuba. Havana: La habana editorial universitaria.
25. Long JC. 1991. The genetic structure of admixed populations. Genetics 127:417-428.
26. Looker AC, Johnston CC, Wahner HW, Dunn WL, Calvo MS, Harris TB, Heyse SP, Lindsay RL. 1995. Prevalence of low femoral bone mineral density in older U.S. women from NHANES III. J Bone Miner Res 10:796-802.
27. McKeigue PM. 1998. Mapping genes that underlie ethnic differences in disease risk: Methods for detecting linkage in admixed populations, by conditioning on parental admixture. Am J Hum Genet 63:241-251.
28. McKeigue PM, Carpenter JR, Parra EJ, Shriver MD. 2000. Estimation of admixture and detection of linkage in admixed populations by a Bayesian approach: Application to African-American populations. Ann Hum Genet 64:171-186.
29. Miller RG, Ashar BH, Cohen J, Camp M, Coombs C, Johnson E, Schneyer CR. 2005. Disparities in osteoporosis screening between at-risk African-American and White Women. J Gen Intern Med 20:847-851.
30. Nievergelt CN, Schork NJ. 2005. Admixture mapping as a gene discovery approach for complex human traits and diseases. Current Science Ins 7:31-37.
31. Pankow JS, Province MA, Hunt SC, Arnett DK. 2002. Regarding testing for population subdivision and association in four case-control studies. Am J Hum Genet 71:1478-1480.
32. Parra EJ, Marcini A, Akey J, Martinson J, Batzer MA, Cooper R, Forrester T, Allison DB, Deka R, Ferrell RE, Shriver MD. 1998. Estimating African American admixture proportions by use of population-specific alleles. Am J Hum Genet 63:1839-1851.
33. Parra FC, Amado RC, Lambertucci JR, Rocha J, Antunes CM, Pena SDJ. 2003. Color and genomic ancestry in Brazilians. PNAS 100:177-182.
34. Perez De la Riva J. 1972. Desaparición De la Población Indígena Cubana. La Habana, Universidad De la Habana 196:61-84.
35. Pfaff CL, Parra EJ, Bonilla C, Heister K, McKeigue PM, Kamboh MI, Hutchinson RG, Ferrell RE, Boerwinkle E, Shriver MD. 2001. Population structure in admixed populations: Effect of admixture dynamics on the pattern of linkage disequilibrium. Am J Hum Genet 68:198-207.
36. Pospisil MF. 1965. Manual de prácticas de antropología física. Havana: Editorial Nacional de Cuba.
37. Pritchard JK, Stephens M, Donnelly P. 2000. Inference of population structure using multilocus genotype data. Genetics 155:945-959.
38. Rivero De la Calle M. 1984. Antropología De la Población Adulta Cubana. Havana: Editorial Científico Técnica.
39. Shriver MD, Smith MW, Jin L, Deka R, Ferrell RE. 1997. Ethnic-affiliation estimation by use of populationspecific DNA markers. Am J Hum. Genet 60:957-964.
40. Shriver MD, Parra EJ, Dios S, Bonilla C, Norton H, Jovel C, Pfaff C, Jones C, Massac A, Cameron N, Baron A, Jackson T, Argyropoulos G, Jin L, Hoggart CJ, McKeigue PM, Kittles RA. 2003. Skin pigmentation, biogeographical ancestry and admixture mapping. Hum Genet 112:387-399.