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Gómez R, Vilar MG, Meraz-Ríos MA, Véliz D, Zúñiga G, Hernández-Tobías EA, Figueroa-Corona MDP, Owings AC, Gaieski JB, Schurr TG. Y chromosome diversity in Aztlan descendants and its implications for the history of Central Mexico. iScience 2021; 24:102487. [PMID: 34036249 PMCID: PMC8138773 DOI: 10.1016/j.isci.2021.102487] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/16/2020] [Revised: 12/08/2020] [Accepted: 04/27/2021] [Indexed: 11/16/2022] Open
Abstract
Native Mexican populations are crucial for understanding the genetic ancestry of Aztec descendants and coexisting ethnolinguistic groups in the Valley of Mexico and elucidating the population dynamics of the prehistoric colonization of the Americas. Mesoamerican societies were multicultural in nature and also experienced significant admixture during Spanish colonization of the region. Despite these facts, Native Mexican Y chromosome diversity has been greatly understudied. To further elucidate their genetic history, we conducted a high-resolution Y chromosome analysis with Chichimecas, Nahuas, Otomies, Popolocas, Tepehuas, and Totonacas using 19 Y-short tandem repeat and 21 single nucleotide polymorphism loci. We detected enormous paternal genetic diversity in these groups, with haplogroups Q-MEH2, Q-M3, Q-Z768, Q-L663, Q-Z780, and Q-PV3 being identified. These data affirmed the southward colonization of the Americas via Beringia and connected Native Mexicans with indigenous populations from South-Central Siberia and Canada. They also suggested that multiple population dispersals gave rise to Y chromosome diversity in these populations. Enormous Y chromosome diversity observed in Native Mexican populations. Haplogroups Q-MEH2, Q-M3, Q-Z768, Q-L663, Q-Z780, and Q-PV3 were identified. Patterns of Y chromosome diversity not shaped by ethnicity, geography, or language. Multiple population dispersals contributed to Y chromosome diversity in Mexico.
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Affiliation(s)
- Rocío Gómez
- Departamento de Toxicología, CINVESTAV-IPN, Mexico City 07360, Mexico
| | - Miguel G Vilar
- Department of Anthropology, University of Pennsylvania, Philadelphia, PA 19104-6398, USA.,National Geographic Society, Washington, DC 20005, USA
| | | | - David Véliz
- Departamento de Ciencias Ecológicas, Instituto de Ecología y Biodiversidad, Facultad de Ciencias, Universidad de Chile, Santiago 7800003, Chile.,Núcleo Milenio de Ecología y Manejo Sustentable de Islas Oceánicas, Departamento de Biología Marina, Universidad Católica del Norte, Coquimbo 1781421, Chile
| | - Gerardo Zúñiga
- Departamento de Zoología, Laboratorio de Variación Biológica y Evolución, Escuela Nacional de Ciencias Biológicas, Instituto Politécnico Nacional, Mexico City 11340, Mexico
| | | | | | - Amanda C Owings
- Department of Anthropology, University of Pennsylvania, Philadelphia, PA 19104-6398, USA
| | - Jill B Gaieski
- Department of Anthropology, University of Pennsylvania, Philadelphia, PA 19104-6398, USA
| | - Theodore G Schurr
- Department of Anthropology, University of Pennsylvania, Philadelphia, PA 19104-6398, USA
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Aguilar-Velázquez JA, Stephenson-Ojea MM, García-King MD, Rangel-Villalobos H. Genetic diversity, structure, and admixture in Mayans from Guatemala and Mexico based on 15 short tandem repeats. AMERICAN JOURNAL OF PHYSICAL ANTHROPOLOGY 2021; 175:238-250. [PMID: 33522608 DOI: 10.1002/ajpa.24203] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/15/2020] [Revised: 11/14/2020] [Accepted: 11/30/2020] [Indexed: 11/05/2022]
Abstract
OBJECTIVE To analyze the genetic origin, relationships, structure, and admixture in Mayan Native American groups from Guatemala and Mexico based on 15 autosomal short tandem repeats (STRs) loci commonly used in human identification (HID). METHODS We genotyped 513 unrelated Mayan samples from Guatemala based on 15 STR loci (AmpFlSTR® Identifiler kit). Moreover, we included 4408 genotypes previously reported, as following: Mayas from Guatemala and Mexico (n = 1666) and from Latin American, European, and African (n = 2742) populations. Forensic parameters, genetic distances, admixture, and population structure were assessed. RESULTS Forensic parameters of the 15 STRs in different Mayan groups from Guatemala were reported. Low (Fst = 0.78%; p = 0.000) and non-significant differentiation (Fst = 1.8%; p = 0.108) were observed in Mayas from Guatemala and Mexico, respectively. The relative homogeneity observed among Mayan groups supported theories of extensive pre-Columbian gene flow and trade throughout the Mayan Empire. The distribution of the three Native American ancestries among these Mayan groups did not support the presumable Guatemalan origin of Tojolabal and Lacandon people (South, Mexico). The nonsignificant differentiation between Ladinos and Mayas suggests a relative panmixia in Guatemala. Mestizos from southeastern Mexico and Guatemala constitute a core of Native American ancestry in Latin America related to the Mayan Empire in Central America. CONCLUSIONS The higher European admixture and homogeneity in Mexican Mayas of the Yucatan Peninsula suggest more intensive post-Columbian gene flow in this region than in Guatemalan Mayas.
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Affiliation(s)
- José Alonso Aguilar-Velázquez
- Instituto de Investigación en Genética Molecular, Departamento de Ciencias Médicas y de la Vida, Universidad de Guadalajara, Av. Universidad #1115, Col, Lindavista, Ocotlán, Jalisco, 47810, Mexico.,Doctorado en Genética Humana, Centro Universitario de Ciencias de la Salud (CUCS-UdeG), Universidad de Guadalajara, Sierra Mojada #950, Guadalajara, Jalisco, Mexico
| | - Mishel Marie Stephenson-Ojea
- Laboratorio de Genética Forense, Fundación de Antropología Forense de Guatemala (FAFG), 1a Calle 1-53, Guatemala, Zona 2, Guatemala
| | - Marco David García-King
- Laboratorio de Genética Forense, Fundación de Antropología Forense de Guatemala (FAFG), 1a Calle 1-53, Guatemala, Zona 2, Guatemala
| | - Héctor Rangel-Villalobos
- Instituto de Investigación en Genética Molecular, Departamento de Ciencias Médicas y de la Vida, Universidad de Guadalajara, Av. Universidad #1115, Col, Lindavista, Ocotlán, Jalisco, 47810, Mexico
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An original Eurasian haplotype, HLA-DRB1*14:54-DQB1*05:03, influences the susceptibility to idiopathic achalasia. PLoS One 2018; 13:e0201676. [PMID: 30092016 PMCID: PMC6084941 DOI: 10.1371/journal.pone.0201676] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/09/2018] [Accepted: 07/19/2018] [Indexed: 01/04/2023] Open
Abstract
Idiopathic achalasia is a relatively infrequent esophageal motor disorder for which major histocompatibility complex (MHC) genes are well-identified risk factors. However, no information about HLA-achalasia susceptibility in Mexicans has previously been reported. We studied a group of 91 patients diagnosed with achalasia and 234 healthy controls with Mexican admixed ancestry. HLA alleles and conserved extended haplotypes were analyzed using high-resolution HLA typing based on Sanger and next-generation sequencing technologies. Admixture estimates were determined using HLA-B and short tandem repeats. Results were analyzed by non-parametric statistical analysis and Bonferroni correction. P-values < 0.05 were considered significant. Patients with achalasia had 56.7% Native American genes, 24.7% European genes, 16.5% African genes and 2.0% Asian genes, which was comparable with the estimates in the controls. Significant increases in the frequencies of alleles DRB1*14:54 and DQB1*05:03 and the extended haplotypes DRB1*14:54-DQB1*05:03 and DRB1*11:01-DQB1*03:01, even after Bonferroni correction (pC<0.05), were found in the achalasia group compared to those in the controls. Concluding, the HLA class II alleles HLA-DRB1*14:54:01 and DQB1*05:03:01 and the extended haplotype are risk factors for achalasia in mixed-ancestry Mexican individuals. These results also suggest that the HLA-DRB1*14:54-DQB1*05:03 haplotype was introduced by admixture with European and/or Asian populations.
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Association of Nuclear Factor-Erythroid 2-Related Factor 2, Thioredoxin Interacting Protein, and Heme Oxygenase-1 Gene Polymorphisms with Diabetes and Obesity in Mexican Patients. OXIDATIVE MEDICINE AND CELLULAR LONGEVITY 2016; 2016:7367641. [PMID: 27274779 PMCID: PMC4870374 DOI: 10.1155/2016/7367641] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Subscribe] [Scholar Register] [Received: 01/04/2016] [Revised: 03/29/2016] [Accepted: 04/05/2016] [Indexed: 01/10/2023]
Abstract
The nuclear factor-erythroid 2- (NF-E2-) related factor 2 (Nrf2) is abated and its ability to reduce oxidative stress is impaired in type 2 diabetes and obesity. Thus, the aim of this study was to explore if polymorphisms in Nrf2 and target genes are associated with diabetes and obesity in Mexican mestizo subjects. The rs1800566 of NAD(P)H:quinone oxidoreductase 1 (NQO1) gene, rs7211 of thioredoxin interacting protein (TXNIP) gene, rs2071749 of heme oxygenase-1 (HMOX1) gene, and the rs6721961 and the rs2364723 from Nrf2 gene were genotyped in 627 diabetic subjects and 1020 controls. The results showed that the rs7211 polymorphism is a protective factor against obesity in nondiabetic subjects (CC + CT versus TT, OR = 0.40, P = 0.005) and in women (CC versus CT + TT, OR = 0.7, P = 0.016). TT carriers had lower high-density lipoprotein cholesterol levels and lower body mass index. The rs2071749 was positively associated with obesity (AA versus AG + GG, OR = 1.25, P = 0.026). Finally, the rs6721961 was negatively associated with diabetes in men (CC versus CA + AA, OR = 0.62, P = 0.003). AA carriers showed lower glucose concentrations. No association was found for rs1800566 and rs2364723 polymorphisms. In conclusion, the presence of Nrf2 and related genes polymorphisms are associated with diabetes and obesity in Mexican patients.
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Rangel-Villalobos H, Martínez-Sevilla VM, Martínez-Cortés G, Aguilar-Velázquez JA, Sosa-Macías M, Rubi-Castellanos R, González-Martín A. Importance of the geographic barriers to promote gene drift and avoid pre- and post-Columbian gene flow in Mexican native groups: Evidence from forensic STR Loci. AMERICAN JOURNAL OF PHYSICAL ANTHROPOLOGY 2016; 160:298-316. [PMID: 26946467 DOI: 10.1002/ajpa.22969] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/29/2015] [Revised: 01/21/2016] [Accepted: 02/06/2016] [Indexed: 12/20/2022]
Abstract
OBJECTIVE To analyze the origin, structure, relationships, and recent admixture in Mexican Native groups based on 15 STRs commonly used in human identification. METHODS We analyzed 39 Mexican Native population samples using STR databases based on the AmpFlSTR® Identifiler kit (n = 3,135), including Mexican-Mestizos (admixed), European and African populations, as reference. RESULTS Based upon effective population size (Ne) differences, Native groups were clustered into three regions: i) Center-Southeast groups, characterized by larger Ne, migration rate (Nm), genetic diversity (He), and relative homogeneity principally in the Yucatan Peninsula; ii) Isolated southern groups from Chiapas and Oaxaca, characterized by lower Ne, Nm, and He (i.e. higher isolation and genetic differentiation); iii) North-Northwest groups, which are similar to the previous group but are characterized by generating the widest gene flow barrier in the Pre-Hispanic Mexican territory, and currently by elevated admixture in some northern Native groups. Despite the relative congruence between genetic relationships with cultural, linguistic, geographic criteria, these factors do not explain the present-day population structure of Native groups, excepting in those linguistically related to the Mayan that show higher homogeneity. The Isolation by distance model was demonstrated at long distances (>1,500 km), whereas geographic isolation stands as a determining factor to avoid both non-indigenous admixture and bottleneck processes. CONCLUSIONS Different dynamics of gene flow and drift were observed among Mexican Native groups, highlighting the geographic barriers (mountains, canyons and jungle regions) as the main factor differentiating Pre-Hispanic populations, and eventually helping to avoid Post-European contact admixture and population bottleneck. Am J Phys Anthropol 160:298-316, 2016. © 2016 Wiley Periodicals, Inc.
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Affiliation(s)
- Héctor Rangel-Villalobos
- Instituto De Investigación En Genética Molecular, Centro Universitario De La Ciénega (CUCI-UdeG), Ocotlán, Jalisco, México
| | - Víctor Manuel Martínez-Sevilla
- Instituto De Investigación En Genética Molecular, Centro Universitario De La Ciénega (CUCI-UdeG), Ocotlán, Jalisco, México
| | - Gabriela Martínez-Cortés
- Instituto De Investigación En Genética Molecular, Centro Universitario De La Ciénega (CUCI-UdeG), Ocotlán, Jalisco, México
| | - José Alonso Aguilar-Velázquez
- Instituto De Investigación En Genética Molecular, Centro Universitario De La Ciénega (CUCI-UdeG), Ocotlán, Jalisco, México
| | - Martha Sosa-Macías
- Unidad Durango (CIIDIR-IPN), Centro Interdisciplinario De Investigación Para El Desarrollo Integral Regional Del Instituto Politécnico Nacional, Durango, México
| | - Rodrigo Rubi-Castellanos
- Laboratorio De Genética, Centro De Investigaciones Regionales Hideyo Noguchi, Universidad Autónoma De Yucatán (UADY), Mérida, Yucatán
| | - Antonio González-Martín
- Departamento De Zoología Y Antropología Física, Facultad De Biología, Universidad Complutense De Madrid, Madrid, Spain
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Juárez-Martín AI, González-Sobrino BZ, Olvera ÁEC, Falfán-Valencia R. HLA class II alleles in the Otomi population of the Mezquital Valley: a genetic approach to the history of interethnic migrations in the Mexican Central Plateau. Hum Biol 2015; 86:167-84. [PMID: 25836745 DOI: 10.13110/humanbiology.86.3.0167] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]
Abstract
From a historical and genetic point of view, the Otomi of the Mezquital Valley are a frontier people that have played an important role in the population dynamics of the Mexican Central Plateau. Due to the antiquity of their presence in the area, the Otomi may be bearers of ancient genetic variability, shared mainly today with other groups belonging to the Otomanguean linguistic family and with the Nahua. In this study we analyzed the HLA class II allele frequencies reported in Mexican indigenous populations, in order to provide an intraregional-level historical perspective of the genetic relationships between the Otomi of the Mezquital Valley and indigenous populations from other regions of Mexico. We examined genetic variation in HLA-DRB1 and -DQB1 loci in 66 nonrelated individuals belonging to seven indigenous communities from the Ixmiquilpan municipality in the Mezquital Valley, in the State of Hidalgo, Mexico. The variability of the HLA-DRB1 gene among the Otomi of the Mezquital Valley was mainly concentrated in five alleles: -DRB1*08:02 (31.06%), -DRB1*04:07 (25.77%), -DRB1*14:06 (7.55%), -DRB1*14:02 (6.06%), and -DRB1*16:02 (4.55%); these alleles have been previously described in other indigenous populations. The most frequent alleles at the HLA-DQB1 locus were -DQB1*03:02 (34.09%), -DQB1*04:02 (31.03%), and -DQB1*03:01 (19.7%). Furthermore, the HLA-DQB1*02:02 allele was found in the Otomi group with a frequency of 2.27%; this allele has not been reported in Mexican indigenous populations. In conclusion, the genetic constitution of the Otomi population is intermediate to the northern groups and the genetic variability shared by the peoples of the central regions of Mexico. Furthermore, HLA-DRB1 and -DQB1 allelic variability among the Otomi provides insight into the historical processes implied in the biological admixture with European, Asian, and African populations as well as in the admixture with the population of Mexico City associated with long-standing migratory processes.
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Affiliation(s)
- Ana Itzel Juárez-Martín
- 1 Instituto de Investigaciones Antropológicas, Universidad Nacional Autónoma de México, Ciudad de México, México
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7
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Fragoso JM, Zuñiga-Ramos J, Arellano-González M, Alvarez-León E, Villegas-Torres BE, Cruz-Lagunas A, Delgadillo-Rodriguez H, Peña-Duque MA, Martínez-Ríos MA, Vargas-Alarcón G. The T29C (rs1800470) polymorphism of the transforming growth factor-β1 (TGF-β1) gene is associated with restenosis after coronary stenting in Mexican patients. Exp Mol Pathol 2015; 98:13-7. [DOI: 10.1016/j.yexmp.2014.11.007] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/03/2014] [Accepted: 11/12/2014] [Indexed: 12/01/2022]
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8
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Ramírez-Flores E, Saiz M, Villegas-Carmona D, Alvarez-Cubero MJ, Álvarez JC, Vega-Navarrete L. Genetic variation of 24 STR loci in a Mexican Mestizo population from Mexico D.F. Forensic Sci Int Genet 2014; 10:e4-e6. [PMID: 24618332 DOI: 10.1016/j.fsigen.2014.02.001] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/12/2013] [Revised: 01/31/2014] [Accepted: 02/01/2014] [Indexed: 10/25/2022]
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Rangel-Villalobos H, Muñoz-Rivas CD, Martínez-Sevilla VM, Nuño-Arana I, Rubi-Castellanos R, Martínez-Cortés G. Forensic evaluation of the AmpFℓSTR Identifiler kit in nine Mexican native populations from the pre-Columbian Mesoamerican region. Int J Legal Med 2013; 128:467-8. [DOI: 10.1007/s00414-013-0956-y] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/11/2013] [Accepted: 12/05/2013] [Indexed: 10/25/2022]
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Zúñiga J, Yu N, Barquera R, Alosco S, Ohashi M, Lebedeva T, Acuña-Alonzo V, Yunis M, Granados-Montiel J, Cruz-Lagunas A, Vargas-Alarcón G, Rodríguez-Reyna TS, Fernandez-Viña M, Granados J, Yunis EJ. HLA class I and class II conserved extended haplotypes and their fragments or blocks in Mexicans: implications for the study of genetic diversity in admixed populations. PLoS One 2013; 8:e74442. [PMID: 24086347 PMCID: PMC3781075 DOI: 10.1371/journal.pone.0074442] [Citation(s) in RCA: 58] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/25/2013] [Accepted: 07/31/2013] [Indexed: 01/03/2023] Open
Abstract
Major histocompatibility complex (MHC) genes are highly polymorphic and informative in disease association, transplantation, and population genetics studies with particular importance in the understanding of human population diversity and evolution. The aim of this study was to describe the HLA diversity in Mexican admixed individuals. We studied the polymorphism of MHC class I (HLA-A, -B, -C), and class II (HLA-DRB1, -DQB1) genes using high-resolution sequence based typing (SBT) method and we structured the blocks and conserved extended haplotypes (CEHs) in 234 non-related admixed Mexican individuals (468 haplotypes) by a maximum likelihood method. We found that HLA blocks and CEHs are primarily from Amerindian and Caucasian origin, with smaller participation of African and recent Asian ancestry, demonstrating a great diversity of HLA blocks and CEHs in Mexicans from the central area of Mexico. We also analyzed the degree of admixture in this group using short tandem repeats (STRs) and HLA-B that correlated with the frequency of most probable ancestral HLA-C/−B and -DRB1/−DQB1 blocks and CEHs. Our results contribute to the analysis of the diversity and ancestral contribution of HLA class I and HLA class II alleles and haplotypes of Mexican admixed individuals from Mexico City. This work will help as a reference to improve future studies in Mexicans regarding allotransplantation, immune responses and disease associations.
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Affiliation(s)
- Joaquín Zúñiga
- Department of Immunology, Instituto Nacional de Enfermedades Respiratorias Ismael Cosío Villegas, Mexico City, Mexico
| | - Neng Yu
- HLA Laboratory, The American Red Cross Northeast Division, Dedham, Massachusetts, United States of America
| | - Rodrigo Barquera
- Molecular Genetics Laboratory, National School of Anthropology and History, Mexico City, Mexico
| | - Sharon Alosco
- HLA Laboratory, The American Red Cross Northeast Division, Dedham, Massachusetts, United States of America
| | - Marina Ohashi
- HLA Laboratory, The American Red Cross Northeast Division, Dedham, Massachusetts, United States of America
| | - Tatiana Lebedeva
- HLA Laboratory, The American Red Cross Northeast Division, Dedham, Massachusetts, United States of America
| | - Víctor Acuña-Alonzo
- Molecular Genetics Laboratory, National School of Anthropology and History, Mexico City, Mexico
| | - María Yunis
- Department of Cancer Immunology and AIDS, Dana Farber Cancer Institute, Harvard Medical School, Boston, Massachusetts, United States of America
| | - Julio Granados-Montiel
- Tissue Engineering, Cell Therapy and Regenerative Medicine Research Unit, Instituto Nacional de Rehabilitación, Mexico City, Mexico
| | - Alfredo Cruz-Lagunas
- Department of Immunology, Instituto Nacional de Enfermedades Respiratorias Ismael Cosío Villegas, Mexico City, Mexico
| | - Gilberto Vargas-Alarcón
- Laboratory of Genomics, Instituto Nacional de Cardiología Ignacio Chavez, Mexico City, Mexico
| | - Tatiana S. Rodríguez-Reyna
- Department of Immunology and Rheumatology, Instituto Nacional de Ciencias Médicas y Nutrición Salvador Zubirán, Mexico City, Mexico
| | - Marcelo Fernandez-Viña
- Department of Pathology, Stanford University, Stanford, California, United States of America
| | - Julio Granados
- Department of Transplantation, Instituto Nacional de Ciencias Médicas y Nutrición Salvador Zubirán, Mexico City, Mexico
- * E-mail: (EJY); (JG)
| | - Edmond J. Yunis
- Department of Cancer Immunology and AIDS, Dana Farber Cancer Institute, Harvard Medical School, Boston, Massachusetts, United States of America
- * E-mail: (EJY); (JG)
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Rodriguez-Osorio CA, Lima G, Herrera-Caceres JO, Villegas-Torres BE, Zuñiga J, Ponce-de-Leon S, Llorente L, Sifuentes-Osornio J. Genetic variations in toll-like receptor 4 in Mexican-Mestizo patients with intra-abdominal infection and/or pneumonia. Immunol Lett 2013; 153:41-6. [DOI: 10.1016/j.imlet.2013.07.002] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/25/2013] [Revised: 06/07/2013] [Accepted: 07/08/2013] [Indexed: 12/29/2022]
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Influence of admixture components on CYP2C9*2 allele frequency in eight indigenous populations from Northwest Mexico. THE PHARMACOGENOMICS JOURNAL 2013; 13:567-72. [DOI: 10.1038/tpj.2012.52] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/02/2012] [Revised: 10/20/2012] [Accepted: 11/16/2012] [Indexed: 11/09/2022]
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Mexican mestizo population sub-structure: effects on genetic and forensic statistical parameters. Mol Biol Rep 2012; 39:10139-56. [DOI: 10.1007/s11033-012-1888-1] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/28/2011] [Accepted: 08/22/2012] [Indexed: 10/27/2022]
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Sandoval K, Moreno-Estrada A, Mendizabal I, Underhill PA, Lopez-Valenzuela M, Peñaloza-Espinosa R, Lopez-Lopez M, Buentello-Malo L, Avelino H, Calafell F, Comas D. Y-chromosome diversity in Native Mexicans reveals continental transition of genetic structure in the Americas. AMERICAN JOURNAL OF PHYSICAL ANTHROPOLOGY 2012; 148:395-405. [PMID: 22576278 DOI: 10.1002/ajpa.22062] [Citation(s) in RCA: 21] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/26/2011] [Accepted: 02/29/2012] [Indexed: 12/11/2022]
Abstract
The genetic characterization of Native Mexicans is important to understand multiethnic based features influencing the medical genetics of present Mexican populations, as well as to the reconstruct the peopling of the Americas. We describe the Y-chromosome genetic diversity of 197 Native Mexicans from 11 populations and 1,044 individuals from 44 Native American populations after combining with publicly available data. We found extensive heterogeneity among Native Mexican populations and ample segregation of Q-M242* (46%) and Q-M3 (54%) haplogroups within Mexico. The northernmost sampled populations falling outside Mesoamerica (Pima and Tarahumara) showed a clear differentiation with respect to the other populations, which is in agreement with previous results from mtDNA lineages. However, our results point toward a complex genetic makeup of Native Mexicans whose maternal and paternal lineages reveal different narratives of their population history, with sex-biased continental contributions and different admixture proportions. At a continental scale, we found that Arctic populations and the northernmost groups from North America cluster together, but we did not find a clear differentiation within Mesoamerica and the rest of the continent, which coupled with the fact that the majority of individuals from Central and South American samples are restricted to the Q-M3 branch, supports the notion that most Native Americans from Mesoamerica southwards are descendants from a single wave of migration. This observation is compatible with the idea that present day Mexico might have constituted an area of transition in the diversification of paternal lineages during the colonization of the Americas.
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Affiliation(s)
- Karla Sandoval
- Institut de Biologia Evolutiva, CEXS-UPF-PRBB, Barcelona, Catalonia, Spain
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15
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Camorlinga-Ponce M, Perez-Perez G, Gonzalez-Valencia G, Mendoza I, Peñaloza-Espinosa R, Ramos I, Kersulyte D, Reyes-Leon A, Romo C, Granados J, Muñoz L, Berg DE, Torres J. Helicobacter pylori genotyping from American indigenous groups shows novel Amerindian vacA and cagA alleles and Asian, African and European admixture. PLoS One 2011; 6:e27212. [PMID: 22073291 PMCID: PMC3207844 DOI: 10.1371/journal.pone.0027212] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/19/2010] [Accepted: 10/12/2011] [Indexed: 12/14/2022] Open
Abstract
It is valuable to extend genotyping studies of Helicobacter pylori to strains from indigenous communities across the world to better define adaption, evolution, and associated diseases. We aimed to genetically characterize both human individuals and their infecting H. pylori from indigenous communities of Mexico, and to compare them with those from other human groups. We studied individuals from three indigenous groups, Tarahumaras from the North, Huichols from the West and Nahuas from the center of Mexico. Volunteers were sampled at their community site, DNA was isolated from white blood cells and mtDNA, Y-chromosome, and STR alleles were studied. H. pylori was cultured from gastric juice, and DNA extracted for genotyping of virulence and housekeeping genes. We found Amerindian mtDNA haplogroups (A, B, C, and D), Y-chromosome DYS19T, and Amerindian STRs alleles frequent in the three groups, confirming Amerindian ancestry in these Mexican groups. Concerning H.pylori cagA phylogenetic analyses, although most isolates were of the Western type, a new Amerindian cluster neither Western nor Asian, was formed by some indigenous Mexican, Colombian, Peruvian and Venezuelan isolates. Similarly, vacA phylogenetic analyses showed the existence of a novel Amerindian type in isolates from Alaska, Mexico and Colombia. With hspA strains from Mexico and other American groups clustered within the three major groups, Asian, African or European. Genotyping of housekeeping genes confirmed that Mexican strains formed a novel Asian-related Amerindian group together with strains from remote Amazon Aborigines. This study shows that Mexican indigenous people with Amerindian markers are colonized with H. pylori showing admixture of Asian, European and African strains in genes known to interact with the gastric mucosa. We present evidence of novel Amerindian cagA and vacA alleles in indigenous groups of North and South America.
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Affiliation(s)
- Margarita Camorlinga-Ponce
- Unidad de Investigacion en Enfermedades Infecciosas, Instituto Mexicano del Seguro Social, Mexico D.F., Mexico
| | - Guillermo Perez-Perez
- School of Medicine, New York University, New York, New York, United States of America
| | - Gerardo Gonzalez-Valencia
- Unidad de Investigacion en Enfermedades Infecciosas, Instituto Mexicano del Seguro Social, Mexico D.F., Mexico
| | - Irma Mendoza
- Unidad de Investigacion en Enfermedades Infecciosas, Instituto Mexicano del Seguro Social, Mexico D.F., Mexico
| | - Rosenda Peñaloza-Espinosa
- Unidad de Investigacion en Genetica Humana, Instituto Mexicano del Seguro Social, Mexico D.F., Mexico
| | - Irma Ramos
- Unidad de Investigacion en Enfermedades Infecciosas, Instituto Mexicano del Seguro Social, Mexico D.F., Mexico
| | - Dangeruta Kersulyte
- Department of Molecular Microbiology, Washington University School of Medicine, St. Louis, Missouri, United States of America
| | - Adriana Reyes-Leon
- Instituto Nacional de Pediatria, Secretaria de Salud, Mexico D.F., Mexico
| | - Carolina Romo
- Instituto Nacional de Pediatria, Secretaria de Salud, Mexico D.F., Mexico
| | - Julio Granados
- Instituto Nacional de la Nutricion y Ciencias Medicas, Secretaria de Salud, Mexico D.F., Mexico
| | - Leopoldo Muñoz
- Unidad de Investigacion en Enfermedades Infecciosas, Instituto Mexicano del Seguro Social, Mexico D.F., Mexico
| | - Douglas E. Berg
- Department of Molecular Microbiology, Washington University School of Medicine, St. Louis, Missouri, United States of America
| | - Javier Torres
- Unidad de Investigacion en Enfermedades Infecciosas, Instituto Mexicano del Seguro Social, Mexico D.F., Mexico
- * E-mail:
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16
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Alvarez-Cubero MJ, Martinez-Gonzalez LJ, Virgen-Ponce D, Delgado-Najar EA, Moscoso-Caloca GH, Alvarez JC, Lorente JA. Genetic variation of 15 autosomal microsatellite loci in a Nayarit population (Mexico). Leg Med (Tokyo) 2011; 13:323-7. [PMID: 21944851 DOI: 10.1016/j.legalmed.2011.07.003] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/03/2011] [Revised: 07/22/2011] [Accepted: 07/25/2011] [Indexed: 11/30/2022]
Abstract
Fifteen STRs are studied to determine the allele frequencies' distribution and to evaluate the homogeneity of Nayarit populations. This study allows the identification of forensic efficiency parameters to be used in forensic genetics and to explore the genetic similarities between Nayarit and the neighboring countries such as Mexico, Brazil, Puerto Rico, Guatemala, Honduras, Bolivia and Costa Rica. The Hardy-Weinberg equilibrium, expected heterozygosity, matching probability, and power of discrimination, were calculated in the Nayarit population. We found that with respect to the studied markers, Nayarit genetic structure is homogeneous. In this study, it is established that Nayarit is genetically similar to the South American Mestizo population. The distribution of a set of these 15 STRs was analyzed with other South American populations as well as in the extensive set of neighboring populations from the literature (USA, Europe and Africa). We found significant differences exist between the isolated populations (Huastecos, Otomi from Sierra Madre and from Ixmiquilpan Valley) and Mestizo populations. Statistical analysis supports that Americans actual inhabitants and Europeans are genetically similar, while Africans and isolated populations from South America have more genetic differences.
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Affiliation(s)
- M J Alvarez-Cubero
- Laboratory of Genetic Identification, Department of Legal Medicine, University of Granada, Granada, Spain
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17
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Granados-Montiel J, Zúñiga J, Azocar J, Feris EJ, Terreros D, Larsen CE, Clavijo OP, Cruz-Lagunas A, Middleton D, Alper CA, Pandey JP, Yunis EJ. Interaction between immunoglobulin allotypes and NK receptor genes in diabetes post-hepatitis C virus infection. Immunobiology 2010; 216:686-91. [PMID: 21281981 DOI: 10.1016/j.imbio.2010.10.006] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/25/2010] [Revised: 10/22/2010] [Accepted: 10/22/2010] [Indexed: 12/17/2022]
Abstract
Genetic interactions between natural killer (NK) cells immunoglobulin-like receptor (KIR) genes and immunoglobulin allotypes have been previously reported in type 2 diabetes mellitus (DM) patients. Puerto Rican Americans with a history of intravenous drug use who developed DM following HCV infection (n=32) were compared to individuals infected with HCV without diabetes (n=121) and to DM non-infected individuals (n=95). Subjects were genotyped for KIRs and immunoglobulin allotypes. We found interactions of immunoglobulin allotypes KM3/KM3 with NK inhibitory receptors 2DL3/2DL3, 2DL1 in the absence of 2DS4 associated with susceptibility to DM in HCV infected individuals. These data suggest the possibility that a subset of patients with HCV could have an immune-mediated component contributing to the development of DM.
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Affiliation(s)
- Julio Granados-Montiel
- Department of Cancer Immunology and AIDS, Dana-Farber Cancer Institute and Department of Pathology, Harvard Medical School, 44 Binney Street, Boston, MA 02115, USA
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18
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Nuñez C, Baeta M, Sosa C, Casalod Y, Ge J, Budowle B, Martínez-Jarreta B. Reconstructing the population history of Nicaragua by means of mtDNA, Y-chromosome STRs, and autosomal STR markers. AMERICAN JOURNAL OF PHYSICAL ANTHROPOLOGY 2010; 143:591-600. [PMID: 20721944 DOI: 10.1002/ajpa.21355] [Citation(s) in RCA: 31] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/16/2010] [Accepted: 05/15/2010] [Indexed: 11/12/2022]
Abstract
Before the arrival of the Spaniards in Nicaragua, diverse Native American groups inhabited the territory. In colonial times, Native Nicaraguan populations interacted with Europeans and slaves from Africa. To ascertain the extent of this genetic admixture and provide genetic evidence about the origin of the Nicaraguan ancestors, we analyzed the mitochondrial control region (HVSI and HVSII), 17 Y chromosome STRs, and 15 autosomal STRs in 165 Mestizo individuals from Nicaragua. To carry out interpopulation comparisons, HVSI sequences from 29 American populations were compiled from the literature. The results reveal a close relationship between Oto-manguean, Uto-Aztecan, Mayan groups from Mexico, and a Chibchan group to Nicaraguan lineages. The Native American contribution to present-day Nicaraguan Mestizos accounts for most of the maternal lineages, whereas the majority of Nicaraguan Y chromosome haplogroups can be traced back to a West Eurasian origin. Pairwise Fst distances based on Y-STRs between Nicaragua and European, African and Native American populations show that Nicaragua is much closer to Europeans than the other populations. Additionally, admixture proportions based on autosomal STRs indicate a predominantly Spanish contribution. Our study reveals that the Nicaraguan Mestizo population harbors a high proportion of European male and Native American female substrate. Finally, the amount of African ancestry is also interesting, probably because of the contribution of Spanish conquerors with North African genetic traces or that of West African slaves.
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Affiliation(s)
- Carolina Nuñez
- Laboratory of Forensic Genetics, Faculty of Medicine, University of Zaragoza, 50009 Zaragoza, Spain.
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19
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Martínez-Cortés G, Nuño-Arana I, Rubi-Castellanos R, Vilchis-Dorantes G, Luna-Vázquez A, Coral-Vázquez RM, Canto-Cetina T, Salazar-Flores J, Muñoz-Valle JF, Sandoval-Mendoza K, López Z, Gamero-Lucas JJ, Rangel-Villalobos H. Origin and genetic differentiation of three Native Mexican groups (Purépechas, Triquis and Mayas): Contribution of CODIS-STRs to the history of human populations of Mesoamerica. Ann Hum Biol 2010; 37:801-19. [DOI: 10.3109/03014461003743801] [Citation(s) in RCA: 26] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
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20
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Zúñiga J, Romero V, Azocar J, Terreros D, Vargas-Rojas MI, Torres-García D, Jiménez-Alvarez L, Vargas-Alarcón G, Granados-Montiel J, Husain Z, Chung RT, Alper CA, Yunis EJ. Protective KIR-HLA interactions for HCV infection in intravenous drug users. Mol Immunol 2009; 46:2723-7. [PMID: 19552960 DOI: 10.1016/j.molimm.2009.05.014] [Citation(s) in RCA: 29] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/16/2009] [Revised: 05/06/2009] [Accepted: 05/14/2009] [Indexed: 02/08/2023]
Abstract
Intravenous drug use has become the principal route of hepatitis C virus (HCV) transmission due to the sharing of infected needles. In this study, we analyzed the distribution of HLA-KIR genotypes among 160 Puerto Rican intravenous drug users (IDUs) with HCV infection and 92 HCV-negative Puerto Rican IDUs. We found a significant association between the presence of different combinations of KIR inhibitory receptor genes (KIR2DL2 and/or KIR2DL3, pC=0.01, OR=0.07; KIR2DL2 and/or KIR2DL3+KIR2DS4, pC=0.01, OR=0.39) and HLA-C1 homozygous genotypes (HLA-C1+KIR2DS4, pC=0.02, OR=0.43; HLA-C1+KIR2DL2+KIR2DS4, pC=0.02, OR=0.40) together with the activating receptor KIR2DS4 (HLA-C1+KIR2DS4+KIR2DL3 and/or KIR2DL2, pC=0.004, OR=0.38) with protection from HCV infection. Our findings in HCV-infected and non-infected IDUs suggest an important role for KIRs (KIR2DL2 and KIR2DL3) with group HLA-C1 molecules, in the presence of activating KIR2DS4, in protection from HCV infection. These results support the hypothesis that activator signaling, mediated by KIR2DS4, plays a determinant role in the regulation of NK cell antiviral-activity.
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Affiliation(s)
- Joaquín Zúñiga
- Instituto Nacional de Enfermedades Respiratorias Ismael Cosio Villegas, Mexico City, Mexico
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21
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Sandoval K, Buentello-Malo L, Peñaloza-Espinosa R, Avelino H, Salas A, Calafell F, Comas D. Linguistic and maternal genetic diversity are not correlated in Native Mexicans. Hum Genet 2009; 126:521-31. [PMID: 19495796 PMCID: PMC2762527 DOI: 10.1007/s00439-009-0693-y] [Citation(s) in RCA: 32] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/17/2009] [Accepted: 05/25/2009] [Indexed: 11/30/2022]
Abstract
Mesoamerica, defined as the broad linguistic and cultural area from middle southern Mexico to Costa Rica, might have played a pivotal role during the colonization of the American continent. The Mesoamerican isthmus has constituted an important geographic barrier that has severely restricted gene flow between North and South America in pre-historical times. Although the Native American component has been already described in admixed Mexican populations, few studies have been carried out in native Mexican populations. In this study, we present mitochondrial DNA (mtDNA) sequence data for the first hypervariable region (HVR-I) in 477 unrelated individuals belonging to 11 different native populations from Mexico. Almost all of the Native Mexican mtDNAs could be classified into the four pan-Amerindian haplogroups (A2, B2, C1, and D1); only two of them could be allocated to the rare Native American lineage D4h3. Their haplogroup phylogenies are clearly star-like, as expected from relatively young populations that have experienced diverse episodes of genetic drift (e.g., extensive isolation, genetic drift, and founder effects) and posterior population expansions. In agreement with this observation, Native Mexican populations show a high degree of heterogeneity in their patterns of haplogroup frequencies. Haplogroup X2a was absent in our samples, supporting previous observations where this clade was only detected in the American northernmost areas. The search for identical sequences in the American continent shows that, although Native Mexican populations seem to show a closer relationship to North American populations, they cannot be related to a single geographical region within the continent. Finally, we did not find significant population structure in the maternal lineages when considering the four main and distinct linguistic groups represented in our Mexican samples (Oto-Manguean, Uto-Aztecan, Tarascan, and Mayan), suggesting that genetic divergence predates linguistic diversification in Mexico.
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Affiliation(s)
- Karla Sandoval
- Institute of Evolutionary Biology (UPF-CSIC), CEXS-UPF-PRBB, 08003 Barcelona, Catalonia, Spain
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22
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González-Martín A, Gorostiza A, Rangel-Villalobos H, Acunha V, Barrot C, Sánchez C, Ortega M, Gené M, Calderón R. Analyzing the genetic structure of the Tepehua in relation to other neighbouring Mesoamerican populations. A study based on allele frequencies of STR markers. Am J Hum Biol 2008; 20:605-13. [PMID: 18464267 DOI: 10.1002/ajhb.20787] [Citation(s) in RCA: 14] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022] Open
Abstract
We report data on the genetic variation of the Tepehua population based on 15 autosomal microsatellites. The Tepehua, whose language belongs to the Totonac family, are settled throughout the Sierra Madre Oriental in Mexico and constitute a group in demographic decline. The results suggest that the Tepehua population remained isolated throughout a large part of its history. Phylogenetic analyses performed with other indigenous and admixed populations of Mesoamerica allow us to address their biological history. The results suggest a genetic affinity between the Tepehua and the Huastecos due to their previous shared history, and a certain degree of differentiation from the Otomões groups and the Choles (who are of Mayan origin). A clear genetic differentiation is also apparent between native and admixed populations within the greater region of Mesoamerica. It is currently accepted that the genetic composition of the American populations fits a trihybrid model of admixture. The genetic structure based on comparison of 34 populations throughout the continent (9 indigenous and 23 admixed) using hierarchical cluster analysis with an explained variance of 61.17% suggests the existence of four large groups distinguished according to the degree of admixture between Amerindians, Europeans, and Africans.
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Affiliation(s)
- Antonio González-Martín
- Departamento de Zoología y Antropología Física, Facultad de Biología, Universidad Complutense, Madrid, Spain.
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23
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Romero V, Zúñiga J, Azocar J, Clavijo OP, Terreros D, Kidwai H, Pandey JP, Yunis EJ. Genetic interactions of KIR and G1M immunoglobulin allotypes differ in obese from non-obese individuals with type 2 diabetes. Mol Immunol 2008; 45:3857-62. [PMID: 18632158 DOI: 10.1016/j.molimm.2008.06.004] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/27/2008] [Accepted: 06/03/2008] [Indexed: 01/22/2023]
Abstract
We analyzed the natural killer cell immunoglobulin-like receptor (KIR) genes and immunoglobulin allotypes in the development of type 2 diabetes (T2D) based on body mass index (BMI) measurements (obese vs. non-obese) in Puerto Rican Americans. Genetic interactions between the KIR haplotype A homozygotes (HAH) and its fraction containing two inhibitory receptors 2DL3 and 2DL1 and the activating receptor 2DS4 with immunoglobulin allotypes were studied. We found a significant association between the HAH and T2D (p=0.002; OR=7.97) and its interaction with the immunoglobulin allotype z: GM f/f (-) (p=<0.0001; OR, not determined) only in non-obese individuals. This association were due to the interactions between the 2DL3/2DL3, 2DL1/2DL1, and 2DS4 fragment with GM f/f (-) in T2D patients (p=0.0017; OR=3.45). Analysis based on BMI demonstrated associations in both obese (p=0.037; OR=2.43; 95% CI=0.97-6.31) and non-obese individuals (p=<0.0001; OR=8.38; 95% CI=2.49-29.31). By contrast, the interaction of the GM allotype f/f (-) with the HAH fragment was associated with T2D only in non-obese individuals (p=<0.0001; OR=18.2; 95% CI=3.71-113.4). As expected, interaction of both HAH and its fragment with HLA-C group's ligands were significant. We used informative short tandem repeats (STRs) that distinguish major populations to determine genetic admixture and found that there was no genetic stratification in our cohort. Our findings are consistent with the possibility of an autoimmune and/or innateimmune component in the pathogenesis of T2D: NK receptors with chronic inflammation in obese and genetic interactions with G1M allotype in T2D non-obese possibly mediating autoimmunity.
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Affiliation(s)
- Viviana Romero
- Department of Cancer Immunology and AIDS, Dana-Farber Cancer Institute, Boston, MA 02115, USA
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24
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Ibarra-Rivera L, Mirabal S, Regueiro MM, Herrera RJ. Delineating genetic relationships among the Maya. AMERICAN JOURNAL OF PHYSICAL ANTHROPOLOGY 2008; 135:329-47. [DOI: 10.1002/ajpa.20746] [Citation(s) in RCA: 27] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
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25
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Juárez-Cedillo T, Zuñiga J, Acuña-Alonzo V, Pérez-Hernández N, Rodríguez-Pérez JM, Barquera R, Gallardo GJ, Sánchez-Arenas R, García-Peña MDC, Granados J, Vargas-Alarcón G. Genetic admixture and diversity estimations in the Mexican Mestizo population from Mexico City using 15 STR polymorphic markers. Forensic Sci Int Genet 2007; 2:e37-9. [PMID: 19083813 DOI: 10.1016/j.fsigen.2007.08.017] [Citation(s) in RCA: 56] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/20/2007] [Revised: 08/27/2007] [Accepted: 08/30/2007] [Indexed: 10/22/2022]
Abstract
The 15 AmpFlSTR Identifiler loci D8S1179, D21S11, D7S820, CSF1PO, D3S1358, TH01, D13S317, D16S539, D2S1338, D19S433, vWA, TPOX, D18S51, D5S818 and FGA were analyzed in a sample of 378 unrelated individuals from Mexico City, Mexico. Significant deviations from HW equilibrium in 14/15 STR loci alleles were not detected. The D18S51 locus had the highest power of discrimination (0.970). Genetic admixture estimations revealed a 69% of Amerindian, 26% of European and 5% of African contribution. Comparative analyses between Mexicans and other neighboring populations reveal significant differences in genetic diversity. Our results are important for future comparative genetic studies in different Latin American ethnic groups, particularly Mexican Mestizos and Amerindians. They should also be helpful in genetics, population evolution, forensic and paternity testing.
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Affiliation(s)
- Teresa Juárez-Cedillo
- Epidemiological Research and Health Services Unit, Centro Médico Nacional Siglo XXI, Instituto Mexicano del Seguro Social, Mexico City, Mexico
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26
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Deng YJ, Yan JW, Yu XG, Li YZ, Mu HF, Huang YQ, Shi XT, Sun WM. Genetic analysis of 15 STR loci in Chinese Han population from West China. GENOMICS PROTEOMICS & BIOINFORMATICS 2007; 5:66-9. [PMID: 17572366 PMCID: PMC5054095 DOI: 10.1016/s1672-0229(07)60016-3] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Subscribe] [Scholar Register] [Indexed: 12/04/2022]
Abstract
Allele frequencies for 15 short tandem repeat (STR) loci (D8S1179, D21S11, D7S820, CSF1PO, D3S1358, TH01, D13S317, D16S539, D2S1338, D19S433, vWA, TPOX, D18S51, D5S818, and FGA) were obtained from 7,636 unrelated individuals of Chinese Han population living in Qinghai and Chongqing, China. Totally 206 alleles were observed, with the corresponding allele frequencies ranging from 0.0001–0.4982. Chi-square test showed that all of the STR loci agreed with the Hardy-Weinberg equilibrium. We also compared our data with previously published population data of other ethnics or areas. The results are valuable for human identification and paternity testing in Chinese Han population.
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Affiliation(s)
- Ya-Jun Deng
- Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing 101300, China.
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27
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Barrot C, Simili C, Sánchez C, Brandt-Casadevall C, González-Martín A, Xifró A, Ortega M, Huguet E, Corbella J, Gené M. Haplotype Frequencies of Eight Y-Chromosome Short Tandem Repeats Loci in Four Amerindian Populations (State of Hidalgo, Mexico). J Forensic Sci 2007; 52:504-6. [PMID: 17316265 DOI: 10.1111/j.1556-4029.2007.00398.x] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
POPULATION Amerindian populations: Huastecos (n=97), Otomies de la Sierra (n=41), Otomies del Valle (n=40), and Tepehuas (n=13).
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Affiliation(s)
- Carme Barrot
- Legal Medicine Department, Faculty of Medicine, University of Barcelona, Spain.
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28
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Gorostiza A, González-Martín A, Ramírez CL, Sánchez C, Barrot C, Ortega M, Huguet E, Corbella J, Gené M. Allele frequencies of the 15 AmpF/Str Identifiler loci in the population of Metztitlán (Estado de Hidalgo), México. Forensic Sci Int 2006; 166:230-2. [PMID: 16436322 DOI: 10.1016/j.forsciint.2005.12.007] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/02/2005] [Revised: 12/01/2005] [Accepted: 12/05/2005] [Indexed: 10/25/2022]
Abstract
The 15 AmpF/STR Identifiler loci (D8S1179, D21S11, D7S820, CSF1PO, D3S1358, TH01, D13S317, D16S539, D2S1338, D19S433, vWA, TPOX, D18S51, D5S818 and FGA) were analyzed in the sample of 180 unrelated autochthonous healthy adults born in Meztitlán City from the valley of Metztitlán (Estado de Hidalgo, México). The agreement with Hardy-Weinberg equilibrium was confirmed for all loci. From the forensic point of view, the heterozygosity value, power of discrimination and the a priori chance of exclusion were calculated.
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Affiliation(s)
- A Gorostiza
- Laboratorio de Genética Molecular, Escuela Nacional de Antropología e Historia, México Distrito Federal, Mexico
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29
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Zúñiga J, Ilzarbe M, Acunha-Alonzo V, Rosetti F, Herbert Z, Romero V, Almeciga I, Clavijo O, Stern JNH, Granados J, Fridkis-Hareli M, Morrison P, Azocar J, Yunis EJ. Allele frequencies for 15 autosomal STR loci and admixture estimates in Puerto Rican Americans. Forensic Sci Int 2006; 164:266-70. [PMID: 16426785 DOI: 10.1016/j.forsciint.2005.11.022] [Citation(s) in RCA: 17] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/22/2005] [Revised: 11/23/2005] [Accepted: 11/23/2005] [Indexed: 11/22/2022]
Abstract
Allelic frequencies of 15 short tandem repeats (STR) markers (CSF1PO, FGA, THO1, TPOX, VWA, D3S11358, D5S818, D7S820, D8S1179, D13S317, D16S539, D18S51, D21S11, D19S433 and D2S1338) were determined using the AmpFl STR Identifiler PCR Amplification Kit in Puerto Rican American individuals (N=205) from Massachusetts. The FGA, D18S51 and D2S1338 loci had a high power of discrimination (PD) with values of 0.967, 0.965 and 0.961, respectively. Significant deviations from the Hardy-Weinberg (HW) equilibrium were not detected. An important genetic contribution of Caucasian European (76.4%) was detected in Puerto Rican Americans. However, comparative analysis between Puerto Rican American and other neighboring populations from United States mainly with African and Caucasian Americans, revealed significant differences in the distribution of STR markers. Our results are important for future comparative genetic studies of different American ethnic groups, in particular a cultural group called Hispanic-Americans and should be helpful for forensic and paternity testing.
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Affiliation(s)
- J Zúñiga
- Department of Cancer Immunology and AIDS, Dana-Farber Cancer Institute and Department of Pathology, Harvard Medical School, Boston, MA 02115, USA.
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