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de Souza LF, da Motta CHAS, Moura-Neto RS. 17 Y-STR haplotype diversity in São Paulo state (southeast of Brazil). Int J Legal Med 2019; 133:81-3. [PMID: 29532149 DOI: 10.1007/s00414-018-1823-7] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/17/2022]
Abstract
A sample of 158 Brazilian males from São Paulo (SP), Brazilian southeast, was typed for 17 Y-STR loci (DYS19, DYS389I, DYS389II, DYS390, DYS391, DYS392, DYS393, DYS437, DYS438, DYS439, DYS448, DYS456, DYS458, DYS635, YGATA_H4.1, and DYS385ab). A total of 158 haplotypes were identified, of which all were unique. The haplotype diversity and discrimination capacity were calculated in 1.0 and the genetic diversity was 67.4%. Pairwise haplotype distances showed that the São Paulo population is not significantly different from Rio de Janeiro and Portugal, but is different from African and Native American.
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Chemale G, Freitas JMD, Badaraco JL, Rosa LDS, Martins JA, Martins AD, Jacques GS, Paranaíba RTFD. Y-Chromosomal STR haplotypes in a sample from Brasília, Federal District, Brazil. Forensic Sci Int Genet 2014; 9:e3-4. [DOI: 10.1016/j.fsigen.2013.06.005] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/04/2012] [Revised: 06/07/2013] [Accepted: 06/10/2013] [Indexed: 11/27/2022]
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Palha T, Gusmão L, Ribeiro-Rodrigues E, Guerreiro JF, Ribeiro-Dos-Santos A, Santos S. Disclosing the genetic structure of Brazil through analysis of male lineages with highly discriminating haplotypes. PLoS One 2012; 7:e40007. [PMID: 22808085 PMCID: PMC3393733 DOI: 10.1371/journal.pone.0040007] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/18/2011] [Accepted: 05/30/2012] [Indexed: 11/18/2022] Open
Abstract
In a large variety of genetic studies, probabilistic inferences are made based on information available in population databases. The accuracy of the estimates based on population samples are highly dependent on the number of chromosomes being analyzed as well as the correct representation of the reference population. For frequency calculations the size of a database is especially critical for haploid markers, and for countries with complex admixture histories it is important to assess possible substructure effects that can influence the coverage of the database. Aiming to establish a representative Brazilian population database for haplotypes based on 23 Y chromosome STRs, more than 2,500 Y chromosomes belonging to Brazilian, European and African populations were analyzed. No matter the differences in the colonization history of the five geopolitical regions that currently exist in Brazil, for the Y chromosome haplotypes of the 23 studied Y-STRs, a lack of genetic heterogeneity was found, together with a predominance of European male lineages in all regions of the country. Therefore, if we do not consider the diverse Native American or Afro-descendent isolates, which are spread through the country, a single Y chromosome haplotype frequency database will adequately represent the urban populations in Brazil. In comparison to the most commonly studied group of 17 Y-STRs, the 23 markers included in this work allowed a high discrimination capacity between haplotypes from non-related individuals within a population and also increased the capacity to discriminate between paternal relatives. Nevertheless, the expected haplotype mutation rate is still not enough to distinguish the Y chromosome profiles of paternally related individuals. Indeed, even for rapidly mutating Y-STRs, a very large number of markers will be necessary to differentiate male lineages from paternal relatives.
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Affiliation(s)
- Teresinha Palha
- Instituto de Ciências Biológicas, Universidade Federal do Pará, Belém, Brazil.
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Francez PADC, Ramos LPV, de Jesus Brabo Ferreira Palha T, Dos Santos SEB. Haplotype diversity of 17 Y-str loci in an admixed population from the Brazilian Amazon. Genet Mol Biol 2011; 35:45-52. [PMID: 22481873 PMCID: PMC3313515 DOI: 10.1590/s1415-47572011005000061] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/04/2011] [Accepted: 09/20/2011] [Indexed: 11/21/2022] Open
Abstract
The allelic and haplotype frequencies of 17 Y-STR loci most commonly used in forensic testing were estimated in a sample of 138 unrelated healthy males from Macapá, in the northern Amazon region of Brazil. The average gene diversity was 0.6554 ± 0.3315. 134 haplotypes of the 17 loci were observed, 130 of them unique and four present in two individuals each. The haplotype diversity index was 0.9996 + 0.0009, with the most frequent haplogroups being R1b (52.2%), E1b1b (11.6%), J2 (10.1%) and Q (7.2%). Most haplogroups of this population belonged to European male lineages (89.2%), followed by Amerindian (7.2%) and African (3.6%) lineages.
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Affiliation(s)
- Pablo Abdon da Costa Francez
- Laboratório de Genética Forense, Departamento de Laboratórios Forenses, Polícia Científica do Amapá, Macapá, AP, Brazil
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Martins JA, Costa JC, Paneto GG, Figueiredo RF, Gusmão L, Sánchez-Diz P, Carracedo A, Cicarelli RMB. Genetic profile characterization of 10 X-STRs in four populations of the southeastern region of Brazil. Int J Legal Med 2010; 124:427-32. [PMID: 20552215 DOI: 10.1007/s00414-010-0478-9] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/31/2009] [Accepted: 06/02/2010] [Indexed: 11/24/2022]
Abstract
Ten X-chromosomal short tandem repeats (DXS8378, DXS9902, DXS7132, DXS9898, DXS6809, DXS6789, DXS7133, GATA172D05, GATA31E08 and DXS7423) were analyzed in four populations of the southeastern region of Brazil (São Paulo, Rio de Janeiro, Vitória and Belo Horizonte). No deviations from the Hardy-Weinberg equilibrium were observed for any of the analyzed loci in the four populations. The average diversity per locus varied between 68% for DXS8378, DXS7133, and DXS7423 and 83%, for DXS6809, with Rio de Janeiro being the most diverse population. Overall power of discrimination values in females varied between 0.99999999990 and 0.99999999997 and between 0.9999991 and 0.9999995 in males. These high values show the potential of this system for forensic application and relationships' testing in the studied groups. Genetic comparisons (exact tests of population differentiation and pairwise genetic distances) revealed significant differences between Brazilian and other populations from Europe, Latin America and Africa, as well as among different Brazilian populations.
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Affiliation(s)
- Joyce A Martins
- Laboratório de Investigação de Paternidade, Faculdade de Ciências Farmacêuticas, Universidade Estadual Paulista, Rodovia Araraquara-Jaú, Km 01, 14801-902, Araraquara, São Paulo, Brazil.
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Wolfgramm EDV, Silva BC, Aguiar VRDC, Malta FSV, de Castro AM, Ferreira ACDS, Prezoti ANL, de Paula F, Louro ID. Genetic analysis of 15 autosomal and 12 Y-STR loci in the Espirito Santo State population, Brazil. Forensic Sci Int Genet 2010; 5:e41-3. [PMID: 20965142 DOI: 10.1016/j.fsigen.2010.05.001] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/10/2009] [Revised: 04/25/2010] [Accepted: 05/04/2010] [Indexed: 01/08/2023]
Abstract
This study provides population genetic data for individuals of Vitoria, Espirito Santo, Brazil, a location not yet characterized for STR frequencies used for genetic identification studies. Allelic frequencies and other population data analysis are reported for the 15 autosomal-STR loci included in the PowerPlex(®)16 kit (CSF1PO, D13S317, D16S539, D18S51, D21S11, D3S1358, D5S818, D7S820, D8S1179, FGA, Penta D, Penta E, TPOX, TH01 and vWA). Allele and haplotype frequencies, gene diversity and discrimination capacity were also estimated for the PowerPlex(®) Y System (DYS19, DYS385, DYS389I/II, DYS390, DYS391, DYS392, DYS393, DYS437, DYS438 and DYS439). Blood samples were obtained from 226 unrelated volunteers (135 males and 91 females) residents in the city of Vitoria, representing a typical sample of the mixed ethnicity present in the Espirito Santo State, Brazil. Within the tested population, the total number of individuals typed for specific markers is: 226 for D13S317, D21S11, D3S1358, D7S820, D8S1179 and FGA; 225 for D16S539 and D5S818; 224 for D18S51; 223 for CSF1PO; 222 for Penta D and vWA; 220 for Penta E; 207 for TPOX and 142 for TH01. Y-STR haplotypes were analyzed for 102 unrelated males, being 71 of them present in the 135 autosomal-STR sample, and 31 new males tested only for Y-STR markers. All autosomal markers were in Hardy-Weinberg Equilibrium. Y-STR analysis identified 101 haplotypes, being 100 of them unique.
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Affiliation(s)
- Eldamária de Vargas Wolfgramm
- Núcleo de Genética Humana e Molecular, Departamento de Ciências Biológicas, Centro de Ciências Humanas e Naturais, Universidade Federal do Espírito Santo, Av. Marechal Campos, 1468 Campus de Maruípe, CEP 29040-090 Vitória, ES, Brazil
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Cainé LM, de Pancorbo MM, Pinheiro F. Y-chromosomal STR haplotype diversity in males from Santa Catarina, Brazil. J Forensic Leg Med 2010; 17:92-5. [PMID: 20129429 DOI: 10.1016/j.jflm.2009.07.023] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/15/2008] [Revised: 07/02/2009] [Accepted: 07/19/2009] [Indexed: 11/25/2022]
Abstract
One-hundred and nine unrelated and healthy males from Santa Catarina, Brazil were included in this study. Allele frequencies and gene diversities for the loci DYS456, DYS458 and DYS448 were calculated. A comparison between our population and others was performed.
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Affiliation(s)
- Laura M Cainé
- National Institute of Legal Medicine-North Branch, Forensic Genetics Service, Jardim Carrilho Videira, Portugal.
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Martins J, Costa J, Paneto G, Gusmão L, Sánchez-diz P, Carracedo A, Cicarelli R. Genetic data of 10 X-chromosomal loci in Vitória population (Espírito Santo State, Brazil). Forensic Science International: Genetics Supplement Series 2009; 2:394-5. [DOI: 10.1016/j.fsigss.2009.08.174] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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Schwengber SP, Kommers T, Matte CHF, Raimann PE, Carvalho BA, Leite FPN, Medeiros MA, Souza LF, Castro CS, Chassot FGC, Bonatto SL. Population data of 17 Y-STR loci from Rio Grande do Sul state (South Brazil). Forensic Sci Int Genet 2009; 4:e31-3. [PMID: 19948319 DOI: 10.1016/j.fsigen.2009.02.001] [Citation(s) in RCA: 14] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/15/2008] [Revised: 01/28/2009] [Accepted: 02/04/2009] [Indexed: 11/30/2022]
Abstract
A sample of 255 Brazilian males from Rio Grande do Sul (RS), the Brazilian southernmost state, was typed for 17 Y-STR loci (DYS19, DYS389I, DYS389II, DYS390, DYS391, DYS392, DYS393, DYS437, DYS438, DYS439, DYS448, DYS456, DYS458, DYS635, YGATA_H4.1 and DYS385ab). A total of 247 haplotypes were identified, of which 239 were unique and eight were found in two individuals each. The haplotype diversity (99.98%) and discrimination capacity (96.86%) were calculated. Pairwise haplotype distances showed that the RS population is not significantly different from Brazil, Rio de Janeiro, and Argentina, is different from São Paulo, Italy, and North Portugal, and is very distant from Spain, the Amazon region, Germany, and South Amerindians. When the RS data was separated in the seven geopolitical regions, some pairs of regions were significantly different; however no region was different from the whole Brazilian sample.
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Affiliation(s)
- Solange P Schwengber
- Setor de Genética Forense, Laboratório de Perícias, Instituto-Geral de Perícias, Secretaria da Segurança Pública do Estado do Rio Grande do Sul, Porto Alegre, RS, Brazil.
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