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Baeta M, Nuñez C, Raffone C, Granizo E, Palencia-Madrid L, Cardoso S, Etxeberria F, Herrasti L, de Pancorbo MM. Updating data on the genetic identification of bone remains of victims of the Spanish Civil War. FORENSIC SCIENCE INTERNATIONAL GENETICS SUPPLEMENT SERIES 2019. [DOI: 10.1016/j.fsigss.2019.10.098] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/25/2022]
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Prieto-Fernández E, Díaz-de Usera A, Baeta M, Núñez C, Chbel F, Nadifi S, Rouault K, Férec C, Hardiman O, Pinheiro F, de Pancorbo MM. A genetic overview of Atlantic coastal populations from Europe and North-West Africa based on a 17 X-STR panel. Forensic Sci Int Genet 2016; 27:167-171. [PMID: 27931869 DOI: 10.1016/j.fsigen.2016.11.011] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/23/2016] [Revised: 11/03/2016] [Accepted: 11/30/2016] [Indexed: 11/26/2022]
Abstract
The forensic use of X-STRs requires the creation of allele and haplotype frequency databases in the populations where they are going to be used. Recently, an updated Spanish allele and haplotype frequency database for the new 17 X-STR panel has been created, being the only database available up to now for this new multiplex. In order to broaden the forensic applicability of the 17 X-STR panel, 513 individuals from four different populations located on the Atlantic Coast of Europe and North-West Africa have been studied, i.e. Brittany (France), Ireland, northern Portugal, and Casablanca (Morocco). Allele and haplotype frequency databases, as well as parameters of forensic interest for these populations are presented. The obtained results showed that the 17 X-STR panel constitutes a highly discriminative tool for forensic identification and kinship testing in the studied populations. Furthermore, we aimed to study if these populations located on the Atlantic coast actually share alike allele and haplotype frequency distributions since they have experienced genetic exchanges throughout history. This would allow creating larger forensic databases that include several genetically similar populations for its use in forensic casework. For this purpose, pairwise FST genetic distances between the analyzed populations and others from the Atlantic Coast previously studied with the 17 X-STR panel or the ten coincident markers included in the decaplex of the GHEP-ISFG were estimated. Our results suggest that certain nearby populations located on the European Atlantic coast could have underwent episodes of genetic interchange as they have not shown statistically significant differentiation between them. However, the population of Casablanca showed significant differentiation with the majority of the European populations. Likewise, the autochthonous Basque Country and Brittany populations have shown distinctive allele frequency distributions between them. Therefore, these findings seem to support that the use of independent allele and haplotype frequency databases for each population instead of a global database would be more appropriate for forensic purposes.
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Affiliation(s)
- Endika Prieto-Fernández
- BIOMICs Research Group, Lascaray Research Center, University of the Basque Country UPV/EHU. Avda. Miguel de Unamuno, 3, 01006 Vitoria-Gasteiz, Spain
| | - Ana Díaz-de Usera
- BIOMICs Research Group, Lascaray Research Center, University of the Basque Country UPV/EHU. Avda. Miguel de Unamuno, 3, 01006 Vitoria-Gasteiz, Spain
| | - Miriam Baeta
- BIOMICs Research Group, Lascaray Research Center, University of the Basque Country UPV/EHU. Avda. Miguel de Unamuno, 3, 01006 Vitoria-Gasteiz, Spain
| | - Carolina Núñez
- BIOMICs Research Group, Lascaray Research Center, University of the Basque Country UPV/EHU. Avda. Miguel de Unamuno, 3, 01006 Vitoria-Gasteiz, Spain
| | - Faiza Chbel
- Laboratoire National De Référence, Université Mohammed IV des Sciences de la Santé, Boulevard Mohamed Taieb Naciri, Hay El Hassani, BP 82403, Casa Oumrabii, Casablanca, Morocco
| | - Sellama Nadifi
- Laboratoire de Génétique Humaine, Faculté de Médecine et de Pharmacie, Université Hassan II, Casablanca, Morocco
| | - Karen Rouault
- Inserm, UMR 1078, France, Université de Bretagne Occidentale, Brest, France, Etablissement Français du Sang, Bretagne, CHRU Brest, Hôpital Morvan, Laboratoire de Génétique Moléculaire et d'Histocompatibilité, Brest, France
| | - Claude Férec
- Inserm, UMR 1078, France, Université de Bretagne Occidentale, Brest, France, Etablissement Français du Sang, Bretagne, CHRU Brest, Hôpital Morvan, Laboratoire de Génétique Moléculaire et d'Histocompatibilité, Brest, France
| | - Orla Hardiman
- Academic Unit of Neurology, Trinity Biomedical Sciences Institute, Dublin, 2, Ireland; Department of Neurology, Beaumont Hospital, Dublin, 9, Ireland
| | - Fátima Pinheiro
- Delegação do Norte do Instituto Nacional de Medicina Legal, Jardim Carrilho Videira, 4050-167 Porto, Portugal
| | - Marian M de Pancorbo
- BIOMICs Research Group, Lascaray Research Center, University of the Basque Country UPV/EHU. Avda. Miguel de Unamuno, 3, 01006 Vitoria-Gasteiz, Spain.
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Prieto-Fernández E, Núñez C, Baeta M, Jiménez-Moreno S, Martínez-Jarreta B, de Pancorbo MM. Forensic Spanish allele and haplotype database for a 17 X-STR panel. Forensic Sci Int Genet 2016; 24:120-123. [DOI: 10.1016/j.fsigen.2016.06.016] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/22/2016] [Revised: 06/20/2016] [Accepted: 06/22/2016] [Indexed: 11/24/2022]
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Prieto-Fernández E, Baeta M, Núñez C, Zarrabeitia MT, Herrera RJ, Builes JJ, de Pancorbo MM. Development of a new highly efficient 17 X-STR multiplex for forensic purposes. Electrophoresis 2016; 37:1651-8. [DOI: 10.1002/elps.201500546] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/26/2015] [Revised: 01/21/2016] [Accepted: 03/24/2016] [Indexed: 11/09/2022]
Affiliation(s)
- Endika Prieto-Fernández
- BIOMICs Research Group, Lascaray Research Center; University of the Basque Country UPV/EHU; Vitoria-Gasteiz Spain
| | - Miriam Baeta
- BIOMICs Research Group, Lascaray Research Center; University of the Basque Country UPV/EHU; Vitoria-Gasteiz Spain
| | - Carolina Núñez
- BIOMICs Research Group, Lascaray Research Center; University of the Basque Country UPV/EHU; Vitoria-Gasteiz Spain
| | - María T. Zarrabeitia
- Unit of Legal Medicine; University of Cantabria; Cantabria Spain
- Instituto de Investigación Marqués de Valdecilla (IDIVAL); Cantabria Spain
| | - Rene J. Herrera
- Department of Molecular Biology; Colorado College; Colorado Springs CO USA
| | - Juan José Builes
- Laboratorios Genes Ltda; Medellín Colombia
- Instituto de Biología; Universidad de Antioquia; Medellín Colombia
| | - Marian M. de Pancorbo
- BIOMICs Research Group, Lascaray Research Center; University of the Basque Country UPV/EHU; Vitoria-Gasteiz Spain
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A grave in my garden. Genetic identification of Spanish civil war victims buried in two mass graves in Espinosa de los Monteros (Burgos, Spain). FORENSIC SCIENCE INTERNATIONAL GENETICS SUPPLEMENT SERIES 2015. [DOI: 10.1016/j.fsigss.2015.09.133] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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6
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Prieto-Fernández E, Baeta M, Núñez C, Jiménez-Moreno S, de Pancorbo MM. A new 17 X-STR multiplex for forensic purposes. FORENSIC SCIENCE INTERNATIONAL GENETICS SUPPLEMENT SERIES 2015. [DOI: 10.1016/j.fsigss.2015.09.112] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
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Baeta M, Illescas MJ, García L, Núñez C, Prieto-Fernández E, Jiménez-Moreno S, de Pancorbo MM. Iberian allele frequency database for 10 X-STRs. Forensic Sci Int Genet 2015; 19:76-78. [DOI: 10.1016/j.fsigen.2015.06.009] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/13/2015] [Revised: 06/23/2015] [Accepted: 06/24/2015] [Indexed: 10/23/2022]
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Baeta M, Núñez C, Cardoso S, Palencia-Madrid L, Herrasti L, Etxeberria F, de Pancorbo MM. Digging up the recent Spanish memory: genetic identification of human remains from mass graves of the Spanish Civil War and posterior dictatorship. Forensic Sci Int Genet 2015; 19:272-279. [DOI: 10.1016/j.fsigen.2015.09.001] [Citation(s) in RCA: 25] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/15/2015] [Revised: 07/20/2015] [Accepted: 09/02/2015] [Indexed: 11/15/2022]
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Glesmann LA, Martina PF, Catanesi CI. Genetic Variation of X-STRs in the Wichí Population from Chaco Province, Argentina. Hum Biol 2013; 85:687-98. [DOI: 10.3378/027.085.0503] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 06/17/2013] [Indexed: 11/05/2022]
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Laouina A, Aznar JM, Chbel F, de Pancorbo MM. Genetic data of X-chromosomal STRs in a Moroccan population sample (Casablanca) using an X-STR decaplex. Forensic Sci Int Genet 2013; 7:e90-2. [PMID: 23517901 DOI: 10.1016/j.fsigen.2013.02.006] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/24/2012] [Revised: 01/30/2013] [Accepted: 02/23/2013] [Indexed: 11/28/2022]
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Núñez C, Baeta M, Aznar JM, Sosa C, Casalod Y, Bolea M, Martínez de Pancorbo M, Martínez Jarreta B. Genetic diversity of 10 X chromosome STRs in an admixed population of Nicaragua. Forensic Sci Int Genet 2013; 7:e95-6. [PMID: 23523364 DOI: 10.1016/j.fsigen.2013.02.008] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/02/2012] [Revised: 01/28/2013] [Accepted: 02/23/2013] [Indexed: 10/27/2022]
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12
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Baeta M, Núñez C, Aznar JM, Sosa C, Casalod Y, Bolea M, González-Andrade F, de Pancorbo MM, Martínez-Jarreta B. Analysis of 10 X-STRs in three population groups from Ecuador. Forensic Sci Int Genet 2013; 7:e19-20. [DOI: 10.1016/j.fsigen.2012.08.004] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/15/2012] [Revised: 05/16/2012] [Accepted: 08/04/2012] [Indexed: 11/25/2022]
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Application of a novel multiplex polymerase chain reaction system for 12 X-chromosomal short tandem repeats to a Japanese population study. Leg Med (Tokyo) 2012; 15:43-6. [PMID: 22871459 DOI: 10.1016/j.legalmed.2012.07.001] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/21/2012] [Revised: 06/01/2012] [Accepted: 07/01/2012] [Indexed: 11/21/2022]
Abstract
The analysis of X-chromosomal short tandem repeat (X-STR) polymorphisms has been the focus of attention in several researches, mainly due to its applicability in the investigation of complex kinship cases. A new 12 X-STR multiplex system (GATA172D05, DXS7423, DSX6809, DXS10134, DXS7132, DXS9902, DXS6789, DXS10074, DXS8378, DXS9898, DXS10147, and GATA31E08) was developed and applied to a Japanese population study. DNA samples from 290 males and 160 females were successfully analyzed using the 12 X-STR multiplex system. No mutation was detected in the kinship cases involving 34 family trios. The combined powers of discrimination of the 12 X-STR loci in males and females were 0.999997 and 0.9999999996, respectively. We conclude that the combined analysis of 12 X-STR loci using this single multiplex polymerase chain reaction system is a powerful tool in forensic DNA testing.
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Diegoli TM, Coble MD. Development and characterization of two mini-X chromosomal short tandem repeat multiplexes. Forensic Sci Int Genet 2010; 5:415-21. [PMID: 20943451 DOI: 10.1016/j.fsigen.2010.08.019] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/11/2010] [Revised: 08/27/2010] [Accepted: 08/30/2010] [Indexed: 10/19/2022]
Abstract
This study presents the development and characterization of two X chromosomal short tandem repeat (STR) multiplexes utilizing reduced-size amplicons (less than 200 base pairs) for identity and kinship testing with degraded DNA. Approximately 1360 samples across 4 U.S. population groups were typed for 15 X chromosomal STR markers: DXS6789, DXS7130, DXS9902, GATA31E08, DXS7424, GATA165B12, DXS101, DXS6795, GATA172D05, DXS10147, DXS8378, DXS7132, DXS6803, HPRTB, and DXS7423. A high degree of polymorphism was observed for each marker and both multiplexes were sensitive down to 200pg of pristine DNA. The two proposed multiplexes are suitable for forensic use, and show potential for improved analysis of compromised bone samples.
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Affiliation(s)
- Toni M Diegoli
- Armed Forces DNA Identification Laboratory, Research Section, 1413 Research Blvd., Suite 101, Rockville, MD 20850, USA.
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Cainé LM, Zarrabeitia MT, Riancho JA, Pinheiro MF. Genetic data of a Brazilian population sample (Santa Catarina) using an X-STR decaplex. J Forensic Leg Med 2010; 17:272-4. [DOI: 10.1016/j.jflm.2010.04.002] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/02/2009] [Revised: 02/15/2010] [Accepted: 04/01/2010] [Indexed: 11/26/2022]
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16
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Gomes I, Pereira V, Gomes V, Prata MJ, Pinto N, Carracedo A, Amorim A, Gusmão L. The Karimojong from Uganda: Genetic characterization using an X-STR decaplex system. Forensic Sci Int Genet 2009; 3:e127-8. [DOI: 10.1016/j.fsigen.2008.10.009] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/06/2008] [Revised: 10/15/2008] [Accepted: 10/26/2008] [Indexed: 10/21/2022]
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17
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Gomes I, Pereira R, Mayr WR, Amorim A, Carracedo A, Gusmão L. Evaluation of DXS9902, DXS7132, DXS6809, DXS7133, and DXS7423 in humans and chimpanzees: sequence variation, repeat structure, and nomenclature. Int J Legal Med 2009; 123:403-12. [DOI: 10.1007/s00414-009-0357-4] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/10/2009] [Accepted: 05/12/2009] [Indexed: 10/20/2022]
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Zarrabeitia MT, Pinheiro F, de Pancorbo MM, Cainé L, Cardoso S, Gusmão L, Riancho JA. Analysis of 10 X-linked tetranucleotide markers in mixed and isolated populations. Forensic Sci Int Genet 2009; 3:63-6. [DOI: 10.1016/j.fsigen.2008.10.001] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/03/2008] [Revised: 09/21/2008] [Accepted: 10/02/2008] [Indexed: 11/28/2022]
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Gusmão L, Sánchez-Diz P, Alves C, Gomes I, Zarrabeitia MT, Abovich M, Atmetlla I, Bobillo C, Bravo L, Builes J, Cainé L, Calvo R, Carvalho E, Carvalho M, Cicarelli R, Catelli L, Corach D, Espinoza M, García O, Malaghini M, Martins J, Pinheiro F, João Porto M, Raimondi E, Riancho JA, Rodríguez A, Rodríguez A, Rodríguez Cardozo B, Schneider V, Silva S, Tavares C, Toscanini U, Vullo C, Whittle M, Yurrebaso I, Carracedo A, Amorim A. A GEP-ISFG collaborative study on the optimization of an X-STR decaplex: data on 15 Iberian and Latin American populations. Int J Legal Med 2008; 123:227-34. [PMID: 19082839 DOI: 10.1007/s00414-008-0309-4] [Citation(s) in RCA: 75] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/28/2008] [Accepted: 11/24/2008] [Indexed: 10/21/2022]
Abstract
In a collaborative work carried out by the Spanish and Portuguese ISFG Working Group (GEP-ISFG), a polymerase chain reaction multiplex was optimized in order to type ten X-chromosome short tandem repeats (STRs) in a single reaction, including: DXS8378, DXS9902, DXS7132, DXS9898, DXS6809, DXS6789, DXS7133, GATA172D05, GATA31E08, and DXS7423. Using this X-decaplex, each 17 of the participating laboratories typed a population sample of approximately 200 unrelated individuals (100 males and 100 females). In this work, we report the allele frequencies for the ten X-STRs in 15 samples from Argentina (Buenos Aires, Córdoba, Río Negro, Entre Ríos, and Misiones), Brazil (São Paulo, Rio de Janeiro, Paraná, and Mato Grosso do Sul), Colombia (Antioquia), Costa Rica, Portugal (Northern and Central regions), and Spain (Galicia and Cantabria). Gene diversities were calculated for the ten markers in each population and all values were above 56%. The average diversity per locus varied between 66%, for DXS7133, and 82%, for DXS6809. For this set of STRs, a high discrimination power was obtained in all populations, both in males (> or =1 in 5 x 10(5)) and females (> or =1 in 3 x 10(9)), as well as high mean exclusion chance in father/daughter duos (> or =99.953%) and in father/mother/daughter trios (> or =99.999%). Genetic distance analysis showed no significant differences between northern and central Portugal or between the two Spanish samples from Galicia and Cantabria. Inside Brazil, significant differences were found between Rio de Janeiro and the other three populations, as well as between São Paulo and Paraná. For the five Argentinean samples, significant distances were only observed when comparing Misiones with Entre Ríos and with Río Negro, the only two samples that do not differ significantly from Costa Rica. Antioquia differed from all other samples, except the one from Río Negro.
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Affiliation(s)
- Leonor Gusmão
- IPATIMUP Institute of Pathology and Molecular Immunology, University of Porto, Porto, Portugal.
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