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Leandro Fonseca de Souza, Carlos Henrique Ares Silveira da Motta, Rodrigo Soares Moura-Neto
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...
March 12, 2018: International Journal of Legal Medicine
Jesica Carina Guzmán-Alberto, Gabriela Martínez-Cortes, Héctor Rangel-Villalobos
Atypical situations arise during the constant resolution of paternity cases, which constitute challenges requiring additional genetic systems and non-standard methods. We report a paternity case presenting three alleged father (AF)-child incompatibilities for the markers TPOX, D2S441, and the indel locus B02 (11/11 vs 8/8; 14/14 vs 10/10; 2/2 vs1/1, respectively). Considering the presence of mutations/null alleles, the residual paternity indexes (PI) obtained with 23 autosomal short tandem repeats (STRs) and 38 indels suggest that the AF is the father (PI = 1...
March 6, 2018: International Journal of Legal Medicine
Anastasia Aliferi, Jim Thomson, Andrew McDonald, Vanessa Molin Paynter, Steven Ferguson, Des Vanhinsbergh, Denise Syndercombe Court, David Ballard
A total of 3128 Y-STR profiles from three UK and one Irish population have been analysed with the PowerPlex Y23 system and are reported here. Instances of haplotype sharing between apparently unrelated individuals were identified and further investigated with the use of the 5 additional markers within the Yfiler Plus kit, resulting in a reduction by 76% in the number of shared haplotypes. Furthermore, Yfiler Plus was also employed to verify locus deletions and duplications observed in Y23 genotypes while inconsistencies between the two kits were sequenced, revealing underlying Y23 primer binding site mutations in loci DYS392 and DYS576...
March 2, 2018: Forensic Science International. Genetics
José R Sandoval, Daniela R Lacerda, Marilza S Jota, Ronald Elward, Oscar Acosta, Donaldo Pinedo, Pierina Danos, Cinthia Cuellar, Susana Revollo, Fabricio R Santos, Ricardo Fujita
This study focuses on the descendants of the royal Inka family. The Inkas ruled Tawantinsuyu, the largest pre-Columbian empire in South America, which extended from southern Colombia to central Chile. The origin of the royal Inkas is currently unknown. While the mummies of the Inka rulers could have been informative, most were destroyed by Spaniards and the few remaining disappeared without a trace. Moreover, no genetic studies have been conducted on present-day descendants of the Inka rulers. In the present study, we analysed uniparental DNA markers in 18 individuals predominantly from the districts of San Sebastian and San Jerónimo in Cusco (Peru), who belong to 12 families of putative patrilineal descent of Inka rulers, according to documented registries...
March 3, 2018: Molecular Genetics and Genomics: MGG
Angie Ambers, Jitka Votrubova, Daniel Vanek, Antti Sajantila, Bruce Budowle
Bones are a valuable source of DNA in forensic, anthropological, and archaeological investigations. There are a number of scenarios in which the only samples available for testing are highly degraded and/or skeletonized. Often it is necessary to perform more than one type of marker analysis on such samples in order to compile sufficient data for identification. Lineage markers, such as Y-STRs and mitochondrial DNA (mtDNA), represent important systems to complement autosomal DNA markers and anthropological metadata in making associations between unidentified remains and living relatives or for characterization of the remains for historical and archaeological studies...
February 23, 2018: International Journal of Legal Medicine
Benedita Ferreira-Silva, Margarida Fonseca-Cardoso, Maria João Porto, Teresa Magalhães, Laura Cainé
Biological evidence of sexual assault is one of the most difficult sample types to analyze in forensic laboratories. Y-STR markers are thus a valuable tool for analyzing these samples. The aim of this project was to compare three Y-STR commercial kits by analyzing their amplification performance on casework samples. Overall, 247 trace samples were analyzed with a Yfiler® Plus PCR Amplification Kit (Applied Biosystems), PowerPlex® Y23 (Promega® ) System and AmpFLSTR® Yfiler™ PCR Amplification Kit (Applied Biosystems)...
February 21, 2018: Journal of Forensic Sciences
Chun Yang, Huajie Ba, Wei Zhang, Shuyou Zhang, Hanqing Zhao, Haiying Yu, Zhiqin Gao, Binbin Wang
Aggressive behavior represents an important public concern and a clinical challenge to behaviorists and psychiatrists. Aggression in humans is known to have an important genetic basis, so to investigate the association of Y chromosome short tandem repeat (Y-STR) loci with initiative-aggressive behavior, we compared allelic and haplotypic distributions of 22 Y-STRs in a group of Chinese males convicted of premeditated extremely violent crimes (n = 271) with a normal control group (n = 492). Allelic distributions of DYS533 and DYS437 loci differed significantly between the two groups (P < 0...
February 13, 2018: Gene
G Cereda, R D Gill, F Taroni
The rare type match problem is an evaluative challenging situation in which the analysis of a DNA profile reveals the presence of (at least) one allele which is not contained in the reference database. This situation is challenging because an estimate for the frequency of occurrence of the profile in a given population needs sophisticated evaluative procedures. The rare type match problem is very common when the DIP-STR marker system, which has proven itself very useful for dealing with unbalanced DNA mixtures, is used, essentially due to the limited size of the available database...
August 24, 2017: Forensic Science International. Genetics
C Robino, A Ralf, S Pasino, M R De Marchi, K N Ballantyne, A Barbaro, C Bini, E Carnevali, L Casarino, C Di Gaetano, M Fabbri, G Ferri, E Giardina, A Gonzalez, G Matullo, A L Nutini, V Onofri, A Piccinini, M Piglionica, E Ponzano, C Previderè, N Resta, F Scarnicci, G Seidita, S Sorçaburu-Cigliero, S Turrina, A Verzeletti, M Kayser
No abstract text is available yet for this article.
February 7, 2018: Forensic Science International. Genetics
Weiwei Wu, Wenyan Ren, Honglei Hao, Hailun Nan, Xin He, Qiuling Liu, Dejian Lu
Mutation analysis of 42 Y chromosomal short tandem repeats (Y-STRs) loci was performed using a sample of 1160 father-son pairs from the Chinese Han population in Eastern China. The results showed that the average mutation rate across the 42 Y-STR loci was 0.0041 (95% CI 0.0036-0.0047) per locus per generation. The locus-specific mutation rates varied from 0.000 to 0.0190. No mutation was found at DYS388, DYS437, DYS448, DYS531, and GATA_H4. DYS627, DYS570, DYS576, and DYS449 could be classified as rapidly mutating Y-STRs, with mutation rates higher than 1...
January 31, 2018: International Journal of Legal Medicine
Sofie Claerhout, Michiel Vandenbosch, Kelly Nivelle, Leen Gruyters, Anke Peeters, Maarten H D Larmuseau, Ronny Decorte
Knowledge of Y-chromosomal short tandem repeat (Y-STR) mutation rates is essential to determine the most recent common ancestor (MRCA) in familial searching or genealogy research. Up to now, locus-specific mutation rates have been extensively examined especially for commercially available forensic Y-STRs, while haplogroup specific mutation rates have not yet been investigated in detail. Through 450 patrilineally related namesakes distributed over 212 deep-rooting genealogies, the individual mutation rates of 42 Y-STR loci were determined, including 27 forensic Y-STR loci from the Yfiler® Plus kit and 15 additional Y-STR loci (DYS388, DYS426, DYS442, DYS447, DYS454, DYS455, DYS459a/b, DYS549, DYS607, DYS643, DYS724a/b and YCAIIa/b)...
January 17, 2018: Forensic Science International. Genetics
Juliana Jannuzzi, Patrícia Domingues, Filipa Simão, Anna Carolina da Silva Chaves, Elizeu Fagundes de Carvalho, Leonor Gusmão
In this work, the YfilerPlus kit was used to investigate a sample of 258 males from Rio de Janeiro. In addition, the previous database of 760 Yfiler profiles deposited in the YHRD was updated to 1610. YfilerPlus markers showed a high haplotype diversity (0.99997), with only one haplotype shared by two individuals. When only considering the Yfiler markers, the haplotype diversity was slightly lower (0.99976), with 5 haplotypes shared by two individuals and 1 haplotype shared by three individuals. Low genetic distances were found between the Rio de Janeiro and European populations as well as the European/Hispanic American samples...
January 22, 2018: International Journal of Legal Medicine
Wen-Qing Chen, Zhen Feng, Wei Jin, Yi-Jun Zhang, Qiang Wang, Pei Li, Shi-Lin Li, Lan-Hai Wei, Gang Liu
In this study, 17 Y-chromosomal short tandem repeats (Y-STRs) were analyzed in 1026 male individuals of Han populations in Changchun City, Jilin Province, Northeast China. The haplotype diversity is 0.99892. The Changchun Han population is close to most Han populations and different from most other minority populations of China. Additionally, the Changchun Han show more affiliations with Han populations in North and Northeast China. These data provide a reference for the Y-STR database in Jilin Province, and they may be valuable for population genetic analysis...
January 20, 2018: International Journal of Legal Medicine
Deborah S B S Silva, Fernanda R Sawitzki, Melissa K R Scheible, Sarah F Bailey, Clarice S Alho, Seth A Faith
With the advent of Next-Generation Sequencing technology, sequencing of short tandem repeats (STRs) allows for a more detailed analysis when compared to size-based fragment methods (capillary electrophoresis-CE). The implementation of high-throughput sequencing can help uncover deeper genetic diversities of different populations. Subjects from the South region of Brazil present a particular and more homogeneous ancestry background when compared to other regions of the country. Both autosomal and Y- STRs have been analyzed in these individuals; however, all analyses published to date encompass data from CE-based fragment analysis...
December 16, 2017: Forensic Science International. Genetics
Patricia P Albani, Jayshree Patel, Rachel I Fleming
In alleged sexual assault investigations, the detection of male DNA on female intimate swabs can be established through Y-STR profiling. However, in cases where the defendant lives in the same dwelling as the complainant, the defendant may argue that his DNA was transferred through normal social contact, and dispute that intimate contact occurred. This study aimed to determine whether or not male DNA could be detected in samples collected from the vaginal cavity after everyday activities. A total of 300 samples from eight individuals were subjected to DNA quantification and Y-STR amplification...
March 2018: Forensic Science International. Genetics
Yahya M Khubrani, Jon H Wetton, Mark A Jobling
Saudi Arabia's indigenous population is organized into patrilineal descent groups, but to date, little has been done to characterize its population structure, in particular with respect to the male-specific region of the Y chromosome. We have used the 27-STR Yfiler® Plus kit to generate haplotypes in 597 unrelated Saudi males, classified into five geographical regions (North, South, Central, East and West). Overall, Yfiler® Plus provides a good discrimination capacity of 95.3%, but this is greatly reduced (74...
March 2018: Forensic Science International. Genetics
M Yang, S X Xu, H Y Qin, H Zhang, H Yi, H J Han, D T Dong, Y H Zhang, S L Li
OBJECTIVES: To analyze the genetic phenotypes of Nantong Han population and evaluate the application value of 17 Y-STR loci in Nantong population. METHODS: The peripheral blood samples were collected from 343 unrelated Nantong Han males and the genomic DNA were extracted by Chelex-100 method. Genotyping was performed using the AmpFℓSTR Yfiler™ Kit. The results were compared with other 12 Han populations, including Anhui, Jiangsu, Jiangxi, Shandong, Shanghai, Zhejiang (1), Lanzhou, Nanyang, Luzhou, Mudanjiang, Shanxi and Zhejiang (2), and 9 minority populations (Mongol, Xibe, Tibetan in Lhasa, Tibetan in Qinghai, Kazak, Uighur, Manchu, Paiwan in Taiwan and Tujia)...
August 2017: Fa Yi Xue za Zhi
C Z Wang, S Q Wen, M S Shi, X E Yu, X J Wang, Y L Pan, Y F Zhang, H Li, J Z Tan
OBJECTIVES: To identify the Y-chromosomal genetic types for the soldier's remains from Huaihai Campaign, and to offer a clue for search of their paternal relatives. METHODS: DNA of the remains were extracted by the ancient DNA extraction method. Yfiler kit was used for the multiplex amplification of 17 Y-STR loci. The haplogroups of the samples were speculated. Detailed genotyping of the selected Y-SNP was performed based on the latest Y-chromosome phylogenetic tree...
August 2017: Fa Yi Xue za Zhi
Cheng-Min Shi, Changzhen Li, Liang Ma, Lianjiang Chi, Jing Zhao, Wuzhou Yuan, Zhendiao Zhou, Jiang-Wei Yan, Hua Chen
Co-ancestry of human surnames and Y-chromosomes in most human populations and social groups suggests the possibility of inferring one from the other. However, such an intuitive perspective remains to be formally explored. In the present study, we develop two computational methods, based on cosine distance (dcos ) and coalescence distance (dcoal ) respectively, to infer surnames from Y-STR profiles. We also survey Y-STR variations at 15 loci for 19,009 individuals of Shandong Province in China. For a total of 266 surnames included in the data set, our methods can pinpoint to a single surname with an average accuracy of 65%, and with an average accuracy higher than 80% when providing >4 candidate surnames...
March 2018: Forensic Science International. Genetics
Licínio Manco, Joana Albuquerque, Maria Francisca Sousa, Rui Martiniano, Ricardo Costa de Oliveira, Sofia Marques, Verónica Gomes, António Amorim, Luís Alvarez, Maria João Prata
OBJECTIVES: We examined internal lineages and haplotype diversity in Portuguese samples belonging to J-M304 to improve the spatial and temporal understanding of the introduction of this haplogroup in Iberia, using the available knowledge about the phylogeography of its main branches, J1-M267 and J2-M172. METHODS: A total of 110 males of Portuguese descent were analyzed for 17 Y-chromosome bi-allelic markers and seven Y-chromosome short tandem repeats (Y-STR) loci...
November 29, 2017: American Journal of Human Biology: the Official Journal of the Human Biology Council
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