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https://www.readbyqxmd.com/read/28315050/forensic-use-of-y-chromosome-dna-a-general-overview
#1
REVIEW
Manfred Kayser
The male-specific part of the human Y chromosome is widely used in forensic DNA analysis, particularly in cases where standard autosomal DNA profiling is not informative. A Y-chromosomal gene fragment is applied for inferring the biological sex of a crime scene trace donor. Haplotypes composed of Y-chromosomal short tandem repeat polymorphisms (Y-STRs) are used to characterise paternal lineages of unknown male trace donors, especially suitable when males and females have contributed to the same trace, such as in sexual assault cases...
March 17, 2017: Human Genetics
https://www.readbyqxmd.com/read/28273507/flanking-region-variation-of-forenseq%C3%A2-dna-signature-prep-kit-str-and-snp-loci-in-yavapai-native-americans
#2
Frank R Wendt, Jonathan L King, Nicole M M Novroski, Jennifer D Churchill, Jillian Ng, Robert F Oldt, Kelly L McCulloh, Jessica A Weise, David Glenn Smith, Sreetharan Kanthaswamy, Bruce Budowle
Massively parallel sequencing (MPS) offers advantages over current capillary electrophoresis-based analysis of short tandem repeat (STR) loci for human identification testing. In particular STR repeat motif sequence information can be obtained, thereby increasing the discrimination power of some loci. While sequence variation within the repeat region is observed relatively frequently in some of the commonly used STRs, there is an additional degree of variation found in the flanking regions adjacent to the repeat motif...
February 27, 2017: Forensic Science International. Genetics
https://www.readbyqxmd.com/read/28271363/yfiler-%C3%A2-plus-population-samples-and-dilution-series-stutters-analytic-thresholds-and-drop-out-probabilities
#3
Mikkel Meyer Andersen, Helle Smidt Mogensen, Poul Svante Eriksen, Niels Morling
The Yfiler (Ⓡ) Plus Amplification Kit amplifies 27 Y chromosomal small tandem repeat (STR) markers. The kit has five-fluorescent dye chemistry and the improved PCR buffer system of modern STR kits. We validated the kit for accredited investigations of crime scene samples by a thorough study of kit dynamics and performance. We determined dye-dependent analytical thresholds by receiver operating characteristics (ROC) and made a customised artefact filter that includes theoretical known artefacts by use of previously analysed population samples...
March 7, 2017: International Journal of Legal Medicine
https://www.readbyqxmd.com/read/28242557/sensitive-dip-str-markers-for-the-analysis-of-unbalanced-mixtures-from-touch-dna-samples
#4
Fabio Oldoni, Vincent Castella, Frederic Grosjean, Diana Hall
Casework samples collected for forensic DNA analysis can produce genomic mixtures in which the DNA of the alleged offender is masked by high quantities of DNA coming from the victim. DIP-STRs are novel genetic markers specifically developed to enable the target analysis of a DNA of interest in the presence of exceeding quantities of a second DNA (up to 1000-fold). The genotyping system, which is based on allele-specific amplifications of haplotypes formed by a deletion/insertion polymorphism (DIP) and a short tandem repeat (STR), combines the capacity of targeting the DNA of an individual with a strong identification power...
February 14, 2017: Forensic Science International. Genetics
https://www.readbyqxmd.com/read/28210813/a-comprehensive-y-str-portrait-of-yousafzai-s-population
#5
Sadia Tabassum, Muhammad Ilyas, Inam Ullah, Muhammad Israr, Habib Ahmad
In the current study, 17 Y-Chromosomal short tandem repeats (Y-STRs) included in theAmpFlSTR Y-Filer amplification kit (Applied Biosystems, Foster City, USA) were investigated in 146 unrelated Yousafzai males residing in the Khyber Pakhtunkhwa Province of Pakistan. A total of 94 (89.52%) unique haplotypes were observed. Discrimination capacity was 71.92%. Haplotype diversity ranged from 0.354 (DYS456) to 0.663 (DYS458). Both Rst pairwise analysis and multidimensional scaling plot showed that the genetic structure of the Yousafzais is significantly different from neighbouring populations...
February 16, 2017: International Journal of Legal Medicine
https://www.readbyqxmd.com/read/28138773/revisiting-the-male-genetic-landscape-of-china-a-multi-center-study-of-almost-38-000-y-str-haplotypes
#6
REVIEW
Michael Nothnagel, Guangyao Fan, Fei Guo, Yongfeng He, Yiping Hou, Shengping Hu, Jiang Huang, Xianhua Jiang, Wook Kim, Kicheol Kim, Chengtao Li, Hui Li, Liming Li, Shilin Li, Zhao Li, Weibo Liang, Chao Liu, Di Lu, Haibo Luo, Shengjie Nie, Meisen Shi, Hongyu Sun, Jianpin Tang, Lei Wang, Chuan-Chao Wang, Dan Wang, Shao-Qing Wen, Hongyan Wu, Weiwei Wu, Jiaxin Xing, Jiangwei Yan, Shi Yan, Hongbing Yao, Yi Ye, Libing Yun, Zhaoshu Zeng, Lagabaiyila Zha, Suhua Zhang, Xiufen Zheng, Sascha Willuweit, Lutz Roewer
China has repeatedly been the subject of genetic studies to elucidate its prehistoric and historic demography. While some studies reported a genetic distinction between Northern and Southern Han Chinese, others showed a more clinal picture of small differences within China. Here, we investigated the distribution of Y chromosome variation along administrative as well as ethnic divisions in the mainland territory of the People's Republic of China, including 28 administrative regions and 19 recognized Chinese nationalities, to assess the impact of recent demographic processes...
January 30, 2017: Human Genetics
https://www.readbyqxmd.com/read/28138757/genetic-variations-of-15-autosomal-and-17-y-str-markers-in-sindhi-population-of-pakistan
#7
Rukhsana Perveen, Ahmad Ali Shahid, Muhammad Shafique, Muhammad Shahzad, Tayyab Husnain
This study comprises genetic characterization of 15 autosomal and 17 Y-chromosomal STR loci in 103 unrelated male inhabitants of the Sindhi population to establish its lineage and parameters of forensic interest. The examined autosomal STRs revealed high combined power of discrimination, combined power of exclusion, and the combined matching probability as 0.99999999999999999042580, 0.9999977141, and 9.5742 × 10(-18), respectively. A total of 89 unique haplotypes were obtained, of which 84 were observed once with a haplotype diversity value of 0...
January 30, 2017: International Journal of Legal Medicine
https://www.readbyqxmd.com/read/28127629/genetic-polymorphisms-of-24-y-str-loci-in-hani-ethnic-minority-from-yunnan-province-southwest-china
#8
Liping Hu, Tao Gu, Xiaodong Fan, Xiaokun Yuan, Min Rao, Jing Bo Pang, Aiting Nie, Lei Du, Xiufeng Zhang, Shengjie Nie
In the present study, 24 Y-chromosomal short tandem repeat (Y-STR) loci were analyzed in 250 unrelated Hani male individuals from Lvchun county, Honghe Hani and Yi Autonomous Prefecture, Yunnan Province, Southwest China. The gene diversity of the 24 Y-STR loci in the studied Hani group ranged from 0.2683 (DYS437) to 0.8837 (DYS447). According to haplotypic analysis of the 24 Y-STR loci, 204 different haplotypes were obtained, 174 of which were unique. The haplotype diversity and discrimination capacity in Hani group were 0...
January 27, 2017: International Journal of Legal Medicine
https://www.readbyqxmd.com/read/28126691/performance-and-concordance-of-the-forenseq%C3%A2-system-for-autosomal-and-y-chromosome-short-tandem-repeat-sequencing-of-reference-type-specimens
#9
Rebecca S Just, Lilliana I Moreno, Jill B Smerick, Jodi A Irwin
Though the utility of next-generation sequencing (NGS) technologies for forensic short tandem repeat (STR) typing has been evident for several years, commercially available assays and software solutions developed specifically to meet forensic needs have only recently become available. One of these, the ForenSeq™ DNA Signature Prep Kit (Illumina, Inc.) sequences 27 autosomal STR (aSTR) and 24 Y chromosome STR (Y-STR) loci (concurrent with additional nuclear markers) per multiplexed sample, with automated secondary and tertiary analyses of the data accomplished via the associated ForenSeq™ Universal Analysis Software (UAS)...
January 9, 2017: Forensic Science International. Genetics
https://www.readbyqxmd.com/read/28091725/genetic-polymorphism-investigation-of-the-chinese-yi-minority-using-powerplex%C3%A2-y23-str-amplification-system
#10
GuangLin He, PengYu Chen, Xing Zou, Xu Chen, Feng Song, Jing Yan, YiPing Hou
Twenty-three Y-STR loci (DYS576, DYS389I, DYS389 II, DYS448, DYS19, DYS391, DYS481, DYS549, DYS533, DYS438, DYS437, DYS570, DYS635, DYS390, DYS439, DYS392, DYS393, DYS458 DYS456, DYS643, Y-GATA-H4, and DYS385a/b) included in the next-generation PowerPlex® Y23 System were first investigated in 311 unrelated, healthy male individuals from the Yi minority population residing in the Liangshan Yi Autonomous Prefecture, Sichuan, China. A total of 179 alleles and 297 haplotypes were discovered in the Yi group. In total, 285 haplotypes among them were unique, and the remaining 12 haplotypes were observed in two or three individuals...
January 16, 2017: International Journal of Legal Medicine
https://www.readbyqxmd.com/read/28068531/forensic-data-and-microvariant-sequence-characterization-of-27-y-str-loci-analyzed-in-four-eastern-african-countries
#11
Giuseppe Iacovacci, Eugenia D'Atanasio, Ornella Marini, Alfredo Coppa, Daniele Sellitto, Beniamino Trombetta, Andrea Berti, Fulvio Cruciani
By using the recently introduced 6-dye Yfiler(®) Plus multiplex, we analyzed 462 males belonging to 20 ethnic groups from four eastern African countries (Eritrea, Ethiopia, Djibouti and Kenya). Through a Y-STR sequence analysis, combined with 62 SNP-based haplogroup information, we were able to classify observed microvariant alleles at four Y-STR loci as either monophyletic (DYF387S1 and DYS458) or recurrent (DYS449 and DYS627). We found evidence of non-allelic gene conversion among paralogous STRs of the two-copy locus DYF387S1...
December 29, 2016: Forensic Science International. Genetics
https://www.readbyqxmd.com/read/28057510/investigation-of-extended-y-chromosome-str-haplotypes-in-sardinia
#12
D Lacerenza, S Aneli, C Di Gaetano, R Critelli, A Piazza, G Matullo, C Culigioni, R Robledo, C Robino, C Calò
Y-chromosomal variation of selected single nucleotide polymorphisms (SNPs) and 32 short tandem repeat (STR) loci was evaluated in Sardinia in three open population groups (Northern Sardinia, n=40; Central Sardinia, n=56; Southern Sardinia, n=91) and three isolates (Desulo, n=34; Benetutti, n=45, Carloforte, n=42). The tested Y-STRs consisted of Yfiler(®) Plus markers and the seven rapidly mutating (RM) loci not included in the YFiler(®) Plus kit (DYF399S1, DYF403S1ab, DYF404S1, DYS526ab, DYS547, DYS612, and DYS626)...
December 28, 2016: Forensic Science International. Genetics
https://www.readbyqxmd.com/read/27987217/17-to-23-a-novel-complementary-mini-y-str-panel-to-extend-the-y-str-databases-from-17-to-23-markers-for-forensic-purposes
#13
Carolina Núñez, Miriam Baeta, Nerea Ibarbia, Urko Ortueta, Susana Jiménez-Moreno, José Luis Blazquez-Caeiro, Juan José Builes, Rene J Herrera, Begoña Martínez-Jarreta, Marian M de Pancorbo
A Y-STR multiplex system has been developed with the purpose of complementing the widely used 17 Y-STR haplotyping (AmpFlSTR Y Filer® PCR Amplification kit) routinely employed in forensic and population genetic studies. This new multiplex system includes six additional STR loci (DYS576, DYS481, DYS549, DYS533, DYS570, and DYS643) to reach the 23 Y-STR of the PowerPlex® Y23 System. In addition, this kit includes the DYS456 and DYS385 loci for traceability purposes. Male samples from 625 individuals from ten worldwide populations were genotyped, including three sample sets from populations previously published with the 17 Y-STR system to expand their current data...
December 16, 2016: Electrophoresis
https://www.readbyqxmd.com/read/27942858/genetic-polymorphisms-of-17-y-chromosomal-strs-in-the-chengdu-han-population-of-china
#14
Hui Wang, Jiong Mao, Yu Xia, Xiaogang Bai, Wenqing Zhu, Duo Peng, Weibo Liang
Chengdu is located at the center of Sichuan Province in southwestern China, and its primary demographic group is the Han population. The aim of this study was to contribute data detailing 17 Y-short tandem repeat (Y-STR) loci from 3291 Chengdu Han male samples analyzed with the AmpFLSTR(®) Yfiler(®) PCR Amplification Kit. We observed 2228 different haplotypes, and haplotype diversity (HD) was 0.9992. Gene diversity (GD) values for the 17 Y-STR loci of the Chengdu Han population ranged from 0.4156 to 0.9529...
December 12, 2016: International Journal of Legal Medicine
https://www.readbyqxmd.com/read/27909867/developmental-validation-of-the-homygene19-14y-system
#15
Weian Du, Ling Chen, Hong Liu, Pingming Qiu, Fayuan Li, Jing Gao, Yu Zhou, Bangchao Wang, Chao Liu
The HomyGene19+14Y System (HG19+14Y) is a PCR-based amplification kit that enables typing of 18 autosomal short tandem repeat (STR) loci (i.e., CSF1PO, D2S1338, D3S1358, D5S818, D6S1043, D7S820, D8S1179, D12S391, D13S317, D16S539, D18S51, D19S433, D21S11, FGA, Penta E, TPOX, TH01, vWA), 14 widely used Y chromosome STR (Y-STR) loci (Y_GATA_H4, DYS385a/b, DYS389I/II, DYS390, DYS391, DYS392, DYS393, DYS438, DYS439, DYS456, DYS458, DYS635), and amelogenin. This multiplex system was designed for the simultaneous analysis of amelogenin-Y allele mutation, single-source searches, kinship (including familial searching), mixture profiles, international data sharing, and other forensic applications...
December 1, 2016: International Journal of Legal Medicine
https://www.readbyqxmd.com/read/27908490/y-chromosomal-haplogroup-distribution-in-the-tuzla-canton-of-bosnia-and-herzegovina-a-concordance-study-using-four-different-in-silico-assignment-algorithms-based-on-y-str-data
#16
S Dogan, N Babic, C Gurkan, A Goksu, D Marjanovic, V Hadziavdic
Y-chromosomal haplogroups are sets of ancestrally related paternal lineages, traditionally assigned by the use of Y-chromosomal single nucleotide polymorphism (Y-SNP) markers. An increasingly popular and a less labor-intensive alternative approach has been Y-chromosomal haplogroup assignment based on already available Y-STR data using a variety of different algorithms. In the present study, such in silico haplogroup assignments were made based on 23-loci Y-STR data for 100 unrelated male individuals from the Tuzla Canton, Bosnia and Herzegovina (B&H) using the following four different algorithms: Whit Athey's Haplogroup Predictor, Jim Cullen's World Haplogroup & Haplogroup-I Subclade Predictor, Vadim Urasin's YPredictor and the NevGen Y-DNA Haplogroup Predictor...
December 2016: Homo: Internationale Zeitschrift Für die Vergleichende Forschung Am Menschen
https://www.readbyqxmd.com/read/27900418/rapid-microfluidic-analysis-of-a-y-str-multiplex-for-screening-of-forensic-samples
#17
Georgiana Gibson-Daw, Patricia Albani, Marcus Gassmann, Bruce McCord
In this paper, we demonstrate a rapid analysis procedure for use with a small set of rapidly mutating Y chromosomal short tandem repeat (Y-STR) loci that combines both rapid polymerase chain reaction (PCR) and microfluidic separation elements. The procedure involves a high-speed polymerase and a rapid cycling protocol to permit PCR amplification in 16 min. The resultant amplified sample is next analysed using a short 1.8-cm microfluidic electrophoresis system that permits a four-locus Y-STR genotype to be produced in 80 s...
November 30, 2016: Analytical and Bioanalytical Chemistry
https://www.readbyqxmd.com/read/27890097/forensic-genetic-study-of-29-y-strs-in-korean-population
#18
Ju Yeon Jung, Ji-Hye Park, Yu-Li Oh, Han-Sol Kwon, Hyun-Chul Park, Kyung-Hwa Park, Eun Hye Kim, Dong-Sub Lee, Si-Keun Lim
In this study, we compared two recently released commercial Y-chromosomal short tandem repeat (Y-STR) kits: the PowerPlex Y23 System (PPY23) and Yfiler® Plus PCR amplification kit (YPlus). We performed validation studies, including sensitivity, tolerance to PCR inhibitors, and mixture analysis, and a population genetics study using 306 unrelated South Korean males. PPY23 and YPlus showed similar sensitivity, but PPY23 showed higher tolerance to humic acid than YPlus. Furthermore, the detection rate of unique minor alleles called from male/male mixtures was higher for PPY23 than for YPlus...
November 2016: Legal Medicine
https://www.readbyqxmd.com/read/27830338/multiplex-assay-development-and-mutation-rate-analysis-for-13-rm-y-strs-in-chinese-han-population
#19
Wenqiong Zhang, Chao Xiao, Jin Yu, Tian Wei, Fei Liao, Wei Wei, Daixin Huang
In this study, a novel multiplex polymerase chain reaction (PCR) assay was developed for amplifying the newly introduced 13 rapidly mutating Y-STR markers (RM Y-STRs) including DYF387S1, DYF399S1, DYF403S1a/b, DYF404S1, DYS449, DYS518, DYS526b, DYS547, DYS570, DYS576, DYS612, DYS626, and DYS627. In addition, a survey for mutation rates of the 13 RM Y-STRs in Chinese Han population was performed to make sure of the mutation characteristic and application in Chinese group. With 14,476 allele transfers in 1034 father-son pairs, 221 mutation events occurred, of which 215 were one-step mutations and 6 were two-step mutations...
March 2017: International Journal of Legal Medicine
https://www.readbyqxmd.com/read/27826995/molecular-diversity-of-23-y-chromosome-short-tandem-repeat-loci-in-the-population-of-tuzla-canton-bosnia-and-herzegovina
#20
Naida Babić, Serkan Dogan, Jasmina Čakar, Amela Pilav, Damir Marjanović, Vesna Hadžiavdić
BACKGROUND: Tuzla Canton is the most populated region in the ethnically mixed territory of Bosnia and Herzegovina, whose genetic analysis could provide an insight into past demographic events. AIM: Analysis of 23 Y-chromosome STR markers in the population of Tuzla Canton and investigation of the genetic relationship of the male population of the Tuzla Canton and that of the larger Bosnian and Herzegovinian population as well as neighbouring and other European populations...
November 30, 2016: Annals of Human Biology
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