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https://www.readbyqxmd.com/read/27909867/developmental-validation-of-the-homygene19-14y-system
#1
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
#2
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...
November 1, 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
#3
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
#4
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
#5
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...
November 9, 2016: 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
#6
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
https://www.readbyqxmd.com/read/27816850/a-multiplex-pcr-system-for-13-rm-y-strs-with-separate-amplification-of-two-different-repeat-motif-structures-in-dyf403s1a
#7
Eun Young Lee, Hwan Young Lee, So Yeun Kwon, Yu Na Oh, Woo Ick Yang, Kyoung-Jin Shin
In forensic science and human genetics, Y-chromosomal short tandem repeats (Y-STRs) have been used as very useful markers. Recently, more Y-STR markers have been analyzed to enhance the resolution power in haplotype analysis, and 13 rapidly mutating (RM) Y-STRs have been suggested as revolutionary tools that can widen Y-chromosomal application from paternal lineage differentiation to male individualization. We have constructed two multiplex PCR sets for the amplification of 13 RM Y-STRs, which yield small-sized amplicons (<400bp) and a more balanced PCR efficiency with minimum PCR cycling...
October 27, 2016: Forensic Science International. Genetics
https://www.readbyqxmd.com/read/27810583/searching-for-the-mother-missed-since-the-second-world-war
#8
Irena Zupanič Pajnič, Anja Petaros, Jože Balažic, Ksenija Geršak
The aim of the study was to perform the genetic identification of a human cranium from a Second World War gravesite in Slovenia and find out if it belonged to the mother of a woman used as a family reference. Both genetic and anthropological examinations were carried out. The genetic examination was performed on 2 molars and petrous bone. Prior to DNA isolation 0.5 g of tooth and bone powder was decalcified. The DNA was purified in a Biorobot EZ1 (Qiagen) device. The nuclear DNA of the samples was quantified and short tandem repeat (STR) typing performed using two different autosomal and Y-STR kits...
October 24, 2016: Journal of Forensic and Legal Medicine
https://www.readbyqxmd.com/read/27802306/mutation-rates-and-discriminating-power-for-13-rapidly-mutating-y-strs-between-related-and-unrelated-individuals
#9
Alessio Boattini, Stefania Sarno, Carla Bini, Valeria Pesci, Chiara Barbieri, Sara De Fanti, Andrea Quagliariello, Luca Pagani, Qasim Ayub, Gianmarco Ferri, Davide Pettener, Donata Luiselli, Susi Pelotti
Rapidly Mutating Y-STRs (RM Y-STRs) were recently introduced in forensics in order to increase the differentiation of Y-chromosomal profiles even in case of close relatives. We estimate RM Y-STRs mutation rates and their power to discriminate between related individuals by using samples extracted from a wide set of paternal pedigrees and by comparing RM Y-STRs results with those obtained from the Y-filer set. In addition, we tested the ability of RM Y-STRs to discriminate between unrelated individuals carrying the same Y-filer haplotype, using the haplogroup R-M269 (reportedly characterised by a strong resemblance in Y-STR profiles) as a case study...
2016: PloS One
https://www.readbyqxmd.com/read/27766958/more-comprehensive-forensic-genetic-marker-analyses-for-accurate-human-remains-identification-using-massively-parallel-dna-sequencing
#10
Angie D Ambers, Jennifer D Churchill, Jonathan L King, Monika Stoljarova, Harrell Gill-King, Mourad Assidi, Muhammad Abu-Elmagd, Abdelbaset Buhmeida, Bruce Budowle
BACKGROUND: Although the primary objective of forensic DNA analyses of unidentified human remains is positive identification, cases involving historical or archaeological skeletal remains often lack reference samples for comparison. Massively parallel sequencing (MPS) offers an opportunity to provide biometric data in such cases, and these cases provide valuable data on the feasibility of applying MPS for characterization of modern forensic casework samples. In this study, MPS was used to characterize 140-year-old human skeletal remains discovered at a historical site in Deadwood, South Dakota, United States...
October 17, 2016: BMC Genomics
https://www.readbyqxmd.com/read/27714814/genetic-identification-of-communist-crimes-victims-1944-1956-based-on-the-analysis-of-one-of-many-mass-graves-discovered-on-the-powazki-military-cemetery-in-warsaw-poland
#11
Andrzej Ossowski, Marta Diepenbroek, Tomasz Kupiec, Milena Bykowska-Witowska, Grażyna Zielińska, Teresa Dembińska, Andrzej Ciechanowicz
As the result of the communist terror in Poland, during years 1944-1956 more than 50,000 people died. Their bodies were buried secretly, and most places are still unknown. The research presents the results of identification of people buried in one of many mass graves, which were found at the cemetery Powązki Military in Warsaw, Poland. Exhumation revealed the remains of eight people, among which seven were identified genetically. Well-preserved molars were used for the study. Reference material was collected from the closest living relatives...
November 2016: Journal of Forensic Sciences
https://www.readbyqxmd.com/read/27627454/molecular-genealogy-of-a-mongol-queen-s-family-and-her-possible-kinship-with-genghis-khan
#12
Gavaachimed Lkhagvasuren, Heejin Shin, Si Eun Lee, Dashtseveg Tumen, Jae-Hyun Kim, Kyung-Yong Kim, Kijeong Kim, Ae Ja Park, Ho Woon Lee, Mi Jin Kim, Jaesung Choi, Jee-Hye Choi, Na Young Min, Kwang-Ho Lee
Members of the Mongol imperial family (designated the Golden family) are buried in a secret necropolis; therefore, none of their burial grounds have been found. In 2004, we first discovered 5 graves belonging to the Golden family in Tavan Tolgoi, Eastern Mongolia. To define the genealogy of the 5 bodies and the kinship among them, SNP and/or STR profiles of mitochondria, autosomes, and Y chromosomes were analyzed. Four of the 5 bodies were determined to carry the mitochondrial DNA haplogroup D4, while the fifth carried haplogroup CZ, indicating that this individual had no kinship with the others...
2016: PloS One
https://www.readbyqxmd.com/read/27591816/investigation-into-the-sequence-structure-of-23-y-chromosomal-str-loci-using-massively-parallel-sequencing
#13
So Yeun Kwon, Hwan Young Lee, Eun Hye Kim, Eun Young Lee, Kyoung-Jin Shin
Next-generation sequencing (NGS) can produce massively parallel sequencing (MPS) data for many targeted regions with a high depth of coverage, suggesting its successful application to the amplicons of forensic genetic markers. In the present study, we evaluated the practical utility of MPS in Y-chromosome short tandem repeat (Y-STR) analysis using a multiplex polymerase chain reaction (PCR) system. The multiplex PCR system simultaneously amplified 24 Y-chromosomal markers, including the PowerPlex(®) Y23 loci (DYS19, DYS385ab, DYS389I, DYS389II, DYS390, DYS391, DYS392, DYS393, DYS437, DYS438, DYS439, DYS448, DYS456, DYS458, DYS481, DYS533, DYS549, DYS570, DYS576, DYS635, DYS643, and YGATAH4) and the M175 marker with the small-sized amplicons ranging from 85 to 253bp...
August 28, 2016: Forensic Science International. Genetics
https://www.readbyqxmd.com/read/27515831/population-genetics-of-23-y-str-loci-in-the-mongolian-minority-population-in-inner-mongolia-of-china
#14
Tianzhen Gao, Libing Yun, Shuang Gao, Yan Gu, Wang He, Haibo Luo, Yiping Hou
In this study, 23 Y chromosomal STRs (DYS19, DYS389I, DYS389II, DYS390, DYS391, DYS392, DYS393, DYS385a, DYS385b, DYS438, DYS439, DYS437, DYS448, DYS456, DYS458, DYS635, YGATAH4, DYS576, DYS481, DYS549, DYS533, DYS570, and DYS643) were investigated in 258 unrelated individuals of Mongolian descent living in the Inner Mongolia Autonomous Region. A total of 233 different haplotypes were found, and 209 of them were unique. Haplotype diversity was 0.9992 and gene diversity ranged from 0.4840 (DYS391) to 0.9679 (DYS385ab)...
November 2016: International Journal of Legal Medicine
https://www.readbyqxmd.com/read/27501682/-establishment-and-verification-of-6-color-fluorescent-labeled-rapid-pcr-amplification-system
#15
Ya-ju Liu, Jun-tao Zhang, Hai-ying Jin, Mei-sen Shi
OBJECTIVE: To establish the rapid PCR amplification program and system and to verify the technical indexes. METHODS: PCR multiplex and capillary electrophoresis detection of 24 autosomal STR loci and one Y-STR loci using the 6-color fluorescence marking technology, as well as A melogenin and Y-InDel. Meanwhile, sensitivity, specificity, identity, stability, mixing and a batch of sample tests were investigated, and the genotype of various routine samples and degraded, exfoliated cell samples were observed...
April 2016: Fa Yi Xue za Zhi
https://www.readbyqxmd.com/read/27497645/improving-empirical-evidence-on-differentiating-closely-related-men-with-rm-y-strs-a-comprehensive-pedigree-study-from-pakistan
#16
Atif Adnan, Arwin Ralf, Allah Rakha, Nefeli Kousouri, Manfred Kayser
Y-chromosomal short tandem repeat (Y-STR) markers are commonly used in forensic genetics. Male-specific haplotypes provided by commercial Y-STR kits allow discriminating between many - but not all - unrelated men, while they mostly fail to separate related ones. Aiming to improve male relative and paternal lineage differentiation, a set of 13 rapidly-mutating (RM) Y-STRs was previously identified and introduced to forensic Y-chromosome analysis. Recently, their value was highlighted by separating 99% of over 12,200 unrelated men from 111 global populations, as well as 29% of over 2500 male relative pairs, the vast majority were father-sons...
July 9, 2016: Forensic Science International. Genetics
https://www.readbyqxmd.com/read/27497330/y-str-markers-from-ladakh-in-the-himalayas
#17
David Perez-Benedico, Shilpa Chennakrishnaiah, Tenzin Gayden, Diane J Rowold, Ralph Garcia-Bertrand, Rene J Herrera
A total of 223 samples from the general population of Ladakh in Northwestern India were amplified at 17 Y-STR loci using the AmpFlSTR® Yfiler™ system. The DNA profiles generated were employed to generate allelic frequencies, gene diversity, haplotype diversity and discrimination capacity values as well as number of different haplotypes, fraction of unique haplotypes and Rst pair wise genetic distances. Multidimensional Scaling (MDS) and Correspondence Analysis (CA) were performed with the Rst values and allelic frequencies, respectively...
July 2016: Legal Medicine
https://www.readbyqxmd.com/read/27485412/lack-of-gene-language-correlation-due-to-reciprocal-female-but-directional-male-admixture-in-austronesians-and-non-austronesians-of-east-timor
#18
Sibylle M Gomes, Mannis van Oven, Luis Souto, Helena Morreira, Silke Brauer, Martin Bodner, Bettina Zimmermann, Gabriela Huber, Christina Strobl, Alexander W Röck, Francisco Côrte-Real, Walther Parson, Manfred Kayser
Nusa Tenggara, including East Timor, located at the crossroad between Island Southeast Asia, Near Oceania, and Australia, are characterized by a complex cultural structure harbouring speakers from two different major linguistic groups of different geographic origins (Austronesian (AN) and non-Austronesian (NAN)). This provides suitable possibilities to study gene-language relationship; however, previous studies from other parts of Nusa Tenggara reported conflicting evidence about gene-language correlation in this region...
August 3, 2016: European Journal of Human Genetics: EJHG
https://www.readbyqxmd.com/read/27475702/differences-in-urbanization-degree-and-consequences-on-the-diversity-of-conventional-vs-rapidly-mutating-y-strs-in-five-municipalities-from-a-small-region-of-the-tyrolean-alps-in-austria
#19
Harald Niederstätter, Burkhard Berger, Manfred Kayser, Walther Parson
In this study we set out to test at a micro-geographic scale for the potential effects of differences in urbanization degree on Y-chromosomal diversity and the paternal lineage differentiation of "conventional" and rapidly-mutating (RM) Y-STR markers. To avoid systematic underrepresentation of common lineages, 551 male samples were collected under a sampling regime allowing for the inclusion of paternal relatives. All participants came from a small, topographically highly structured, yet culturally homogeneous settlement area in the Tyrolean Alps of Austria, a region that is characterized by a longstanding coexistence of communities differing considerably in size and connection...
September 2016: Forensic Science International. Genetics
https://www.readbyqxmd.com/read/27459350/developmental-validation-of-the-yfiler-%C3%A2-plus-pcr-amplification-kit-an-enhanced-y-str-multiplex-for-casework-and-database-applications
#20
Siddhita Gopinath, Chang Zhong, Vivian Nguyen, Jianye Ge, Robert E Lagacé, Marc L Short, Julio J Mulero
Y-chromosomal loci have proven useful in solving investigations where low levels of male DNA are present in a high female DNA background. An intrinsic limitation of Y-STRs compared with autosomal STRs is a reduced power of discrimination due to a lack of recombination throughout most of the Y-chromosome. Thus, in an effort to increase the power of discrimination we have developed a new 6-dye, 27-plex Y-STR system that includes the 17 loci from the Yfiler(®) and Yfiler(®) Direct kits (DYS19, DYS385a/b, DYS389I/II, DYS390, DYS391, DYS392, DYS393, DYS437, DYS438, DYS439, DYS448, DYS456, DYS458, DYS635 (Y GATA C4), and Y GATA H4) plus three highly polymorphic Y-STR loci (DYS460, DYS481, and DYS533), and seven rapidly mutating Y-STR loci (DYF387S1a/b, DYS449, DYS518, DYS570, DYS576, DYS627) which allow for improved discrimination of related individuals...
September 2016: Forensic Science International. Genetics
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