Prague, Czech Republic
Prague, Czech Republic

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Ballantyne K.N.,Erasmus University Rotterdam | Ralf A.,Erasmus University Rotterdam | Aboukhalid R.,Mohammed V University | Achakzai N.M.,University of Punjab | And 122 more authors.
Human Mutation | Year: 2014

Relevant for various areas of human genetics, Y-chromosomal short tandem repeats (Y-STRs) are commonly used for testing close paternal relationships among individuals and populations, and for male lineage identification. However, even the widely used 17-loci Yfiler set cannot resolve individuals and populations completely. Here, 52 centers generated quality-controlled data of 13 rapidly mutating (RM) Y-STRs in 14,644 related and unrelated males from 111 worldwide populations. Strikingly, >99% of the 12,272 unrelated males were completely individualized. Haplotype diversity was extremely high (global: 0.9999985, regional: 0.99836-0.9999988). Haplotype sharing between populations was almost absent except for six (0.05%) of the 12,156 haplotypes. Haplotype sharing within populations was generally rare (0.8% nonunique haplotypes), significantly lower in urban (0.9%) than rural (2.1%) and highest in endogamous groups (14.3%). Analysis of molecular variance revealed 99.98% of variation within populations, 0.018% among populations within groups, and 0.002% among groups. Of the 2,372 newly and 156 previously typed male relative pairs, 29% were differentiated including 27% of the 2,378 father-son pairs. Relative to Yfiler, haplotype diversity was increased in 86% of the populations tested and overall male relative differentiation was raised by 23.5%. Our study demonstrates the value of RM Y-STRs in identifying and separating unrelated and related males and provides a reference database. The value of 13 rapidly-mutating (RM) Y-STRs for differentiating male individuals is investigated in 14,644 related and unrelated men sampled from 111 worldwide populations. Over 99% of the 12,272 unrelated men were completely individualized. Of the 2,378 father-son pairs, 27% were separated. Figure: blue lines represent Y-STR haplotypes shared between population pairs in a subset of 7,784 males from 65 populations. Almost all shared haplotypes defined by conventional 17 Yfiler Y-STRs (above) are resolved with the 13 RM Y-STRs (below). © 2014 Wiley Periodicals, Inc.


Ehler E.,Charles University | Vanek D.,Forensic DNA Service | Vanek D.,Charles University | Stenzl V.,Institute of Criminalistics | And 2 more authors.
Croatian Medical Journal | Year: 2011

Aim: To evaluate Y-chromosomal diversity of the Moravian Valachs of the Czech Republic and compare them with a Czech population sample and other samples from Central and South-Eastern Europe, and to evaluate the effects of genetic isolation and sampling. Methods: The first sample set of the Valachs consisted of male donors from the Valach region in northeastern Czech Republic border-area. The second sample set of the Valachs consisted of 79 men who originated from lineages defined by surname. No close relatives were sampled. The third sample set consisted of 273 unrelated men from the whole of the Czech Republic and was used for comparison, as well as published data for other. The total number of samples was 3244. Yshort tandem repeat (STR) markers were typed by standard methods using PowerPlex® Y System (Promega) and Yfiler® Amplification Kit (Applied Biosystems) kits. Y-chromosomal haplogroups were estimated from the haplotype information. Haplotype diversity and other intra- and inter-population statistics were computed. Results: The Moravian Valachs showed a lower genetic variability of Y-STR markers than other Central European populations, resembling more to the isolated Balkan populations (Aromuns, Csango, Bulgarian, and Macedonian Roma) than the surrounding populations (Czechs, Slovaks, Poles, Saxons). We illustrated the effect of sampling on Valach paternal lineages, which includes reduction of discrimination capacity and variability inside Y-chromosomal haplogroups. Valach modal haplotype belongs to R1a haplogroup and it was not detected in the Czech population. Conclusion: The Moravian Valachs display strong substructure and isolation in their Y chromosomal markers. They represent a unique Central European population model for population genetics.


Vanek D.,Forensic DNA Service | Vanek D.,Charles University | Silerova M.,Forensic DNA Service | Urbanova V.,Forensic DNA Service | And 3 more authors.
Forensic Science International: Genetics Supplement Series | Year: 2011

The aim of this study was to develop an extraction protocol for bone samples based on ZR Genomic DNA Tissue MicroPrep kit and perform a quantitative comparison with the existing silica extraction protocol based on Qiagen columns and evaluate the effect of demineralization on the quantity of extracted DNA. © 2011 Elsevier Ireland Ltd.


Vanek D.,Forensic DNA Service | Vanek D.,Charles University | Saskova L.,Forensic DNA Service | Votrubova J.,Forensic DNA Service | And 2 more authors.
Forensic Science International: Genetics Supplement Series | Year: 2015

The quality and reliability of DNA typing results produced by research and forensic laboratories are limited by the amount and condition of the bone samples processed and are influenced by the applied laboratory practice(s). The chance of false-negative or false-positive identification results increases with longer post-mortem intervals and is due to the different environmental factors and common laboratory errors. © 2015 Elsevier Ireland Ltd


Votrubova-Dubska J.,Forensic DNA Service | Vanek D.,Forensic DNA Service | Vanek D.,Charles University | Vanek D.,Bulovka Hospital | And 5 more authors.
Forensic Science International | Year: 2016

During a rescue excavation in October 2011, archaeologists discovered a mass grave with 10 individuals. The skeletons should belong to victims of the battle of Reichenberg between the Austrian and Prussian armies on April 21, 1757. Several bones of the skeletons were covered with a blue colored encrustation. Initial DNA analysis failed due to strong inhibition. Chemical analysis of the bluish encrustation indicated the presence of the iron phosphate mineral vivianite (Fe3(PO4)2·(H2O)8). This technical note describes a novel procedure for the removal of this inhibitory substance. © 2016 Elsevier Ireland Ltd.


Vanek D.,Forensic DNA Service | Vanek D.,Charles University | Silerova M.,Forensic DNA Service | Urbanova V.,Forensic DNA Service | And 3 more authors.
Forensic Science International: Genetics Supplement Series | Year: 2011

The correct use of mitochondrial DNA (mtDNA) testing in the forensic context requires appropriate population databases to determine the relative rarity of the haplotype of the tested sample. The aim of this study was to evaluate the results of full HVRI and HVRII mtDNA sequences of 255 unrelated individuals and to compare the data to the previously published Czech and European population data The results indicate that the full control region sequencing can bring more precise population information that is useful for the comparison with other data sets and also for the forensic identification purposes. © 2011 Elsevier Ireland Ltd.


Vanek D.,Forensic DNA Service | Vanek D.,Charles University | Silerova M.,Forensic DNA Service | Urbanova V.,Forensic DNA Service | And 3 more authors.
Forensic Science International: Genetics Supplement Series | Year: 2011

120 unrelated individuals from the population sample of the Czech Republic were genotyped using the AmpFℓSTR® NGM™ PCR amplification kit (Applied Biosystems). The population study was conducted to evaluate the usefulness of the five new STR loci (D10S1248, D22S1045, D2S441, D1S1656, and D12S391) included in the new European Standard Set and to establish the allele frequencies. © 2011 Elsevier Ireland Ltd.


Emmerova B.,Forensic DNA Service | Emmerova B.,Charles University | Ehler E.,Forensic DNA Service | Ehler E.,Charles University | And 2 more authors.
Forensic Science International: Genetics Supplement Series | Year: 2015

We have encountered a decrease in the number of population studies published in recent years. Allelic frequencies for the new European standard set of loci (D12S391, D1S1656, D2S441, D10S1248, and D22S1045) are not published for many countries. This can lead to bias in statistical evaluation of DNA typing results. © 2015 Elsevier Ireland Ltd.


Vanek D.,Forensic DNA Service | Vanek D.,Charles University | Saskova L.,Forensic DNA Service | Silerova M.,Forensic DNA Service | And 4 more authors.
Forensic Science International: Genetics Supplement Series | Year: 2011

142 unrelated males from the population sample of the Czech Republic were genotyped using the miniSTR pentaplexes I and II in 8 Y-chromosomal STRs not included in Y-filer kit (Applied Biosystems, USA). A total of 142 haplotypes were obtained of which 127 were unique. The most common haplotype were found in 4 samples. We observed the haplotype diversity of 0.998 and the discrimination capacity of 0.894. © 2011 Elsevier Ireland Ltd.


PubMed | North Bohemian Museum Liberec, Institute of Chemical Technology Prague, Bulovka Hospital, Charles University and 2 more.
Type: | Journal: Forensic science international | Year: 2016

During a rescue excavation in October 2011, archaeologists discovered a mass grave with 10 individuals. The skeletons should belong to victims of the battle of Reichenberg between the Austrian and Prussian armies on April 21, 1757. Several bones of the skeletons were covered with a blue colored encrustation. Initial DNA analysis failed due to strong inhibition. Chemical analysis of the bluish encrustation indicated the presence of the iron phosphate mineral vivianite (Fe3(PO4)2(H2O)8). This technical note describes a novel procedure for the removal of this inhibitory substance.

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