Asian online Y-STR Haplotype Reference Database

Lessig, R.; Willuweit, Sascha; Krawczak, Michael; Wu, Fang-Chin; Pu, Chang-En; Kim, Wook; Henke, Lotte; Henke, J.; Miranda, Jasmin Jiji; Hidding, M.; Benecke, Mark; Schmitt, Cornelia; Magno, Michelle; Calacal, Gayvelline C.; Delfin, Frederick C.; Ungria, Maria Corazon A. De; Elias, Sahar; Augustin, Christa; Tun, Zaw; Honda, Katsuja; Kayser, Manfred; Gusmão, Leonor; Amorim, António; Alves, Cı́ntia; Hou, Yiping; Keyser, Christine; Ludes, Bertrand; Klintschar, Michael; Immel, Uta Dorothee; Reichenpfader, Barbara; Zaharova, Boriana; Roewer, Lutz

doi:10.1016/s1344-6223(02)00100-1

Cited by 41 publications

(22 citation statements)

References 7 publications

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“…Recently, Y-STR data have been increasingly used to investigate the evolution, migration, and genetic diversity of modern human populations [2,[6][7][8][9][10][11]. This interest in YSTRs as markers for ancestry and population studies have prompted the creation of a comprehensive worldwide Y-STR database called Y-Chromosome Haplotype Reference Database (YHRD, www.yhrd.org) for calculating haplotype frequencies, matching probabilities, and performing comparative population genetic analyses [12][13][14][15]. This global repository currently supports most frequently used haplotype formats, namely, nine-locus minimal (DYS19, DYS389I, DYS389II, DYS390, DYS391, DYS392, DYS393, and DYS385a/b), SWGDAM-recommended 11-locus extended (minimal + DYS438 and DYS439), 12-locus Powerplex (SWGDAM + DYS437), and 17-locus Yfiler haplotypes [1].…”

Section: Introductionmentioning

confidence: 99%

Y-STR diversity in the Himalayas

et al. 2010

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Linguistic and ethnic diversity throughout the Himalayas suggests that this mountain range played an important role in shaping the genetic landscapes of the region. Previous Y-chromosome work revealed that the Himalayas acted as a biased bidirectional barrier to gene flow across the cordillera. In the present study, 17 Y-chromosomal short tandem repeat (Y-STR) loci included in the AmpFlSTR® Yfiler kit were analyzed in 344 unrelated males from three Nepalese populations (Tamang, Newar, and Kathmandu) and a general collection from Tibet. The latter displays the highest haplotype diversity (0.9990) followed by Kathmandu (0.9977), Newar (0.9570), and Tamang (0.9545). The overall haplotype diversity for the Himalayan populations at 17 Y-STR loci was 0.9973, and the corresponding values for the extended (11 loci) and minimal (nine loci) haplotypes were 0.9955 and 0.9942, respectively. No Y-STR profiles are shared across the four Himalayan collections at the 17-, 11-, and nine-locus resolutions considered, indicating a lack of recent gene flow among them. Phylogenetic analyses support our previous findings that Kathmandu, and to some extent Newar, received significant genetic influence from India while Tamang and Tibet exhibit limited or no gene flow from the subcontinent. A median-joining network of haplogroup O3a3c-M134 based on 15 Y-STR loci from our four Himalayan populations suggests either a male founder effect in Tamang, possibly from Tibet, or a recent bottleneck following their arrival south of the Himalayas from Tibet leading to their highly reduced Y single-nucleotide polymorphism and Y-STR diversity. The genetic uniqueness of the four Himalayan populations examined in this study merits the creation of separate databases for individual identification, parentage analysis, and population genetic studies.

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Section: Introductionmentioning

confidence: 99%

Y-STR diversity in the Himalayas

et al. 2010

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“…In DYS392, allele 20 was detected as a new allele. At present, allele 17 has been found in Romania [4], and allele 18 has been found in America [17].…”

Section: Mutation and New Alleles In Nine Y-strsmentioning

confidence: 83%

Population study of Y-chromosome STR haplotypes in Japanese from the Tokushima

2005

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The Y-chromosome short tandem repeat (STR) systems including DYS19, DYS389I/II, DYS390, DYS391, DYS392, DYS393, DYS385 and YCAII were investigated in 121 Japanese males (Tokushima area). Analysis of the nine loci permitted classification of the samples into 107 haplotypes, and the haplotype diversity was estimated to be 0.989. DYS385 showed the highest gene diversity (GD) value (GD=0.946), while DYS391 showed the lowest GD value (GD=0.27). Furthermore, in DYS392, we found a new mutant allele that added a T within the repeat region (a mutation in the repetitive region), and the allele was designated 13.1 according to the sequence structure. We also detected allele 20 in DYS392 as a new allele. In DYS385, a new allele 26 that has not been previously reported was observed.

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“…Figure 2 shows an example for case 4. Using the current Philippine Y-STR database with a power of discrimination of 0.9996 [13,18], Y-STR haplotyping can readily distinguish between multiple assailants provided they are unrelated. However, cases involving related assailants present problems for Y-STRs.…”

Section: Resultsmentioning

confidence: 99%

“…For the 26 cases reported here it was permitted to report that 1 case had an amicable settlement, 6 cases were filed and have reached the court, 5 cases await verdict, 13 cases have yet to be filed and 1 case did not progress. Suspects in these cases were identified based on testimony and obtaining reference samples from these individuals for DNA typing still requires a court order.…”

Section: Resultsmentioning

confidence: 99%

“…Singleplex Y-STR amplification at the DYS19, DYS385, DYS389I, DYS389II, DYS390, DYS391, DYS392, DYS393 loci was performed as described by Kayser et al [12]. Fragment analysis was performed using the ALFexpress DNA sequencer with AlleleLinks software (Amersham-Pharmacia Biotech, Uppsala, Sweden) using in-house ladders [10,13,18]. All allele assignments conformed to published nomenclature and the guidelines for Y-STR analysis set by the International Society of Forensic Genetics (ISFG) [8,13].…”

Section: Dna Amplification and Fragment Analysismentioning

confidence: 99%

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Y-STR analysis for detection and objective confirmation of child sexual abuse

et al. 2004

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We evaluated 26 child sexual assault cases for the incorporation of Y-STR screening in the routine detection and objective confirmation of sexual contact between the child victim and the perpetrator. Various samples, e.g. vaginal or anal swabs from patients aged 2-17 years old (25 females, 1 male), were collected 6-72 h after the incident. Due to the limited amounts of DNA in these samples, total DNA was extracted using a one-step procedure and screened with autosomal STRs to detect signs of a victim-assailant DNA mixture and with Y-STRs for assailant DNA. Autosomal STRs failed to give signs of victim-assailant DNA mixtures while Y-STRs were detected in 24 of the 26 cases corresponding to a success rate of 92.3%. With the possible presence of both male sperm and/or male epithelial cells in forensic evidence, Y-STR DNA markers were detected regardless of external ejaculation, microscopic detection of sperm and with post-coital intervals of up to 72 h. While only partial profiles were generated owing to low quantities of male DNA present, Y-STR screening results can serve as objective evidence of sexual contact in child sexual abuse cases involving victims who do not have any previous sexual history. This type of evidence can corroborate child victim testimony and spare the child victim from further trauma caused by prolonged forensic investigations and court proceedings. Alternatively, Y-STR screening can provide objective proof of non-involvement of an accused with the victim.

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Asian online Y-STR Haplotype Reference Database

Cited by 41 publications

References 7 publications

Y-STR diversity in the Himalayas

Y-STR diversity in the Himalayas

Population study of Y-chromosome STR haplotypes in Japanese from the Tokushima

Y-STR analysis for detection and objective confirmation of child sexual abuse

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