Y-STR analysis of degraded DNA using reduced-size amplicons

Park, Myung Jin; Lee, Hwan Young; Chung, Ukhee; Kang, Seung-Chul; Shin, Kyoung Jin

doi:10.1007/s00414-006-0133-7

Cited by 38 publications

(24 citation statements)

References 36 publications

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“…Because of environmental destruction and the scarcity of forensic samples, incomplete Y-STR profiles are often obtained from trace evidence material or mixed male/female samples in forensic casework. The DYS19, DYS389II, DYS448, and DYS635 loci have been reported to be among the most frequent noninformative loci, followed by DYS385a/b, DYS390, DYS392, DYS437, and DYS438 in the 17 Y-STRs system [6,14,15]. Loss of the signals will decrease the discrimination capacity.…”

Section: Introductionmentioning

confidence: 95%

Seventeen Y-chromosomal short tandem repeat haplotypes in seven groups of population living in Taiwan

Hwa

Tseng

Ko³

et al. 2010

Int J Legal Med

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The analysis of Y-chromosome short tandem repeat (Y-STR) loci is a powerful tool in forensic casework. The aim of this study was to present the 17 Y-STR loci haplotype distributions of groups of population living in Taiwan and to demonstrate genetic distances between the groups as well as multidimensional scaling plot based on Y-STR genotype data. Five hundred and fifteen DNA samples from unrelated males of seven groups of population, including Taiwanese Han, two groups of indigenous Taiwanese of Taiwan Island, Tao, mainland Chinese, Filipinos, and a group of people with European, Near Eastern, or South Asian ancestry, were analyzed using a commercial kit that co-amplifies 17 Y-STRs. A total of 471 different haplotypes with 440 unique haplotypes were identified. The overall haplotype diversity was 0.9995 +/- 0.0002. High haplotype diversity was observed in six groups of population, except the Tao. These Y-STRs revealed a low discrimination capacity in the Tao population (36.84%), which should be considered in forensic practice. The multidimensional scaling plot of these seven groups of population constructed based on the genetic distances according to 17 Y-STR loci presented a clear patrilineal genetic substructure in the area. Partial Y-STRs profiling reduced the discrimination capacity in most groups of population and distorted the multidimensional scaling plot.

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Section: Introductionmentioning

confidence: 95%

Seventeen Y-chromosomal short tandem repeat haplotypes in seven groups of population living in Taiwan

Hwa

Tseng

Ko³

et al. 2010

Int J Legal Med

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“…The problem with which forensic scientists have recently been confronted involves the technical difficulty of analyzing degraded DNA samples. In recent years, several papers have demonstrated that short amplicon STR (miniSTR) represents one of the most useful tools for analyzing degraded DNA samples [1][2][3][4][5][6][7][8][9][10][11][12][13][14]. On the other hand, given Y-STRs role as a characteristic feature of haploid paternal inheritance without recombination, analysis of Y-STR plays a major role in male personal identification, deficiency paternity cases including male relatives, and male profiling for sexual assaults involving male-female stain mixtures.…”

Section: Introductionmentioning

confidence: 99%

Evaluation of miniY-STR multiplex PCR systems for extended 16 Y-STR loci

et al. 2007

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We developed three short amplicon Y-chromosomal short tandem repeat (miniY-STR) polymerase chain reaction multiplex systems for 16 Y-STR loci (DYS441, DYS446, DYS462, DYS481, DYS485, DYS495, DYS505, DYS510, DYS511, DYS549, DYS 575, DYS578, DYS593, DYS618, DYS638, and DYS643), using newly designed primer sets. In an assay of 238 Japanese males using the three miniY-STR systems, amplification product lengths ranged from 91 to 151 bp for all 16 Y-STR loci. We identified 212 different haplotypes among the 238 individuals, finding haplotype diversity and discrimination capacity of 0.9974 and 0.8908, respectively. An assay of degraded DNA samples using the three miniY-STR multiplex systems, including artificially degraded samples and degraded forensic casework samples, proved remarkably effective. In conclusion, analyses of miniY-STR multiplex systems will play an important role in forensic applications involving degraded DNA samples for which genotyping using only commercial kits is ill-suited.

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“…Therefore, allelic and haplotypic frequencies of Y-STRs should be determined in a male population prior to any interpretations of forensic analysis and paternity testing [6,[8][9][10][11]19]. In this study, allelic and haplotypic frequent-cies involving 10 Y-STR loci: 8 Y-STR loci as recommended by Y Chromosome Consortium (YCC) plus DYS388 and YCAIIa/b-have been determined with such a necessity in a representative group of Turkish population in order to make comparisons with other populations.…”

Section: Introductionmentioning

confidence: 99%

An investigation of 10 Y-STR loci and the detection of specific haplotype frequencies in Turkish population

Rüstemoğlu

Akay²,

Karabulut³

et al. 2011

AJMB

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This study is to survey 10 Y-STR loci in 241 males from Turkey.In this study, the 241 healthy and unrelated males living in different parts of Turkey for at least three generations were included. Genomic DNAs were isolated from peripheral blood samples by standard phenol-chloroform extraction method. 10 Y-STR loci including DYS19, DYS385a/b, DYS388, DYS389I/II, DYS390, DYS391, DYS392, DYS393, and YCAIIa/b were analyzed by using PCR and denaturing PAGE.Allele frequencies, gene diversities and haplotype frequencies were analyzed. Gene diversity per locus varied from 0.5788 (DYS388) to 0.8903 (DYS385a/b). The numbers of haplotypes in minHt recommended by YCC and Ht10 have been 208 and 186, respectively. When our minHt haplotypes frequencies compared with the other seven populations, we have found statistically significant differences between our results and other populations (p < 0.01) except that Czech population (p > 0.05). We suggest that an alternative haplotype designated as aHt maybe alternative to minHt in respect of its Y-STR content with the highest gene diversity value. The aHt haplotype has found a higher discriminatory potential than minHt haplotype with a better P d combined value (0.9999936 vs 0.9999836) and has higher average gene diversity per locus (0.7834 vs 0.7518) in Turkish population.aHt haplotype can be proposed as an alternative to minHt in paternity testing and forensic medicine applications involving Turkish male population. This study has also provided additional information to the framework of variation involving 10 Y-STR loci as well as a further contribution to the Y-STR database for Turkish male population.

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Y-STR analysis of degraded DNA using reduced-size amplicons

Cited by 38 publications

References 36 publications

Seventeen Y-chromosomal short tandem repeat haplotypes in seven groups of population living in Taiwan

Seventeen Y-chromosomal short tandem repeat haplotypes in seven groups of population living in Taiwan

Evaluation of miniY-STR multiplex PCR systems for extended 16 Y-STR loci

An investigation of 10 Y-STR loci and the detection of specific haplotype frequencies in Turkish population

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