Population Genetic Analysis of Haplotypes Based on 17 Short Tandem Repeat Loci on Y Chromosome in Population Sample from Eastern Croatia

Gršković, Branka; Mršić, Gordan; Vrdoljak, Andro; Merkaš, Siniša; Anđelinović, Šimun

doi:10.3325/cmj.2010.51.202

Cited by 8 publications

(5 citation statements)

References 21 publications

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“…In the last fifteen years, genetic structure of Y chromosome has been determined in several countries ( 14 - 24 ). A few studies including 7, 9, or 11 Y-STRs were also conducted in Turkey ( 13 , 25 - 27 ).…”

Section: Discussionmentioning

confidence: 99%

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Haplotype frequencies of 17 Y-chromosomal short tandem repeat loci from the Cukurova region of Turkey

Serin

Canan²,

Alper³

et al. 2011

Croat Med J

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AimTo investigate the distribution of 17 Y-short tandem repeat (STR) loci in the population of the Cukurova region of Turkey.MethodsIn the period between 2009 and 2010, we investigated the distribution of 17 Y-STRs in a sample of 249 unrelated healthy men from the Cukurova region of Turkey. Genomic DNA was extracted with InstaGene matrix and Y-STRs were determined using the AmpFISTR Yfiler PCR amplification kit. Gene and haplotype diversity values were estimated using the Arlequin software. To compare our data to other populations, population pairwise genetic distances and associated probability values were calculated using the Y Chromosome Haplotype Reference Database Web site software.ResultsAt 17 Y-STR loci we detected 148 alleles. The lowest gene diversity in this region was 0.51 for DYS391 and the highest 0.95 for DYS385a/b. Haplotype diversity was 0.9997 ± 0.0004. We compared our data with haplotype data of other Turkish populations and no significant differences were found, except with Ankara population (Φst = 0.025, P = 0.018). Comparisons were also made with the neighboring populations using analysis of molecular variance of the Y-STR loci genetic structure and our population was nearest to Lenkoran-Azerbaijani (Φst = 0.012, P = 0.068) and Iranian Ahvaz population (Φst = 0.007, P = 0.173), followed by Greek (Φst = 0.026, P = 0.000) and Russian (Φst = 0.048, P = 0.000) population. Other countries like Portugal, Spain, Italy, Egypt, Israel (Palestinian Authority Area), and Taiwan showed a high genetic distance from our population.ConclusionOur study showed that Y-STR polymorphisms were a powerful discrimination tool for routine forensic applications and could be used in genealogical investigations.

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Section: Discussionmentioning

confidence: 99%

“…The most striking locus in our population data was DYS458, at which a number of intermediate alleles were observed. Intermediate alleles of DYS458 were most frequently found in Northern and the Eastern Africa and the Caucasus ( 24 , 30 , 31 ). They have been reported to be less common in Europe ( 8 ).…”

Section: Discussionmentioning

confidence: 99%

Haplotype frequencies of 17 Y-chromosomal short tandem repeat loci from the Cukurova region of Turkey

Serin

Canan²,

Alper³

et al. 2011

Croat Med J

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“…Almost the same most frequent allele distribution was found between central, eastern and southern Croatia across all of the loci analyzed, when compared to northern Croatia, where these differences were more pronounced. [20]. Overall, it is important to share the information about the intermediate alleles in different populations, because their low frequencies are informative in Y-STR databases [24].…”

Section: Discussionmentioning

confidence: 99%

“…We followed the guidelines on the use of Y-STRs in forensic analysis established by the DNA Commission of the International Society of Forensic Genetics [19]. We published recently a population genetic analysis of haplotypes based on 17 STR loci on Y chromosome in eastern and northern Croatia [20,21]. Thus, we compared our results from the central Croatia with those published for eastern (Virovitičko-podravska, Požeško-slavonska, Brodsko-posavska, Osječko-baranjska, and Vukovarskosrijemska counties) and northern (Krapinsko-zagorska, Varaždinska, Koprivničko-križevačka and Med¯imurje counties) Croatian regions.…”

Section: Discussionmentioning

confidence: 99%

Genetic polymorphisms of 17 short tandem repeat loci on Y chromosome in central Croatian population

Gršković

Mršić

Polašek

et al. 2011

Forensic Sci Med Pathol

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In forensic casework, Y-chromosome short tandem repeat (STR) haplotyping is used in human identification, paternity testing and sexual assault cases where Y-STRs provide a male-specific DNA profile. The aim of this study was to describe the genetic structure of Y chromosome in a central Croatian population. We carried out a statistical analysis of the data from previously performed genetic analyses collected during routine forensic work by the Forensic Science Centre "Ivan Vučetić". A total of 220 unrelated healthy men from central Croatia were selected for the purpose of this study. Genomic DNA was extracted using a Chelex procedure from FTA(®) cards. Y-chromosomal STRs were determined using the AmpFISTR Yfiler PCR amplification kit. The haplotype frequencies were determined by direct counting and analyzed using Arlequin 3.1 and analysis of molecular variance calculated with the Y chromosome haplotype reference database online analysis tool. A total of 212 haplotypes were identified, 204 of which were unique. Total haplotype diversity was 0.993. Locus diversity varied from 0.325 for DYS392 to 0.786 for DYS385. Discrimination capacity was 92.7%. Allele frequencies diversity was 0.615. Intermediate alleles 17.2, 18.2 and 19.2 were found at DYS458 locus. A comparison with published data for the European minimal haplotype set showed the closest relationship to the Croatian capital of Zagreb and Bosnia and Herzegovina with significant genetic distance from Slovenia and Austria. The central Croatian population is now well characterized in terms of Y-chromosome STRs, thus providing a solid basis for further forensic and genetic epidemiology studies.

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“…Two of 12 alleles on locus DYS458 were microvariant alleles (17.2 and 18.2). The appearance of variant alleles was expected as it is a specific feature of the locus DYS458 ( 6 ). These alleles are most frequently found in the Northern and the Eastern Africa and the Caucasus but are less common in Europe.…”

Section: Discussionmentioning

confidence: 99%

Genetic analysis of haplotype data for 23 Y-chromosome short tandem repeat loci in the Turkish population recently settled in Sarajevo, Bosnia and Herzegovina

2014

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AimTo explore the distribution and polymorphisms of 23 short tandem repeat (STR) loci on the Y chromosome in the Turkish population recently settled in Sarajevo, Bosnia and Herzegovina and to investigate its genetic relationships with the homeland Turkish population and neighboring populations.MethodsThis study included 100 healthy unrelated male individuals from the Turkish population living in Sarajevo. Buccal swab samples were collected as a DNA source. Genomic DNA was extracted using the salting out method and amplification was performed using PowerPlex Y 23 amplification kit. The studied population was compared to other populations using pairwise genetic distances, which were represented with a multi-dimensional scaling plot.ResultsHaplotype and allele frequencies of the sample population were calculated and the results showed that all 100 samples had unique haplotypes. The most polymorphic locus was DYS458, and the least polymorphic DYS391. The observed haplotype diversity was 1.0000 ± 0.0014, with a discrimination capacity of 1.00 and the match probability of 0.01. Rst values showed that our sample population was closely related in both dimensions to the Lebanese and Iraqi populations, while it was more distant from Bosnian, Croatian, and Macedonian populations.ConclusionTurkish population residing in Sarajevo could be observed as a representative Turkish population, since our results were consistent with those previously published for the homeland Turkish population. Also, this study once again proved that geographically close populations were genetically more related to each other.

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Population Genetic Analysis of Haplotypes Based on 17 Short Tandem Repeat Loci on Y Chromosome in Population Sample from Eastern Croatia

Cited by 8 publications

References 21 publications

Haplotype frequencies of 17 Y-chromosomal short tandem repeat loci from the Cukurova region of Turkey

Haplotype frequencies of 17 Y-chromosomal short tandem repeat loci from the Cukurova region of Turkey

Genetic polymorphisms of 17 short tandem repeat loci on Y chromosome in central Croatian population

Genetic analysis of haplotype data for 23 Y-chromosome short tandem repeat loci in the Turkish population recently settled in Sarajevo, Bosnia and Herzegovina

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