Population data and genetic diversity analysis of 17 Y-STR loci in Saudi population
Abstract Background The Y chromosome polymorphism has been widely studied for human migrations, population genetics, forensic applications, and paternity analysis. However, studies regarding genetic lineage and population genetic structure of the Y chromosome in different regions of Saudi Arabia are...
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doaj-f0abe9ff76e24b7abe7b230e1b566c812020-11-25T03:05:32ZengSpringerOpenEgyptian Journal of Forensic Sciences2090-59392020-09-0110111210.1186/s41935-020-00205-3Population data and genetic diversity analysis of 17 Y-STR loci in Saudi populationAhmed Ch. Kassab0Hissah Fahad Mohammed Alaqeel1Safia A. Messaoudi2Saranya R. Babu3Sajjad Ali Shahid4Abdul Rauf Chaudhary5Department of Forensic Sciences, College of Criminal Justice, Naif Arab University for Security SciencesDepartment of Forensic Sciences, College of Criminal Justice, Naif Arab University for Security SciencesDepartment of Forensic Sciences, College of Criminal Justice, Naif Arab University for Security SciencesDepartment of Forensic Sciences, College of Criminal Justice, Naif Arab University for Security SciencesDepartment of Forensic Sciences, College of Criminal Justice, Naif Arab University for Security SciencesDepartment of Forensic Sciences, College of Criminal Justice, Naif Arab University for Security SciencesAbstract Background The Y chromosome polymorphism has been widely studied for human migrations, population genetics, forensic applications, and paternity analysis. However, studies regarding genetic lineage and population genetic structure of the Y chromosome in different regions of Saudi Arabia are limited. Aim This study aimed to analyze the distribution of Y chromosome haplotypes in a sample of 125 native Saudi males from different geographic regions of Saudi Arabia and compare to previously published Y chromosome haplotype data from Saudi Arabia and some neighboring Arab populations. Materials and methods Buccal swabs were collected from 125 healthy unrelated native Saudi males from different geographic regions of Saudi Arabia. Genomic DNA was extracted by Chelex®100; 17 Y-STR loci were amplified using the AmpFℓlSTR Yfiler PCR amplification kit and detected on the 3130 Genetic AnalyzerTM. Allele frequency and gene diversity were calculated with online tool STRAF. The Saudi population data were compared with the neighboring populations using pairwise genetic distances and associated probability values were calculated using the Y Chromosome Haplotype Reference Database Website (YHRD) software. Results and conclusion One hundred six YSTR haplotypes and 102 YSTR alleles (excluding 4 null alleles) were identified having a discrimination capacity (DC) of 85.8%. The highest haplotype diversity (HD) and gene diversity (GD) were observed at the loci DYS 458 (0.817) and DYS385b (0.807), respectively. According to our results, the Iraqi and Qena (Egypt) populations appeared to have closer relatedness to the Saudi population as compared with Yemen. The UAE and Kuwait populations showed the same degree of relatedness to the Saudi population followed by Bahrain. On the contrary, the Adnanit and Qahtanit populations of Jordan demonstrated low genetic distance from the Saudi population. In short, studying a population sample of pure Saudi ethnicity enabled us to identify a unique set of haplotypes which may help in establishing genetic relatedness between Saudi and the neighboring Arab populations. The present paper, therefore, highlights the importance of ensuring ethnic originality of the study sample while conducting population genetics studies.http://link.springer.com/article/10.1186/s41935-020-00205-3Y chromosome STRsSaudi ArabiaForensic geneticsArab population |
collection |
DOAJ |
language |
English |
format |
Article |
sources |
DOAJ |
author |
Ahmed Ch. Kassab Hissah Fahad Mohammed Alaqeel Safia A. Messaoudi Saranya R. Babu Sajjad Ali Shahid Abdul Rauf Chaudhary |
spellingShingle |
Ahmed Ch. Kassab Hissah Fahad Mohammed Alaqeel Safia A. Messaoudi Saranya R. Babu Sajjad Ali Shahid Abdul Rauf Chaudhary Population data and genetic diversity analysis of 17 Y-STR loci in Saudi population Egyptian Journal of Forensic Sciences Y chromosome STRs Saudi Arabia Forensic genetics Arab population |
author_facet |
Ahmed Ch. Kassab Hissah Fahad Mohammed Alaqeel Safia A. Messaoudi Saranya R. Babu Sajjad Ali Shahid Abdul Rauf Chaudhary |
author_sort |
Ahmed Ch. Kassab |
title |
Population data and genetic diversity analysis of 17 Y-STR loci in Saudi population |
title_short |
Population data and genetic diversity analysis of 17 Y-STR loci in Saudi population |
title_full |
Population data and genetic diversity analysis of 17 Y-STR loci in Saudi population |
title_fullStr |
Population data and genetic diversity analysis of 17 Y-STR loci in Saudi population |
title_full_unstemmed |
Population data and genetic diversity analysis of 17 Y-STR loci in Saudi population |
title_sort |
population data and genetic diversity analysis of 17 y-str loci in saudi population |
publisher |
SpringerOpen |
series |
Egyptian Journal of Forensic Sciences |
issn |
2090-5939 |
publishDate |
2020-09-01 |
description |
Abstract Background The Y chromosome polymorphism has been widely studied for human migrations, population genetics, forensic applications, and paternity analysis. However, studies regarding genetic lineage and population genetic structure of the Y chromosome in different regions of Saudi Arabia are limited. Aim This study aimed to analyze the distribution of Y chromosome haplotypes in a sample of 125 native Saudi males from different geographic regions of Saudi Arabia and compare to previously published Y chromosome haplotype data from Saudi Arabia and some neighboring Arab populations. Materials and methods Buccal swabs were collected from 125 healthy unrelated native Saudi males from different geographic regions of Saudi Arabia. Genomic DNA was extracted by Chelex®100; 17 Y-STR loci were amplified using the AmpFℓlSTR Yfiler PCR amplification kit and detected on the 3130 Genetic AnalyzerTM. Allele frequency and gene diversity were calculated with online tool STRAF. The Saudi population data were compared with the neighboring populations using pairwise genetic distances and associated probability values were calculated using the Y Chromosome Haplotype Reference Database Website (YHRD) software. Results and conclusion One hundred six YSTR haplotypes and 102 YSTR alleles (excluding 4 null alleles) were identified having a discrimination capacity (DC) of 85.8%. The highest haplotype diversity (HD) and gene diversity (GD) were observed at the loci DYS 458 (0.817) and DYS385b (0.807), respectively. According to our results, the Iraqi and Qena (Egypt) populations appeared to have closer relatedness to the Saudi population as compared with Yemen. The UAE and Kuwait populations showed the same degree of relatedness to the Saudi population followed by Bahrain. On the contrary, the Adnanit and Qahtanit populations of Jordan demonstrated low genetic distance from the Saudi population. In short, studying a population sample of pure Saudi ethnicity enabled us to identify a unique set of haplotypes which may help in establishing genetic relatedness between Saudi and the neighboring Arab populations. The present paper, therefore, highlights the importance of ensuring ethnic originality of the study sample while conducting population genetics studies. |
topic |
Y chromosome STRs Saudi Arabia Forensic genetics Arab population |
url |
http://link.springer.com/article/10.1186/s41935-020-00205-3 |
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