Haplogroup prediction in the Ghanaian population using haplotype data of 27 Yfiler® Plus loci and TaqMan SNP genotyping

IF 0.5 Q4 GENETICS & HEREDITY

Forensic Science International: Genetics Supplement Series Pub Date : 2022-12-01 DOI:10.1016/j.fsigss.2022.10.015

Pet-Paul Wepeba , Chrissie S. Abaidoo , William H. Goodwin

{"title":"Haplogroup prediction in the Ghanaian population using haplotype data of 27 Yfiler® Plus loci and TaqMan SNP genotyping","authors":"Pet-Paul Wepeba , Chrissie S. Abaidoo , William H. Goodwin","doi":"10.1016/j.fsigss.2022.10.015","DOIUrl":null,"url":null,"abstract":"<div><p>This study describes the use of the 27 loci Yfiler® Plus kit and TaqMan™ SNP genotyping to characterise and predict the haplogroups of Y chromosomes within the four major ethnic populations of Ghana. Haplogroups were assigned using the desktop NevGen software (<span>https://www.nevgen.org/</span><svg><path></path></svg>). The E1b1a and E1b1b haplogroups are the most common in the Ghanaian population and form 95% of the dataset. The Mole-Dagomba sub-population had 4. 8% assigned to the haplogroups G, H, R1b, R2 and T. The Ewe had two samples assigned to haplogroups C and D whilst the Akan had one sample each assigned to haplogroups B, J1 and J2. The NevGen predicted haplogroups were further screened with TaqMan™ genotyping for confirmation. In conclusion, ≈ 95% of the dataset was classified as M-E1b1a using NevGen combined with TaqMan™ SNP Genotyping for confirmation. The TaqMan™ also revealed 5% as J1 and other haplogroups, using an in-house control from the J1 haplogroup.</p></div>","PeriodicalId":56262,"journal":{"name":"Forensic Science International: Genetics Supplement Series","volume":"8 ","pages":"Pages 147-148"},"PeriodicalIF":0.5000,"publicationDate":"2022-12-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.sciencedirect.com/science/article/pii/S1875176822000543/pdfft?md5=cb85b5371c9f5f709fb5abd4dffe0abf&pid=1-s2.0-S1875176822000543-main.pdf","citationCount":"1","resultStr":null,"platform":"Semanticscholar","paperid":null,"PeriodicalName":"Forensic Science International: Genetics Supplement Series","FirstCategoryId":"1085","ListUrlMain":"https://www.sciencedirect.com/science/article/pii/S1875176822000543","RegionNum":0,"RegionCategory":null,"ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"","PubModel":"","JCR":"Q4","JCRName":"GENETICS & HEREDITY","Score":null,"Total":0}

引用次数: 1

Abstract

This study describes the use of the 27 loci Yfiler® Plus kit and TaqMan™ SNP genotyping to characterise and predict the haplogroups of Y chromosomes within the four major ethnic populations of Ghana. Haplogroups were assigned using the desktop NevGen software (https://www.nevgen.org/). The E1b1a and E1b1b haplogroups are the most common in the Ghanaian population and form 95% of the dataset. The Mole-Dagomba sub-population had 4. 8% assigned to the haplogroups G, H, R1b, R2 and T. The Ewe had two samples assigned to haplogroups C and D whilst the Akan had one sample each assigned to haplogroups B, J1 and J2. The NevGen predicted haplogroups were further screened with TaqMan™ genotyping for confirmation. In conclusion, ≈ 95% of the dataset was classified as M-E1b1a using NevGen combined with TaqMan™ SNP Genotyping for confirmation. The TaqMan™ also revealed 5% as J1 and other haplogroups, using an in-house control from the J1 haplogroup.

查看原文本刊更多论文

利用27个Yfiler®Plus基因座单倍型数据和TaqMan SNP基因分型预测加纳人群的单倍型

本研究描述了27个基因座Yfiler®Plus试剂盒和TaqMan的使用™ SNP基因分型，以表征和预测加纳四个主要民族群体中Y染色体的单倍群。使用桌面NevGen软件分配单基因组(https://www.nevgen.org/)。E1b1a和E1b1b单倍群在加纳人群中最常见，占数据集的95%。鼹鼠Dagomba亚群有4个。8%被分配给单倍群G、H、R1b、R2和T。Ewe有两个样本被分配给单倍群C和D，而Akan有一个样本分别被分配给B、J1和J2。NevGen预测的单倍群用TaqMan进一步筛选™ 基因分型确认。总之，使用NevGen和TaqMan将≈95%的数据集分类为M-E1b1a™ SNP基因分型确认。TaqMan™ 还显示5%为J1和其他单倍群，使用来自J1单倍群的内部对照。

本文章由计算机程序翻译，如有差异，请以英文原文为准。

求助全文

约1分钟内获得全文求助全文

来源期刊

Forensic Science International: Genetics Supplement Series Medicine-Pathology and Forensic Medicine

CiteScore

0.40

自引率

0.00%

发文量

122

审稿时长

25 days

期刊介绍： The Journal of Forensic Science International Genetics Supplement Series is the perfect publication vehicle for the proceedings of a scientific symposium, commissioned thematic issues, or for disseminating a selection of invited articles. The Forensic Science International Genetics Supplement Series is part of a duo of publications on forensic genetics, published by Elsevier on behalf of the International Society for Forensic Genetics.