Novel Y-chromosome Short Tandem Repeat Variants Detected Through the Use of Massively Parallel Sequencing

作     者：David H.Warshauer Jennifer D.Churchill Nicole Novroski Jonathan L.King Bruce Budowle 

作者机构：Institute of Applied Genetics Department of Molecular and Medical Genetics University of North Texas Health Science Center Center of Excellence in Genomic Medicine Research (CEGMR) King Abdulaziz University 

出 版 物：《Genomics, Proteomics & Bioinformatics》 (基因组蛋白质组与生物信息学报（英文版）)

年 卷 期：2015年第13卷第4期

页      面：250-257页

核心收录：

学科分类：100208[医学-临床检验诊断学] 1002[医学-临床医学] 10[医学] 

基　　金：supported in part by the grant‘‘Development of Reference Sample DNA Profiling for Databases Using Next Generation Sequencing Technologies"(Award No.2012-DNBXK033)awarded to BB by the National Institute of Justice Office of Justice Programs U.S 

主　　题：Y-STR Sequence polymorphism Allele variants Massively parallel sequencing Nextera STRait Razor 

摘      要：Massively parallel sequencing （MPS） technology is capable of determining the sizes of short tandem repeat （STR） alleles as well as their individual nueleotide sequences. Thus, single nucleotide polymorphisms （SNPs） within the repeat regions of STRs and variations in the pattern of repeat units in a given repeat motif can be used to differentiate alleles of the same length. In this study, MPS was used to sequence 28 forensically-relevant Y-chromosome STRs in a set of 41 DNA samples from the 3 major U.S. population groups （African Americans, Caucasians, and Hispanics）. The resulting sequence data, which were analyzed with STRait Razor v2.0, revealed 37 unique allele sequence variants that have not been previously reported. Of these, 19 sequences were variations of documented sequences resulting from the presence of intra-repeat SNPs or alternative repeat unit patterns. Despite a limited sampling, two of the most frequently-observed variants were found only in African American samples. The remaining 18 variants represented allele sequences for which there were no published data with which to compare. These findings illustrate the great potential of MPS with regard to increasing the resolving power of STR typing and emphasize the need for sample population characterization of STR alleles.