Comprehensive mutation analysis of 17 Y-chromosomal short tandem repeat polymorphisms included in the AmpFlSTR (R) Yfiler (R) PCR amplification kit

MA (Miriam) Goedbloed, Mark Vermeulen, RXN Fang, M (Maria) Lembring, Andreas Wollstein, Kaye Ballantyne, Oscar Lao Grueso, Silke Brauer, C Kruger, L Roewer, R Lessig, R Ploski, T Dobosz, L Henke, J Henke, MR Furtado, Manfred Kayser

Research output: Contribution to journalArticleAcademicpeer-review

119 Citations (Scopus)

Abstract

The Y-chromosomal short tandem repeat (YSTR) polymorphisms included in the AmpFlSTR (R) Yfiler (R) polymerase chain reaction amplification kit have become widely used for forensic and evolutionary applications where a reliable knowledge on mutation properties is necessary for correct data interpretation. Therefore, we investigated the 17 Yfiler Y-STRs in 1,730-1,764 DNA-confirmed father-son pairs per locus and found 84 sequence-confirmed mutations among the 29,792 meiotic transfers covered. Of the 84 mutations, 83 (98.8%) were single-repeat changes and one (1.2%) was a double-repeat change (ratio, 1:0.01), as well as 43 (51.2%) were repeat gains and 41 (48.8%) repeat losses (ratio, 1:0.95). Medians from Bayesian estimation of locus-specific mutation rates ranged from 0.0003 for DYS448 to 0.0074 for DYS458, with a median rate across all 17 Y-STRs of 0.0025. The mean age (at the time of son's birth) of fathers with mutations was with 34.40 (+/-11.63) years higher than that of fathers without ones at 30.32 (+/-10.22) years, a difference that is highly statistically significant (p<0.001). A Poisson-based modeling revealed that the Y-STR mutation rate increased with increasing father's age on a statistically significant level (alpha=0.0294, 2.5% quantile=0.0001). From combining our data with those previously published, considering all together 135,212 meiotic events and 331 mutations, we conclude for the Yfiler Y-STRs that (1) none had a mutation rate of >1%, 12 had mutation rates of >0.1% and four of <0.1%, (2) single-repeat changes were strongly favored over multiple-repeat ones for all loci but 1 and (3) considerable variation existed among loci in the ratio of repeat gains versus losses. Our finding of three Y-STR mutations in one father-son pair (and two pairs with two mutations each) has consequences for determining the threshold of allelic differences to conclude exclusion constellations in future applications of Y-STRs in paternity testing and pedigree analyses.
Original languageUndefined/Unknown
Pages (from-to)471-482
Number of pages12
JournalInternational Journal of Legal Medicine
Volume123
Issue number6
DOIs
Publication statusPublished - 2009

Research programs

  • EMC MGC-02-26-01

Cite this