A comparative analysis of two different sets of Y-chromosome short tandem repeats (Y-STRs) on a common population panel

Forensic Science International: Genetics

Volumn 4, Issue 1, 2009, Pages 11-20

  Maybruck, Julie L ^a   Hanson, Erin ^b,c   Ballantyne, Jack ^b,c   Budowle, Bruce ^d   Fuerst, Paul A ^a  

^a OHIO STATE UNIVERSITY   (United States)

^b UNIVERSITY OF CENTRAL FLORIDA   (United States)

^c National Center for Forensic Science   (United States)

^d UNIVERSITY OF NORTH TEXAS HEALTH SCIENCE CENTER   (United States)

Author keywords

Forensic science; Microsatellites; Short tandem repeats; Y chromosome; Y STR

Indexed keywords

AFRICAN AMERICAN; ALLELE; ARTICLE; CAUCASIAN; COMPARATIVE STUDY; CONTROLLED STUDY; ETHNIC DIFFERENCE; ETHNICITY; FORENSIC GENETICS; GENE LINKAGE DISEQUILIBRIUM; GENE LOCUS; GENETIC ANALYSIS; GENETIC DIFFERENCE; GENETIC VARIABILITY; HAPLOTYPE; HUMAN; MALE; PRIORITY JOURNAL; SHORT TANDEM REPEAT; Y CHROMOSOME;

AFRICAN CONTINENTAL ANCESTRY GROUP; CHROMOSOMES, HUMAN, Y; DNA; DNA FINGERPRINTING; DNA PRIMERS; EUROPEAN CONTINENTAL ANCESTRY GROUP; GENE FREQUENCY; GENETIC VARIATION; GENOTYPE; HAPLOTYPES; HUMANS; LINKAGE DISEQUILIBRIUM; MALE; POLYMERASE CHAIN REACTION; TANDEM REPEAT SEQUENCES;

EID: 70649104821     PISSN: 18724973     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.fsigen.2009.03.004     Document Type: Article

References (44)

1. Bureau of Justice Statistics, U.S. Department of Justice, Office of Justice Programs. Table 38. Personal crimes of violence, 2006: percent distribution of single-offender victimizations, by type of crime and perceived gender of offender, http://www.ojp.usdoj.gov/bjs.
2. Hurles M.E., Irven C., Nicholson J., Taylor P.G., Santos F.R., Loughlin J., Jobling M.A., and Sykes B.C. European y-chromosomal lineages in polynesians: a contrast to the population structure revealed by mtDNA. Am. J. Hum. Genet. 63 (1998) 1793-1806
3. Pérez-Lezaun A., Calafell F., Comas D., Mateu E., Bosch E., Martinez-Arias R., Clarimon J., Fiori G., Luiselli D., Facchini F., Pettener D., and Bertranpetit J. Sex-specific migration patterns in central Asian populations, revealed by analysis of Y-chromosome short tandem repeats and mtDNA. Am. J. Hum. Genet. 65 (1999) 208-219
4. Arnemann J., Cooke H.J., Jakubiczka S., and Schmidtke J. Human Y-chromosome derived cloned DNA-sequences. Cytogenet. Cell Genet. 40 (1985) 571
5. Chen H., Lowther W., Avramopoulos D., and Antonarakis S.E. Homologous loci DXYS156X and DXYS156Y contain a polymorphic pentanucleotide repeat (TAAAA)n and map to human X and Y chromosomes. Hum. Mutat. 4 (1994) 208-211
6. Mathias N., Bayes M., and Tylersmith C. Highly informative compound haplotypes for the human Y-chromosome. Hum. Mol. Genet. 3 (1994) 115-123
7. Jobling M.A., Samara V., Pandya A., Fretwell N., Bernasconi B., Mitchell R.J., Gerelsaikhan T., Dashnyam B., Sajantila A., Salo P.J., Nakahori Y., Disteche C.M., Thangaraj K., Singh L., Crawford M.H., and Tyler-Smith C. Recurrent duplication and deletion polymorphisms on the long arm of the Y chromosome in normal males. Hum. Mol. Genet. 5 (1996) 1767-1775
8. Kayser M., Caglia A., Corach D., Fretwell N., Gehrig C., Graziosi G., Heidorn F., Herrmann S., Herzog B., Hidding M., Honda K., Jobling M., Krawczak M., Leim K., Meuser S., Meyer E., Oesterreich W., Pandya A., Parson W., Penacino G., Perez-Lezaun A., Piccinini A., Prinz M., Schmitt C., Roewer L., et al. Evaluation of Y-chromosomal STRs: a multicenter study. Int. J. Legal Med. 110 (1997) 125-133 141-129
9. White P.S., Tatum O.L., Deaven L.L., and Longmire J.L. New, male-specific microsatellite markers from the human Y chromosome. Genomics 57 (1999) 433-437
10. Ayub Q., Mohyuddin A., Qamar R., Mazhar K., Zerjal T., Mehdi S.Q., and Tyler-Smith C. Identification and characterisation of novel human Y-chromosomal microsatellites from sequence database information. Nucleic Acids Res. 28 (2000) e8
11. Iida R., Tsubota E., and Matsuki T. Identification and characterization of two novel human polymorphic STRs on the Y chromosome. Int. J. Legal Med. 115 (2001) 54-56
12. Bosch E., Lee A.C., Calafell F., Arroyo E., Henneman P., de Knijff P., and Jobling M.A. High resolution Y chromosome typing: 19 STRs amplified in three multiplex reactions. Forensic Sci. Int. 125 (2002) 42-51
13. Iida R., Tsubota E., Sawazaki K., Masuyama M., Matsuki T., Yasuda T., and Kishi K. Characterization and haplotype analysis of the polymorphic Y-STRs DYS443, DYS444 and DYS445 in a Japanese population. Int. J. Legal Med. 116 (2002) 191-194
14. Redd A.J., Agellon A.B., Kearney V.A., Contreras V.A., Karafet T., Park H., de Knijff P., Butler J.M., and Hammer M.F. Forensic value of 14 novel STRs on the human Y chromosome. Forensic Sci. Int. 130 (2002) 97-111
15. Kayser M., Kittler R., Erler A., Hedman M., Lee A.C., Mohyuddin A., Mehdi S.Q., Rosser Z., Stoneking M., Jobling M.A., Sajantila A., and Tyler-Smith C. A comprehensive survey of human Y-chromosomal microsatellites. Am. J. Hum. Genet. 74 (2004) 1183-1197
16. Skaletsky H., Kuroda-Kawaguchi T., Minx P.J., Cordum H.S., Hillier L., Brown L.G., Repping S., Pyntikova T., Ali J., Bieri T., Chinwalla A., Delehaunty A., Delehaunty K., Du H., Fewell G., Fulton L., Fulton R., Graves T., Hou S.F., Latrielle P., Leonard S., Mardis E., Maupin R., McPherson J., Miner T., Nash W., Nguyen C., Ozersky P., Pepin K., Rock S., Rohlfing T., Scott K., Schultz B., Strong C., Tin-Wollam A., Yang S.P., Waterston R.H., Wilson R.K., Rozen S., and Page D.C. The male-specific region of the human Y chromosome is a mosaic of discrete sequence classes. Nature 423 (2003) 825-837
17. Bosch E., and Jobling M.A. Duplications of the AZFa region of the human Y chromosome are mediated by homologous recombination between HERVs and are compatible with male fertility. Hum. Mol. Genet. 12 (2003) 341-347
18. National Center for Forensic Science associated with the University of Central Florida in conjunction with the Y-STR Consortium, US Y-STR Database, http://www.usystrdatabase.org.
19. L. Roewer, S. Willuweit, Y chromosome haplotype reference database (YHRD), http://YHRD.org.
20. Anslinger K., Keil W., Weichhold G., and Eisenmenger W. Y-chromosomal STR haplotypes in a population sample from Bavaria. Int. J. Legal Med. 113 (2000) 189-192
21. Dupuy B.M., Gedde-Dahl T., and Olaisen B. DXYS267: DYS393 and its X chromosome counterpart. Forensic Sci. Int. 112 (2000) 111-121
22. Carvalho-Silva D.R., and Pena S.D. Molecular characterization and population study of an X chromosome homolog of the Y-linked microsatellite DYS391. Gene 247 (2000) 233-240
23. Chang Y.M., Perumal R., Keat P.Y., and Kuehn D.L.C. Haplotype diversity of 16 Y-chromosomal STRs in three main ethnic populations (Malays, Chinese and Indians) in Malaysia. Forensic Sci. Int. 167 (2007) 70-76
24. Budowle B., Adamowicz M., Aranda X.G., Barna C., Chakraborty R., Cheswick D., Dafoe B., Eisenberg A., Frappier R., Gross A.M., Ladd C., Lee H.S., Milne S.C., Meyers C., Prinz M., Richard M.L., Saldanha G., Tierney A.A., Viculis L., and Krenke B.E. Twelve short tandem repeat loci Y chromosome haplotypes: Genetic analysis on populations residing in North America. Forensic Sci. Int. 150 (2005) 1-15
25. Schoske R., Vallone P.M., Kline M.C., Redman J.W., and Butler J.M. High-throughput Y-STR typing of US populations with 27 regions of the Y chromosome using two multiplex PCR assays. Forensic Sci. Int. 139 (2004) 107-121
26. Butler J.M., Decker A.E., Kline M.C., and Vallone P.M. Chromosomal duplications along the Y-chromosome and their potential impact on Y-STR interpretation. J. Forensic Sci. 50 (2005) 853-859
27. Coyle H.M., Budowle B., Bourke M.T., Carita E., Hintz J.L., Ladd C., Roy C., Yang N.C.S., Palmbach T., and Lee H.C. Population data for seven Y-chromosome STR loci from three different population groups residing in Connecticut. J. Forensic Sci. 48 (2003) 435-437
28. Diederiche M., Martin P., Amorim A., Corte-Real F., and Gusmão L. A case of double alleles at three Y-STR loci: forensic implications. Int. J. Legal Med. 119 (2005) 223-225
29. Hanson E.K., and Ballantyne J. Comprehensive annotated STR physical map of the human Y chromosome: forensic implications. Legal Med. 8 (2006) 110-120
30. Gill P., Brenner C., Brinkmann B., Budowle B., Carracedo A., Jobling M.A., de Knijff P., Kayser M., Krawczak M., Mayr W.R., Morling N., Olaisen B., Pascali V., Prinz M., Roewer L., Schneider P.M., Sajantila A., and Tyler-Smith C. DNA Commission Of The International Society Of Forensic Genetics: recommendations on forensic analysis using Y-chromosome STRs. Int. J. Legal Med. 114 (2001) 305-309
31. Mulero J.J., Chang C.W., Calandro L.M., Green R.L., Li Y., Johnson C.L., and Hennessy L.K. Development and validation of the AmpFlSTR (R) Yfiler (TM) PCR amplification kit: a male specific, single amplification 17 Y-STR multiplex system. J. Forensic Sci. 51 (2006) 64-75
32. SWGDAM, Report on the Current Activities of the Scientific Working Group on DNA Analysis Methods Y-STR Subcomittee, Forensic Sci. Commun. 6 (2004) 1-2.
33. Shewale J.G., Bhushan A., Nasir H., Schneida E., Washington B., Fleming A., Sinha S.K., Gross A.M., and Budowle B. Population data for four population groups from the United States for the eleven Y-chromosome STR loci recommended by SWGDAM. J. Forensic Sci. 51 (2006) 700-702
34. Sinha S.K., Budowle B., Chakraborty R., Paunovic A., Guidry R.D., Larsen C., Lal A., Shaffer M., Pineda G., Schneida E., Nasir H., and Shewale J.G. Utility of the Y-STR typing systems Y-PLEX (TM) 6 and Y-PLEX (TM) 5 in forensic casework and 11 Y-STR haplotype database for three major population groups in the United States. J. Forensic Sci. 49 (2004) 691-700
35. Daniels D.L., Hall A.M., and Ballantyne J. SWGDAM developmental validation of a 19-locus Y-STR system for forensic casework. J. Forensic Sci. 49 (2004) 668-683
36. Raymond M., and Rousset F. Genepop (Version-1.2)-population-genetics software for exact tests and ecumenicism. J. Hered. 86 (1995) 248-249
37. Kittler R., Erler A., Brauer S., Stoneking M., and Kayser M. Apparent intrachromosomal exchange on the human Y chromosome explained by population history. Eur. J. Hum. Genet. 11 (2003) 304-314
38. Niederstätter H., Berger B., Oberacher H., Brandstatter A., Huber C.G., and Parson W. Separate analysis of DYS385a and b versus conventional DYS385 typing: is there forensic relevance?. Int. J. Legal Med. 119 (2005) 1-9
39. Gusmão L., Butler J.M., Carracedo A., Gill P., Kayser M., Mayr W.R., Morling N., Prinz M., Roewer L., Tyler C., and Schneider P.M. DNA Commission of the International Society of Forensic Genetics (ISFG): an update of the recommendations on the use of Y-STRs in forensic analysis. Int. J. Legal Med. 120 (2006) 191-200
40. Beleza S., Alves C., González-Neira A., Lareu M., Amorim A., Carracedo A., and Gusmão L. Extending STR markers in Y chromosome haplotypes. Int. J. Legal Med. 117 (2003) 27-33
41. deKnijff P., Kayser M., Caglià A., Corach D., Fretwell N., Gehrig C., Graziosi G., Heidorn F., Herrmann S., Herzog B., Hidding M., Honda K., Jobling M., Krawczak M., Leim K., Meuser S., Meyer E., Oesterreich W., Pandya A., Parson W., Penacino G., Pérez-Lezaun A., Piccinini A., Prinz M., Schmitt C., Schneider P.M., Szibor R., TeifelGreding J., Weichhold G., and Roewer L. Chromosome Y microsatellites: population genetic and evolutionary aspects. Int. J. Legal Med. 110 (1997) 134-149
42. Sinha S.K., Nasir H., Gross A.M., Budowle B., and Shewale J.G. Development and validation of the Y-PLEX (TM) 5, a Y-chromosome STR genotyping system, for forensic casework. J. Forensic Sci. 48 (2003) 985-1000
43. Sinha S.K., Budowle B., Arcot S.S., Richey S.L., Chakraborty R., Jones M.D., Wojtkiewicz P.W., Schoenbauer D.A., Gross A.M., and Shewale J.G. Development and validation of a multiplexed Y-chromosome STR genotyping system, Y-PLEX (TM) 6, for forensic casework. J. Forensic Sci. 48 (2003) 93-103
44. B. Budowle, Understanding and Interpreting Y STR Evidence, Paper Presented at Y-STR Analysis on Forensic Casework Workshop American Academy of Forensic Sciences 56th Annual Meeting, Dallas, Texas, 2004.