A new sensitive short pentaplex (ShoP) PCR for typing of degraded DNA

Forensic Science International

Volumn 166, Issue 2-3, 2007, Pages 121-127

  Meissner, C ^a   Bruse, P ^a   Mueller, E ^c   Oehmichen, M ^a,b  

^a UNIVERSITY OF LÜBECK   (Germany)

^b UNIVERSITY OF KIEL   (Germany)

^c Bundeskriminalamt   (Germany)

Author keywords

DNA typing; Forensic casework; Multiplex PCR; Short tandem repeats

Indexed keywords

AMELOGENIN; BACTERIAL DNA; FUNGAL DNA;

ALLELISM; ARTICLE; DNA DEGRADATION; DNA EXTRACTION; DNA FINGERPRINTING; NONHUMAN; NUCLEOTIDE SEQUENCE; POLYMERASE CHAIN REACTION; PRIORITY JOURNAL; SHORT PENTAPLEX POLYMERASE CHAIN REACTION; SHORT TANDEM REPEAT; VALIDATION STUDY;

EID: 33847043874     PISSN: 03790738     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.forsciint.2006.04.014     Document Type: Article

References (38)

1. Hoff-Olsen P., Jacobsen S., Mevag B., and Olaisen B. Microsatellite stability in human post-mortem tissues. Forensic Sci. Int. 119 (2001) 273-278
2. Kimpton C., Fisher D., Watson S., Adams M., Urquhart A., Lygo J., and Gill P. Evaluation of an automated DNA profiling system employing multiplex amplification of four tetrameric STR loci. Int. J. Legal Med. 106 (1994) 302-311
3. Schoske R., Vallone P.M., Ruitberg C.M., and Butler J.M. Multiplex PCR design strategy used for the simultaneous amplification of 10 Y chromosome short tandem repeat (STR) loci. Anal. Bioanal. Chem. 375 (2003) 333-343
4. Butler J.M., Devaney J.M., Marino M.A., and Vallone P.M. Quality control of PCR primers used in multiplex STR amplification reactions. Forensic Sci. Int. 119 (2001) 87-96
5. Hellmann A., Rohleder U., Schmitter H., and Wittig M. STR typing of human telogen hairs-a new approach. Int. J. Legal Med. 114 (2001) 269-273
6. Alvarez Garcia A., Munoz I., Pestoni C., Lareu M.V., Rodriguez-Calvo M.S., and Carracedo A. Effect of environmental factors on PCR-DNA analysis from dental pulp. Int. J. Legal Med. 109 (1996) 125-129
7. Burger J., Hummel S., Hermann B., and Henke W. DNA preservation: a microsatellite-DNA study on ancient skeletal remains. Electrophoresis 20 (1999) 1722-1728
8. Holland M.M., Fisher D.L., Mitchell L.G., Rodriquez W.C., Canik J.J., Merril C.R., and Weedn V.W. Mitochondrial DNA sequence analysis of human skeletal remains: identification of remains from the Vietnam War. J. Forensic Sci. 38 (1993) 542-553
9. Hoff-Olsen P., Mevag B., Staalstrom E., Hovde B., Egeland T., and Olaisen B. Extraction of DNA from decomposed human tissue. An evaluation of five extraction methods for short tandem repeat typing. Forensic Sci. Int. 105 (1999) 171-183
10. Banaschak S., Du Chesne A., and Brinkmann B. Multiple interchanging of tissue samples in cases of breast cancer. Forensic Sci. Int. 113 (2000) 3-7
11. Höss M., Jaruga P., Zastawny T.H., Dizdaroglu M., and Paabo S. DNA damage and DNA sequence retrieval from ancient tissues. Nucl. Acids Res. 7 (1996) 1304-1307
12. Bender K., Farfan M.J., and Schneider P.M. Preparation of degraded human DNA under controlled conditions. Forensic Sci. Int. 139 (2004) 135-140
13. Graw M., Weisser H.J., and Lutz S. DNA typing of human remains found in damp environments. Forensic Sci. Int. 113 (2000) 91-95
14. Pääbo S. Ancient DNA: extraction, characterization, molecular cloning, and enzymatic amplification. Proc. Natl. Acad. Sci. U.S.A. 86 (1989) 1939-1943
15. Handt O., Krings M., Ward R.H., and Pääbo S. The retrieval of ancient human DNA sequences. Am. J. Hum. Genet. 59 (1996) 368-376
16. Fisher D.L., Holland M.M., Mitchell L., Sledzik P.S., Wilcox A.W., Wadhams M., and Weedn V.W. Extraction, evaluation, and amplification of DNA from decalcified and undecalcified United States Civil War bone. J. Forensic Sci. 38 (1993) 60-68
17. Lassen C., Hummel S., and Herrmann B. Comparison of DNA extraction and amplification from ancient human bone and mummified soft tissue. Int. J. Legal Med. 107 (1994) 152-155
18. Shutler G.G., Gagnon P., Verret G., Kalyn H., Korkosh S., Johnston E., and Halverson J. Removal of a PCR inhibitor and resolution of DNA STR types in mixed human-canine stains from a five year old case. J. Forensic Sci. 44 (1999) 623-626
19. Strom M., and Rechitsky S. Use of nested PCR to identify charred human remains and minute amounts of blood. J. Forensic Sci. 43 (1998) 696-700
20. Butler J.M., Shen Y., and McCord B.R. The development of reduced size STR amplicons as tools for analysis of degraded DNA. J. Forensic Sci. 48 (2003) 1054-1064
21. Wiegand P., and Kleiber M. Less is more-length reduction of STR amplicons using redesigned primers. Int. J. Legal Med. 114 (2001) 285-287
22. Rozen S., and Skaletsky H. Primer3 on the WWW for general users and for biologist programmers. Meth. Mol. Biol. 132 (2000) 365-386
23. Walsh P.S., Metzger D.A., and Higuchi R. Chelex 100 as a medium for simple extraction of DNA for PCR-based typing from forensic material. Biotechniques 10 (1991) 506-513
24. Sullivan K.M., Mannucci A., Kimpton C.P., and Gill P. A rapid and quantitative DNA sex test: fluorescence-based PCR analysis of X-Y homologous gene amelogenin. Biotechniques 15 (1993) 636-638 640-641
25. Haas-Rochholz H., and Weiler G. Additional primer sets for an amelogenin gene PCR-based DNA-sex test. Int. J. Legal Med. 110 (1997) 312-315
26. Lazaruk K., Wallin J., Holt C., Nguyen T., and Walsh P.S. Sequence variation in humans and other primates at six short tandem repeat loci used in forensic identity testing. Forensic Sci. Int. 119 (2001) 1-10
27. Kuzniar P., and Ploski R. STR data for the power plex-16 loci in a population from Central Poland. Forensic Sci. Int. 139 (2004) 261-263
28. Delamoye M., Duverneuil C., Riva K., Leterreux M., Taieb S., and De Mazancourt P. False homozygosities at various loci revealed by discrepancies between commercial kits: implications for genetic databases. Forensic Sci. Int. 143 (2004) 47-52
29. Kline M.C., Jenkins B., and Rodgers S. Non-amplification of a VWA allele. J. Forensic Sci. 43 (1998) 250
30. Crouse C.A., and Schumm J. Investigation of species specificity using nine PCR-based human STR systems. J. Forensic Sci. 40 (1995) 952-956
31. Meyer E., Wiegand P., Rand S.P., Kuhlmann D., Brack M., and Brinkmann B. Microsatellite polymorphisms reveal phylogenetic relationships in primates. J. Mol. Evol. 41 (1995) 10-14
32. Kloosterman D., and Kersbergen P. Efficacy and limits of genotyping low copy number (LCN) DNA samples by multiplex PCR of STR loci. J. Soc. Biol. 197 (2003) 351-359
33. Junge A., Lederer T., Braunschweiger G., and Madea B. Validation of the multiplex kit genRESMPX-2 for forensic casework analysis. Int. J. Legal Med. 117 (2003) 317-325
34. Wallin J.M., Buoncristiani M.R., Lazaruk K.D., Fildes N., Holt C.L., and Walsh P.S. TWGDAM validation of the AmpFISTR blue PCR amplification kit for forensic casework analysis. J. Forensic Sci. 43 (1998) 854-870
35. Goodwin W., Linacre A., and Vanezis P. The use of mitochondrial DNA and short tandem repeat typing in the identification of air crash victims. Electrophoresis 20 (1999) 1707-1711
36. Tokuda Y., Nakamura T., Satonaka K., Maeda S., Doi K., Baba S., and Sugiyama T. Fundamental study on the mechanism of DNA degradation in tissues fixed in formaldehyde. J. Clin. Pathol. 43 (1990) 748-751
37. Yagi N., Satonaka K., Horio M., Shimogaki H., Tokuda Y., and Maeda S. The role of DNase and EDTA on DNA degradation in formaldehyde fixed tissues. Biotech. Histochem. 71 (1996) 123-129
38. Barber M.D., and Parkin B.H. Sequence analysis and allelic designation of the two short tandem repeat loci D18S51 and D8S1179. Int. J. Legal Med. 109 (1996) 62-65