The development of reduced size STR amplicons as tools for analysis of degraded DNA

Journal of Forensic Sciences

Volumn 48, Issue 5, 2003, Pages 1054-1064

  Butler, John M ^a   Shen, Yin ^b,c   McCord, Bruce R ^b  

^a NATIONAL INSTITUTE OF STANDARDS AND TECHNOLOGY   (United States)

^b OHIO UNIVERSITY   (United States)

^c Crompton Corporation   (United States)

Author keywords

CSF1PO; D13S317; D16S539; D18S51; D21S11; D2S1338; D3S1358; D5S818; D7S820; D8S1179; Degraded DNA; DNA typing; Dye artifacts; FGA; Forensic science; MiniSTR; Penta D; Penta E; STR; TH01; TPOX; VWA

Indexed keywords

PRIMER DNA;

ALLELE; AMPLICON; ARTICLE; CONTROLLED STUDY; DNA DEGRADATION; DNA DETERMINATION; FORENSIC MEDICINE; GENE AMPLIFICATION; GENOTYPE; HUMAN; INSTRUMENTATION; MOLECULAR SIZE; NUCLEOTIDE SEQUENCE; POLYMERASE CHAIN REACTION; PRIORITY JOURNAL; REDUCTION; SIGNAL TRANSDUCTION; TANDEM REPEAT;

EID: 0043282586     PISSN: 00221198     EISSN: None     Source Type: Journal    
DOI: 10.1520/jfs2003043     Document Type: Article

References (32)

1. Lygo JE, Johnson PE, Holdaway DJ, Woodroffe S, Whitaker JP, Clayton TM, et al. The validation of short tandem repeat (STR) loci for use in forensic casework. Int J Legal Med 1994;107:77-89.
2. Budowle B, Moretti TR, Baumstark AL, Defenbaugh DA, Keys KM. Population data on the thirteen CODIS core short tandem repeat loci in African Americans, U.S. Caucasians, Hispanics, Bahamians, Jamaicans, and Trinidadians. J Forensic Sci 1999;44(6):1277-86.
3. Butler JM. Forensic DNA typing: biology and technology behind STR markers. London: Academic Press, 2001.
4. Bar W, Kratzer A, Machler M, Schmid W. Postmortem stability of DNA. Forensic Sci Int 1988;39(1):59-70.
5. Whitaker JP, Clayton TM, Urquhart AJ, Millican ES, Downes TJ, Kimpton CP, et al. Short tandem repeat typing of bodies from a mass disaster: high success rate and characteristic amplification patterns in highly degraded samples. BioTechniques 1995;18(4):670-7.
6. Krenke BE, Tereba A, Anderson SJ, Buel E, Culhane S, Finis CJ, et al. Validation of a 16-locus fluorescent multiplex system. J Forensic Sci 2002;47(4):773-85.
7. Butler JM, Levin BC. Forensic applications of mitochondrial DNA. Trends Biotech 1998;16:158-62.
8. Wiegand P, Kleiber M. Less is more-length reduction of STR amplicons using redesigned primers. Int J Legal Med 2001;114(4-5):285-7.
9. Tsukada K, Takayanagi K, Asamura H, Ota M, Fukushima H. Multiplex short tandem repeat typing in degraded samples using newly designed primers for the TH01, TPOX, CSF1PO, and vWA loci. Legal Med 2002;4:239-45.
10. Sparkes R, Kimpton CP, Watson S, Oldroyd NJ, Clayton TM, Barnett L, et al. The validation of a 7-locus multiplex STR test for use in forensic casework: (I) mixtures, ageing, degradation and species studies. Int J Legal Med 1996;109:186-94.
11. Yoshida K, Sekiguchi K, Kasai K, Sato H, Seta S, Sensabaugh GF. Evaluation of new primers for CSF1PO. Int J Legal Med 1997;110(1):36-8.
12. Szibor R, Kayser M, Roewer L. Identification of the human Y-chromosomal microsatellite locus DYS19 from degraded DNA. Am J Forensic Med Pathol 2000;21(3):252-4.
13. Hellmann A, Rohleder U, Schmitter H, Wittig M. STR typing of human telogen hairs - a new approach. Int J Legal Med 2001;114(4-5): 269-73.
14. Butler JM, Li J, Shaler TA, Monforte JA, Becker CH. Reliable genotyping of short tandem repeat loci without an allelic ladder using time-of-flight mass spectrometry. Int J Legal Med 1998;112(1):45-9.
15. Butler JM, Becker CH. Improved analysis of DNA short tandem repeats with time-of-flight mass spectrometry. Washington, DC: Science and Technology Research Report, National Institute of Justice, 2001 Oct.; see http://www.ojp.usdoj.gov/nij/pubs-sum/188292.htm.
16. Schmalzing D, Koutny L, Adourian A, Belgrader P, Matsudaira P, Ehrlich D. DNA typing in thirty seconds with a microfabricated device. Proc Natl Acad Sci USA 1997;94:10273-8.
17. Budowle B, Moretti TR, Niezgoda SJ, Brown BL. CODIS and PCR-based short tandem repeat loci: law enforcement tools. Proceedings of the Second European Symposium on Human Identification, 1998;73-88; see http://www.promega.com/geneticidproc/eusymp2proc/17.pdf.
18. Ruitberg, CM, Reeder, DJ, Butler, JM. STRBase: a short tandem repeat DNA database for the human identity testing community, Nucleic Acids Res 2001;29:320-2; see http://www.cstl.nist.gov/biotech/strbase.
19. Rozen S, Skaletsky HJ. Primer3 (primer 3_www.cgi v 0.2); 1998. Code available at http://www.genome.wi.mit.edu/cgi-bin/primer/ primer3_www.cgi.
20. Butler JM, Ruitberg, CM, Vallone, PM. Capillary electrophoresis as a tool for optimization of multiplex PCR reactions. Fresenius J Anal Chem 2001;369:200-5.
21. Schoske R, Vallone PM, Ruitberg CM, Butler JM. Multiplex PCR design strategy used for the simultaneous amplification of 10 Y chromosome short tandem repeat (STR) loci. Anal Bioanal Chem 375:333-42.
22. Kline MC, Duewer DL, Redman JW, Butler JM, Boyer DA. Polymerase chain reaction amplification of DNA from aged blood stains: quantitative evaluation of the "suitability for purpose" of four filter papers as archival media. Anal Chem 2002;74(8):1863-9.
23. Egyed B, Furedi S, Angyal M, Boutrand L, Vandenberghe A, Woller J, Padar Z. Analysis of eight STR loci in two Hungarian populations. Forensic Sci Int 2000;113(1-3):25-7.
24. Alves C, Amorim A, Gusmao L, Pereira L. VWA STR genotyping: further inconsistencies between Perkin-Elmer and Promega kits. Int J Legal Med 2001;115(2):97-9.
25. Budowle B, Masibay A, Anderson SJ, Barna C, Biega L, Brenneke S, et al. STR primer concordance study. Forensic Sci Int 2001;124(1):47-54.
26. Han GR, Song ES, Hwang JJ. Non-amplification of an allele of the D8S1179 locus due to a point mutation. Int J Legal Med 2001; 115(1):45-7.
27. Boutrand L, Egyed B, Furedi S, Mommers N, Mertens G, Vandenberghe A. Variations in primer sequences are the origin of allele dropout at loci D13S317 and CD4. Int J Legal Med 2001;114(4-5):295-7.
28. Butler JM, Li J, Monforte JA, Becker CH. GeneTrace Systems Inc., assignee. DNA typing by mass spectrometry with polymorphic DNA repeat markers. U.S. Patent 6,090,558. 2000 July 18.
29. Brownstein MJ, Carpten JD, Smith JR. Modulation of non-templated nucleotide addition by Taq DNA polymerase: primer modifications that facilitate genotyping. BioTechniques 1996;20(6):1004-10.
30. th International Congress of the International Society for Forensic Genetics, Munster, Germany, August 2001.
31. Hartzell B, Graham K, McCord B. Response of short tandem repeat systems to temperature and sizing methods. Forensic Sci Int 2003;133: 228-34.
32. Gill P, Whitaker J, Flaxman C, Brown N, Buckleton J. An investigation of the rigor of interpretation rules for STRs derived from less than 100 pg of DNA. Forensic Sci Int 2000;112(1):17-40.