Quantitative analysis of amplifiable DNA in tissues exposed to various environments using competitive PCR assays

Science and Justice - Journal of the Forensic Science Society

Volumn 44, Issue 4, 2004, Pages 199-208

  Imaizumi, K ^a   Miyasaka, S ^a   Yoshino, M ^a  

^a NATIONAL RESEARCH INSTITUTE OF POLICE SCIENCE   (Japan)

Author keywords

Amelogenin; Competitive PCR; Forensic science; Mitochondrial DNA; PCR inhibition

Indexed keywords

DNA; MITOCHONDRIAL DNA;

ARTICLE; BONE; CADAVER; COMPETITIVE POLYMERASE CHAIN REACTION; DNA DETERMINATION; GEL ELECTROPHORESIS; GENE AMPLIFICATION; HAIR ROOT; HISTOLOGY; HUMAN; HUMAN TISSUE; HUMERUS; IMAGE ANALYSIS; NUCLEOTIDE SEQUENCE; POLYMERASE CHAIN REACTION; QUANTITATIVE ANALYSIS; RADIUS; RIB; SKIN; SKULL; SOIL; STANDARD; TIBIA; ULTRAVIOLET SPECTROPHOTOMETRY;

EID: 6344275164     PISSN: 13550306     EISSN: None     Source Type: Journal    
DOI: 10.1016/S1355-0306(04)71719-0     Document Type: Article

References (38)

1. Tully G, Bä r W, Brinkmann B, Carracedo A, Gill P, Morling N, Parson W, and Schneider P. Considerations by the European DNA profiling (EDNAP) group on the working practices, nomenclature and interpretation of mitochondrial DNA profiles. Forensic Science International 2001; 124: 83-91.
2. Carracedo A, D'Aloja E, Dupuy B, Jangblad A, Karjalainen M, Lambert C, Parson W, Pfeiffer H, Pfitzinger H, Sabatier M, Syndercombe Court D, and Vide C. Reproducibility of mtDNA analysis between laboratories: a report of the European DNA profiling group (EDNAP). Forensic Science International 1998; 97: 165-170.
3. Gill P, Brinkmann B, D'Aloja E, Andersen J, Bar W, Carracedo A, Dupuy B, Eriksen B, Jangblad M, Johnsson V, Kloosterman AD, Lincoln P, Morling N, Rand S, Sabatier M, Scheithauer R, Schneider P, and Vide MC. Considerations from the European DNA profiling group (EDNAP) concerning STR nomenclature. Forensic Science International 1997; 87: 185-192.
4. Andersen J, Martin P, Carracedo A, Dobosz M, Eriksen B, Johnsson V, Kimpton C. Kloosterman A, Konialis C, Kratzer A, Phillips P, Mevåg B, Pfitzinger H, Rand S, Rosén B, Schmitter H, Schneider P, and M Vide. Report on the third EDNAP collaborative STR exercise. Forensic Science International 1996; 78: 83-93.
5. Holland MM and Parsons TJ. Mitochondrial DNA sequence analysis-Validation and use for forensic casework. Forensic Science Review 1999; 11: 21-50.
6. Parsons TJ and Weedn VW. Preservation and recovery of DNA in postmortem specimens and trace samples. In: Haglund WD, Sorg MH, editors. Forensic taphonomy. The postmortem fate of human remains. New York: CRC Press, 1997; 109-150.
7. Evison MP, Smillie DM, and Chamberlain AT. Extraction of single-copy nuclear DNA from forensic specimens with a variety of postmortem histories. Journal of Forensic Sciences 1997; 42: 1032-1038.
8. Cattaneo C, Craig OE, James NT, and Sokol RJ. Comparison of three DNA extraction methods on bone and blood stains up to 43 years old and amplification of three different gene sequences. Journal of Forensic Sciences 1997; 42: 1126-1135.
9. Handt O, Höss M, Krings M, and Pääbo S. Ancient DNA: methodological challenges. Experientia 1994; 50: 524-529.
10. Pääbo S. Ancient DNA: Extraction, characterization, molecular cloning, and enzymatic amplification. Proceedings of the National Academy of Sciences of the United States of America 1989; 86: 1939-1943.
11. Goodyear PD, MacLaughlin-Black S, and Mason IJ. A reliable method for the removal of co-purifying PCR inhibitors from ancient DNA. BioTechniques 1994; 16: 232-235.
12. Watson RJ and Blackwell B. Purification and characterization of a common soil component which inhibits the polymerase chain reaction. Canadian Journal of Microbiology 2000; 46: 633-642.
13. Burger J, Hummel S, Herrmann B, and Henke W. DNA preservation: a microsatellite-DNA study on ancient skeletal remains.Electrophoresis 1999; 20: 1722-1728.
14. Schmerer WM, Hummel S. and Herrmann B. Optimized DNA extraction to improve reproducibility of short tandem repeat genotyping with highly degraded DNA as target. Electrophoresis 1999; 20: 1712-1716.
15. Imaizumi K, Matsuda H, Kubota S, Miyasaka S, and Yoshino M. The effects of decalcification and glass beads treatment on DNA typings from bone samples (in Japanese). Reports of the National Research Institute of Police Science 1998; 51: 19-28.
16. Lassen C, Hummel S, and Herrmann B. Comparison of DNA extraction and amplification from ancient human bone and mummified soft tissue. International Journal of Legal Medicine 1994; 107: 152-155.
17. Ogata M, Mattern R, Schneider PM, Schacker U, Kaufmann T, and Rittner C. Quantitative and qualitative analysis of DNA extracted from postmortem muscle tissues. Zeitschrift für Rechtsmedizin 1990; 103: 397-406.
18. Ludes B, Pfizinger H, and Mangin P. DNA fingerprinting from tissues after variable postmortem periods. Journal of Forensic Sciences 1993; 38: 686-690.
19. Bär W, Kratzer A, Mächler M. and Schmid W. Postmortem stability of DNA. Forensic Science International 1988; 39: 59-70.
20. Schwartz TR, Schwartz EA, Mieszerski L, McNally L, and Kobilinsky L. Characterization of deoxyribonucieic acid (DNA) obtained from teeth subjected to various environmental conditions. Journal of Forensic Sciences 1991; 36: 979-990.
21. Perry III WL, Bass WM, Riggsby WS, and Sirotkin K. The autodegradation of deoxyribonucleic acid (DNA) in human rib bone and its relationship to the time interval since death. Journal of Forensic Sciences 1988; 33: 144-153.
22. Hochmeister MN, Budowle B, Borer UV, Eggmann U, Comey CT, and Dirnhofer R. Typing of Deoxyribonucleic Acid (DNA) extracted from compact bone from human remains. Journal of Forensic Sciences 1991; 36: 1649-1661.
23. Alvarez García A, Muñoz I, Pestoni C, Lareu MV, Rodriguez-Calvo MS, and Carracedo A. Effect of environmental factors on PCR-DNA analysis from dental pulp. International Journal of Legal Medicine 1996; 109: 125-129.
24. Tahir MA, Caruso JF, Hamby PP, and Sovinski SM. Deoxyribonucleic acid profiling by restriction fragment length polymorphism analysis - a compilation of validation studies. Science & Justice 1995; 36: 173-182.
25. Adams DE, Presley LA, Baumstark AL, Hensley KW, Hill AL, Anoe KS, Campbell PA, McLaughlin CM, Budowle B, Giusti AM, Smerick JB, and Baechtel FS. Deoxyribonucleic Acid (DNA) analysis by restriction fragment length polymorphisms of blood and other body fluid stains subjected to contamination and environmental insults. Journal of Forensic Sciences 1991; 36(5): 1284-1298.
26. McNally L, Shaler RC, Baird M, Balazs I, DeForest P, and Kobilinsky L. Evaluation of Deoxyribonucleic Acid (DNA) Isolated from Human Bloodstains Exposed to Ultraviolet Light, Heat, Humidity, and Soil Contamination. Journal of Forensic Sciences 1989; 34: 1059-1069.
27. Zimmermann K, Mannhalter JW. Technical Aspects of Quantitative Competitive PCR. BioTechniques 1996; 21: 268-279.
28. Handt O, Richards M, Trommsdorff M. Kilger C, Simanainen J, Georgiev O, Bauer K, Stone A, Hedges R, Schaffner W, Utermann G, Sykes B, and Pääbo S. Molecular genetic analyses of the tyrolean ice man. Science 1994; 264: 1775-1778.
29. Senju H, Sekiguchi K, Mizuno N, Yoshida K, Kasai K, Sakai I, Sato H, and Seta S. Preparation of modified primers in PCR amplification of X-Y homologous gene amelogenin for sex determination of forensic samples (in Japanese). Reports of the National Research Institute of Police Science 1994; 47: 7-11.
30. Förster E. An improved general method to generate internal standards for competitive PCR. Biotechniques 1994; 16: 18-20.
31. Walsh PS, Varlaro J, and Reynolds R. A rapid chemiluminescent method for quantitation of human DNA. Nucleic Acids Research 1992; 20: 5061-5065.
32. Bouaboula M, Legoux P, Pességué B, Delpech B. Dumont X, Piechaczyk M, Casellas P, and Shire D. Standardization of mRNA titration using a polymerase chain reaction method involving co-amplification with a multispecific internal control. The Journal of Biological Chemistry 1992; 267: 21830-21838.
33. Cottrez F, Auriault C. Capron A, and Groux H. Quantitative PCR: validation of the use of a multispecific internal control. Nucleic Acids Research 1994; 22: 2712-2713.
34. Bogenhagen D and Clayton DA. The number of mitochondrial deoxyribonucleic acid genomes in mouse L and human HeLa cells. The Journal of Biological Chemistry 1974;249:7991-7995.
35. Michaels GS, Hauswirth WW, and Laipis PJ. Mitochondrial DNA copy number in bovine oocytes and somatic cells. Developmental Biology 1982; 94: 246-251.
36. Wang H, Fliegel L, Cass CE, Penn AMW, Michalak M, Weiner JH, and Lemire BD. Quantification of mitochondrial DNA in heteroplasmic fibroblasts with competitive PCR. Biotechniques 1994; 17: 76-82.
37. Zhang H, Cooney DA, Sreenath A, Zhan Q, Agbaria R, Stowe EE, Fornace, AJ Jr, and Johns DG. Quantitation of mitochondrial DNA in human lymphoblasts by a competitive polymerase chain reaction method: application to the study of inhibitors of mitochondrial DNA content. Molecular Pharmacology 1994; 46: 1063-1069.
38. Hummel S and Herrmann B. General aspects of sample preparation. In: Herrmann B. Hummel S, editors. Ancient DNA: New York: Springer-Verlag, 1994; 59-68.