DNA methylation-specific multiplex assays for body fluid identification

International Journal of Legal Medicine

Volumn 127, Issue 1, 2013, Pages 35-43

  An, Ja Hyun ^a   Choi, Ajin ^a   Shin, Kyoung Jin ^a   Yang, Woo Ick ^a   Lee, Hwan Young ^a  

^a Yonsei University   (South Korea)

Author keywords

Aging; Body fluid identification; DNA methylation; Methylation SNaPshot; Methylation sensitive restriction enzyme polymerase chain reaction; Tissue specific differentially methylated region

Indexed keywords

ADULT; AGING; ARTICLE; BLOOD ANALYSIS; CHEMISTRY; DNA METHYLATION; FEMALE; FORENSIC GENETICS; HUMAN; MALE; MENSTRUATION; MIDDLE AGED; MULTIPLEX POLYMERASE CHAIN REACTION; RESTRICTION MAPPING; SALIVA; SPERM; SPERMATOZOON; VAGINA;

ADULT; AGING; BLOOD CHEMICAL ANALYSIS; DNA METHYLATION; FEMALE; FORENSIC GENETICS; HUMANS; MALE; MENSTRUATION; MIDDLE AGED; MULTIPLEX POLYMERASE CHAIN REACTION; RESTRICTION MAPPING; SALIVA; SEMEN; SPERMATOZOA; VAGINA;

MLCS; MLOWN;

EID: 84872371159     PISSN: 09379827     EISSN: 14371596     Source Type: Journal    
DOI: 10.1007/s00414-012-0719-1     Document Type: Article

References (31)

1. Kayser M, de Knijff P (2011) Improving human forensics through advances in genetics, genomics and molecular biology. Nat Rev Genet 12:179-192
2. Virkler K, Lednev IK (2009) Analysis of body fluids for forensic purposes: from laboratory testing to non-destructive rapid confirmatory identification at a crime scene. Forensic Sci Int 188:1-17
3. Bauer M, Polzin S, Patzelt D (2003) Quantification of RNA degradation by semi-quantitative duplex and competitive RT-PCR: a possible indicator of the age of bloodstains? Forensic Sci Int 138:94-103
4. Bauer M, Patzelt D (2002) Evaluation of mRNA markers for the identification of menstrual blood. J Forensic Sci 47:1278-1282
5. Juusola J, Ballantyne J (2003) Messenger RNA profiling: a prototype method to supplant conventional methods for body fluid identification. Forensic Sci Int 135:85-96
6. Juusola J, Ballantyne J (2005) Multiplex mRNA profiling for the identification of body fluids. Forensic Sci Int 152:1-12
7. Nussbaumer C, Gharehbaghi-Schnell E, Korschineck I (2006) Messenger RNA profiling: a novel method for body fluid identification by real-time PCR. Forensic Sci Int 157:181-186
8. Juusola J, Ballantyne J (2007) mRNA profiling for body fluid identification by multiplex quantitative RT-PCR. J Forensic Sci 52:1252-1262
9. Zubakov D, Hanekamp E, Kokshoorn M, van Ijcken W, Kayser M (2008) Stable RNA markers for identification of blood and saliva stains revealed from whole genome expression analysis of time-wise degraded samples. Int J Legal Med 122:135-142
10. Hanson EK, Lubenow H, Ballantyne J (2009) Identification of forensically relevant body fluids using a panel of differentially expressed microRNAs. Anal Biochem 387:303-314
11. Setzer M, Juusola J, Ballantyne J (2008) Recovery and stability of RNA in vaginal swabs and blood, semen, and saliva stains. J Forensic Sci 53:296-305
12. Zubakov D, Kokshoorn M, Kloosterman A, Kayser M (2009) New markers for old stains: stable mRNA markers for blood and saliva identification from up to 16-year-old stains. Int J Legal Med 123:71-74
13. Haas C, Klesser B, Maake C, Bär W, Kratzer A (2009) mRNA profiling for body fluid identification by reverse transcription endpoint PCR and realtime PCR. Forensic Sci Int Genet 3:80-88
14. Frumkin D, Wasserstrom A, Budowle B, Davidson A (2011) DNA methylation-based forensic tissue identification. Forensic Sci Int Genet 5:517-524
15. Lee HY, Park MJ, Choi A, An JH, Yang WI, Shin KJ (2012) Potential forensic application of DNA methylation profiling to body fluid identification. Int J Legal Med 126:55-62
16. Holliday R, Pugh JE (1975) DNA modification mechanisms and gene activity during development. Science 187:226-232
17. Bird AP (1986) CpG-rich islands and the function of DNA methylation. Nature 321:209-213
18. Russo VEA, Martienssen RA, Riggs AD (1996) Epigenetic mechanisms of gene regulation. Cold Spring Harbor Laboratory Press, Plainview
19. Byun HM, Siegmund KD, Pan F, Weisenberger DJ, Kanel G, Laird PW, Yang AS (2009) Epigenetic profiling of somatic tissues from human autopsy specimens identifies tissue- and individual-specific DNA methylation patterns. Hum Mol Genet 18:4808-4817
20. Song F, Smith JF, Kimura MT, Morrow AD, Matsuyama T, Nagase H, Held WA (2005) Association of tissue-specific differentially methylated regions (TDMs) with differential gene expression. Proc Natl Acad Sci U S A 102:3336-3341
21. Ohgane J, Yagi S, Shiota K (2008) Epigenetics: the DNA methylation profile of tissue-dependent and differentially methylated regions in cells. Placenta 29:S29-35
22. Illingworth R, Kerr A, Desousa D, Jørgensen H, Ellis P, Stalker J, Jackson D, Clee C, Plumb R, Rogers J, Humphray S, Cox T, Langford C, Bird A (2008) A novel CpG island set identifies tissue-specific methylation at developmental gene loci. PLoS Biol 6:e22
23. Wilson VL, Smith RA, Ma S, Cutler RG (1987) Genomic 5-methyldeoxycytidine decreases with age. J Biol Chem 262:9948-9951
24. Fuke C, Shimabukuro M, Petronis A, Sugimoto J, Oda T, Miura K, Miyazaki T, Ogura C, Okazaki Y, Jinno Y (2004) Age related changes in 5-methylcytosine content in human peripheral leukocytes and placentas: an HPLC-based study. Ann Hum Genet 68:196-204
25. Christensen BC, Houseman EA, Marsit CJ, Zheng S, Wrensch MR, Wiemels JL, Nelson HH, Karagas MR, Padbury JF, Bueno R, Sugarbaker DJ, Yeh RF, Wiencke JK, Kelsey KT (2009) Aging and environmental exposures alter tissue-specific DNA methylation dependent upon CpG island context. PLoS Genet 5:e1000602
26. Bock C, Reither S, Mikeska T, Paulsen M, Walter J, Lengauer T (2005) BiQ Analyzer: visualization and quality control for DNA methylation data from bisulfite sequencing. Bioinformatics 21:4067-4068
27. Rohde C, Zhang Y, Jurkowski TP, Stamerjohanns H, Reinhardt R, Jeltsch A (2008) Bisulfite sequencing Data Presentation and Compilation (BDPC) web server - a useful tool for DNA methylation analysis. Nucleic Acids Res 36:e34
28. Kaminsky Z, Petronis A (2009) Methylation SNaPshot: a method for the quantification of site-specific DNA methylation levels. Meth Mol Biol 507:241-255
29. Li LC, Dahiya R (2002) MethPrimer: designing primers for methylation PCRs. Bioinformatics 18:1427-1431
30. You FM, Huo N, Gu YQ, Luo MC, Ma Y, Hane D, Lazo GR, Dvorak J, Anderson OD (2008) BatchPrimer3: a high throughput web application for PCR and sequencing primer design. BMC Bioinformatics 9:253
31. Frumkin D, Wasserstrom A, Davidson A, Grafit A (2010) Authentication of forensic DNA samples. Forensic Sci Int Genet 4:95-103