Browse > Article
http://dx.doi.org/10.14348/molcells.2017.0039

Cell Death-Associated Ribosomal RNA Cleavage in Postmortem Tissues and Its Forensic Applications  

Kim, Ji Yeon (Department of Legal Medicine, College of Medicine, Korea University)
Kim, Yunmi (Department of Legal Medicine, College of Medicine, Korea University)
Cha, Hyo Kyeong (Department of Legal Medicine, College of Medicine, Korea University)
Lim, Hye Young (Department of Legal Medicine, College of Medicine, Korea University)
Kim, Hyungsub (Department of Legal Medicine, College of Medicine, Korea University)
Chung, Sooyoung (Department of Brain and Cognitive Sciences, Scranton College, Ewha Womans University)
Hwang, Juck-Joon (Department of Legal Medicine, College of Medicine, Korea University)
Park, Seong Hwan (Department of Legal Medicine, College of Medicine, Korea University)
Son, Gi Hoon (Department of Legal Medicine, College of Medicine, Korea University)
Publication Information
Molecules and Cells / v.40, no.6, 2017 , pp. 410-417 More about this Journal
Abstract
Estimation of postmortem interval (PMI) is a key issue in the field of forensic pathology. With the availability of quantitative analysis of RNA levels in postmortem tissues, several studies have assessed the postmortem degradation of constitutively expressed RNA species to estimate PMI. However, conventional RNA quantification as well as biochemical and physiological changes employed thus far have limitations related to standardization or normalization. The present study focuses on an interesting feature of the subdomains of certain RNA species, in which they are site-specifically cleaved during apoptotic cell death. We found that the D8 divergent domain of ribosomal RNA (rRNA) bearing cell death-related cleavage sites was rapidly removed during postmortem RNA degradation. In contrast to the fragile domain, the 5' terminal region of 28S rRNA was remarkably stable during the postmortem period. Importantly, the differences in the degradation rates between the two domains in mammalian 28S rRNA were highly proportional to increasing PMI with a significant linear correlation observed in mice as well as human autopsy tissues. In conclusion, we demonstrate that comparison of the degradation rates between domains of a single RNA species provides quantitative information on postmortem degradation states, which can be applied for the estimation of PMI.
Keywords
28S ribosomal RNA (rRNA); cell death-associated RNA cleavage; postmortem interval (PMI); RNA degradation;
Citations & Related Records
Times Cited By KSCI : 2  (Citation Analysis)
연도 인용수 순위
1 Bahar, B., Monahan, F.J., Moloney, A.P., Schmidt, O., MacHugh, D.E., and Sweeney, T. (2007). Long-term stability of RNA in post-mortem bovine skeletal muscle, liver and subcutaneous adipose tissues. BMC Mol. Biol. 8, 108-120.   DOI
2 Bauer, M. (2007). RNA in forensic science. Forensic Sci. Int. Genet. 1, 69-74.   DOI
3 Bauer, M., Gramlich, I., Polzin, S., and Patzelt, D. (2003). Quantification of mRNA degradation as possible indicator of postmortem interval-a pilot study. Leg. Med. 5, 220-227.   DOI
4 Brennan-Laun, S.E., Ezelle, H.J., Li, X.L., and Hassel, B.A. (2014). RNase-L control of cellular mRNAs: roles in biologic functions and mechanisms of substrate targeting. J. Interferon Cytokine Res. 34, 275-288.   DOI
5 Chung, U., Seo, J.S., Kim, Y.H., Son, G.H., and Hwang, J.J. (2012). Quantitative analyses of postmortem heat shock protein mRNA profiles in the occipital lobes of human cerebral cortices: implications in cause of death. Mol. Cells 34, 473-480.   DOI
6 Gonzalez-Herrera, L., Valenzuela, A., Marchal, J.A., Lorente, J.A., and Villanueva, E. (2013). Studies on RNA integrity and gene expression in human myocardial tissue, pericardial fluid and blood, and its postmortem stability. Forensic. Sci. Int. 232, 218-228.   DOI
7 Degen, W.G., Aarssen, Y., Pruijn, G.J., Utz, P.J., and Venrooij, W.J. (2000a). The fate of U1 snRNP during anti-Fas induced apoptosis: specific cleavage of the U1 snRNA molecule. Cell Death Differ. 7, 70-79.   DOI
8 Degen, W.G., Pruijn, G.J., Raats, J.M., and Venrooij, W.J. (2000b). Caspase-dependent cleavage of nucleic acids. Cell Death Differ. 7, 616-627.   DOI
9 Goff, M.L. (1993). Estimation of postmortem interval using arthropod development and successional patterns. Forensic. Sci. Rev. 5, 81-94.
10 Gorski, J.L., Gonzalez, I.L., and Schmickel, R.D. (1987). The secondary structure of human 28S rRNA: the structure and evolution of a mosaic rRNA gene. J. Mol. Evol. 24, 236-251.   DOI
11 Heinrich, M., Matt, K., Lutz-Bonengel, S., and Schmidt, U. (2007). Successful RNA extraction from various human postmortem tissues. Int. J. Leg. Med. 121, 136-142.   DOI
12 Henssge, C., and Madea, B. (2007). Estimation of the time since death. Forensic. Sci. Int. 165, 182-184.   DOI
13 Maeda, H., Zhu, B.L., Ishikawa, T., and Michiue, T. (2010) Forensic molecular pathology of violent deaths. Forensic Sci. Int. 203, 83-92.   DOI
14 Houge, G., Doskeland, S.O., Boe, E., and Lanotte, M. (1993). Selective cleavage of 28S rRNA variable regions V3 and V13 in myeloid leukemia cell apoptosis. FEBS Lett. 315, 16-20.   DOI
15 Houge, G., Robaye, B., Eikhom, T.S., Golstein, J., Mellgren, G., Gjertsen, B.T., Lanotte, M., and Doskeland, S.O. (1995). Fine mapping of 28S rRNA sites specifically cleaved in cells undergoing apoptosis. Mol. Cell. Biol. 15, 2051-2062.   DOI
16 Koppelkamm, A., Vennemann, B., Fracasso, T., Lutz-Bonengel, S., Schmidt, U., and Heinrich, M. (2010). Validation of adequate endogenous reference genes for the normalisation of qPCR gene expression data in human post mortem tissue. Int. J. Leg. Med. 124, 371-380.   DOI
17 Li, W.C., Ma, K.J., Lv, Y.H., Zhang, P., Pan, H., Zhang, H., Wang, H.J., Ma, D., and Chen, L. (2014). Postmortem interval determination using 18S-rRNA and microRNA. Sci. Justice 54, 307-310.   DOI
18 Lv, Y.H., Ma, J.L., Pan, H., Zhang, H., Li, W.C., Xue, A.M., Wang, H.J., Ma, K.J., and Chen, L. (2016). RNA degradation as described by a mathematical model for postmortem interval determination. J. Forensic. Leg. Med. 44, 43-52.   DOI
19 Michot, B., Bachellerie, J.P., and Raynal, F. (1982). Sequence and secondary structure of mouse 28S rRNA 5' terminal domain. Organisation of the 5.8S-28S rRNA complex. Nucleic Acids Res. 10, 5273-5283.   DOI
20 Michot, B., Hassouna, N., and Bachellerie, J.P. (1984). Secondary structure of mouse 28S rRNA and general model for the folding of the large rRNA in eukaryotes. Nucleic Acids Res. 12, 4259-4279.   DOI
21 Rienzo, M., and Casamassimi, A. (2016). Integrator complex and transcription regulation: Recent findings and pathophysiology. Biochim. Biophys. Acta 1859, 1269-1280.   DOI
22 Nadano, D., and Sato, T.A. (2000). Caspase-3-dependent and - independent degradation of 28S ribosomal RNA may be involved in the inhibition of protein synthesis during apoptosis initiated by death receptor engagement. J. Biol. Chem. 275, 13967-13973.   DOI
23 Naito, T., Yokogawa, T., Takatori, S., Goda, K., Hiramoto, A., Sato, A., Kitade, Y., Sasaki, T., Matsuda, A., Fukushima, M., et al. (2009). Role of RNase L in apoptosis induced by 1-(3-C-ethynyl-beta-D-ribopentofuranosyl) cytosine. Cancer Che-mother. Pharmacol. 63, 837-850.
24 Poor, V.S., Lukacs, D., Nagy, T., Racz, E., and Sipos, K. (2016). The rate of RNA degradation in human dental pulp reveals post-mortem interval. Int. J. Legal Med. 130, 615-619.   DOI
25 Rutjes, S.A., van der Heijden, A., Utz, P.J., van Venrooij, W.J., and Pruijn, G.J. (1999). Rapid nucleolytic degradation of the small cytoplasmic Y RNAs during apoptosis. J. Biol. Chem. 274, 24799-24807.   DOI
26 Sampaio-Silva, F., Magalhaes, T., Carvalho, F., Dinis-Oliveira, R.J., and Silvestre, R. (2013). Profiling of RNA degradation for estimation of post mortem interval. PLoS One 8, e56507.   DOI
27 Smart, J.L., and Kaliszan, M. (2012). The post mortem temperature plateau and its role in the estimation of time of death. A review. Leg. Med. (Tokyo) 14, 55-62.   DOI
28 Sobue, S., Sakata, K., Sekijima, Y., Qiao, S., Murate, T., and Ichihara, M. (2016). Characterization of gene expression profiling of mouse tissues obtained during the postmortem interval. Exp. Mol. Pathol. 100, 482-492.   DOI
29 Vennemann, M., and Koppelkamm, A. (2010a). mRNA profiling in forensic genetics I: Possibilities and limitations. Forensic. Sci. Int. 203, 71-75.   DOI
30 Son, G.H., Park, S.H., Kim, Y., Kim, J.Y., Kim, J.W., Chung, S., Kim, Y.H., Kim, H., Hwang, J.J., and Seo, J.S. (2014). Postmortem mRNA expression patterns in left ventricular myocardial tissues and their implications for forensic diagnosis of sudden cardiac death. Mol. Cells 37, 241-247.   DOI
31 Vennemann, M., and Koppelkamm, A. (2010b). Postmortem mRNA profiling II: Practical considerations. Forensic. Sci. Int. 203, 76-82.   DOI
32 Walker, T.A., Johnson, K.D., Olsen, G.J., Peters, M.A., and Pace, N.R. (1982). Enzymatic and chemical structure mapping of mouse 28S ribosomal ribonucleic acid contacts in 5.8S ribosomal ribonucleic acid. Biochemistry 21, 2320-2329.   DOI
33 Zhang, Y., Najmi, S.M., and Schneider, D.A. (2016). Transcription factors that influence RNA polymerases I and II: To what extent is mechanism of action conserved? Biochim. Biophys. Acta 1860, 246-255.   DOI
34 Maeda, H., Ishikawa, T., and Michiue, T. (2014). Forensic molecular pathology: its impacts on routine work, education and training. Leg. Med. (Tokyo) 16, 61-69.   DOI