Middle East Journal of Rehabilitation and Health

Published by: Kowsar

Optimized Storage Methods of RNA Extraction from Formalin Fixed Paraffin Embedded Tissue

Mehdi Barati 1 , 2 , Mahdieh Shokrollahi Barough 2 , 3 , Fatemeh Pak 1 , Vahid Semnani 4 , Mehrnoosh Pashaei 2 and Parviz Kokhaei 2 , 5 , *
Authors Information
1 Department of Immunology, Mashhad University of Medical Sciences, Mashhad, IR Iran
2 Cancer Research Center, Semnan University of Medical Sciences, Semnan, IR Iran
3 Immunology Research Center, Iran University of Medical Sciences, Tehran, IR Iran
4 Department of Pathology, Semnan University of Medical Sciences, Semnan, IR Iran
5 Department of Oncology-Pathology, Immune and Gene therapy Lab, Cancer Center Karolinska (CCK), Karolinska University Hospital Solna and Karolinska Institute, Stockholm, Sweden
Article information
  • Middle East Journal of Rehabilitation and Health: April 2018, 5 (2); e63356
  • Published Online: April 16, 2018
  • Article Type: Research Article
  • Received: October 28, 2017
  • Revised: January 31, 2018
  • Accepted: February 17, 2018
  • DOI: 10.5812/mejrh.63356

To Cite: Barati M, Shokrollahi Barough M, Pak F, Semnani V, Pashaei M, et al. Optimized Storage Methods of RNA Extraction from Formalin Fixed Paraffin Embedded Tissue, Middle East J Rehabil Health Stud. 2018 ; 5(2):e63356. doi: 10.5812/mejrh.63356.

Abstract
Copyright © 2018, Middle East Journal of Rehabilitation and Health Studies. This is an open-access article distributed under the terms of the Creative Commons Attribution-NonCommercial 4.0 International License (http://creativecommons.org/licenses/by-nc/4.0/) which permits copy and redistribute the material just in noncommercial usages, provided the original work is properly cited
1. Background
2. Material and Methods
3. Results
4. Discussion
Acknowledgements
References
  • 1. Bohmann K, Hennig G, Rogel U, Poremba C, Mueller BM, Fritz P, et al. RNA extraction from archival formalin-fixed paraffin-embedded tissue: a comparison of manual, semiautomated, and fully automated purification methods. Clin Chem. 2009;55(9):1719-27. doi: 10.1373/clinchem.2008.122572. [PubMed: 19617290].
  • 2. Mies C. A simple, rapid method for isolating RNA from paraffin-embedded tissues for reverse transcription-polymerase chain reaction (RT-PCR). J Histochem Cytochem. 1994;42(6):811-3. doi: 10.1177/42.6.7514626. [PubMed: 7514626].
  • 3. Pak F, Mwakigonja AR, Kokhaei P, Hosseinzadeh N, Pyakurel P, Kaaya E, et al. Kaposi's sarcoma herpesvirus load in biopsies of cutaneous and oral Kaposi's sarcoma lesions. Eur J Cancer. 2007;43(12):1877-82. doi: 10.1016/j.ejca.2007.05.023. [PubMed: 17627810].
  • 4. Matsuda Y, Fujii T, Suzuki T, Yamahatsu K, Kawahara K, Teduka K, et al. Comparison of fixation methods for preservation of morphology, RNAs, and proteins from paraffin-embedded human cancer cell-implanted mouse models. J Histochem Cytochem. 2011;59(1):68-75. doi: 10.1369/jhc.2010.957217. [PubMed: 20940453].
  • 5. Thavarajah R, Mudimbaimannar VK, Elizabeth J, Rao UK, Ranganathan K. Chemical and physical basics of routine formaldehyde fixation. J Oral Maxillofac Pathol. 2012;16(3):400-5. doi: 10.4103/0973-029X.102496. [PubMed: 23248474].
  • 6. Patel PG, Selvarajah S, Guerard KP, Bartlett JMS, Lapointe J, Berman DM, et al. Reliability and performance of commercial RNA and DNA extraction kits for FFPE tissue cores. PLoS One. 2017;12(6). e0179732. doi: 10.1371/journal.pone.0179732. [PubMed: 28640876].
  • 7. Fraenkel-Conrat H, Olcott HS. Reaction of formaldehyde with proteins; cross-linking of amino groups with phenol, imidazole, or indole groups. J Biol Chem. 1948;174(3):827-43. [PubMed: 18871242].
  • 8. Chaw YF, Crane LE, Lange P, Shapiro R. Isolation and identification of cross-links from formaldehyde-treated nucleic acids. Biochemistry. 1980;19(24):5525-31. [PubMed: 7459328].
  • 9. Evers DL, Fowler CB, Cunningham BR, Mason JT, O'Leary TJ. The effect of formaldehyde fixation on RNA: optimization of formaldehyde adduct removal. J Mol Diagn. 2011;13(3):282-8. doi: 10.1016/j.jmoldx.2011.01.010. [PubMed: 21497290].
  • 10. Penzberg RASA. High Pure RNA paraffin Kit. In: Roche, editor. Germany: RNA extraction Kits; 2011.
  • 11. Association WM. Declaration of Helsinki. Ethical Principl Med Res Involv human Sub. 2009.
  • 12. Emily Zeringer TB, Rick C. Faster Nucleic Acid Isolation From FFPE Tissues. Applied Biosystems. 2014. Available from: http://www.lifetechnologies.com/ir/en/home/references/ambion-tech-support/rna-isolation/tech-notes/faster-nucleic-acid-isolation-from-ffpe-tissues.html.
  • 13. Russell JN, Clements JE, Gama L. Quantitation of gene expression in formaldehyde-fixed and fluorescence-activated sorted cells. PLoS One. 2013;8(9). e73849. doi: 10.1371/journal.pone.0073849. [PubMed: 24023909].
  • 14. Mu Y, Zhou H, Li W, Hu L, Zhang Y. Evaluation of RNA quality in fixed and unembedded mouse embryos by different methods. Exp Mol Pathol. 2013;95(2):206-12. doi: 10.1016/j.yexmp.2013.07.005. [PubMed: 23895953].
  • 15. Abramovitz M, Ordanic-Kodani M, Wang Y, Li Z, Catzavelos C, Bouzyk M, et al. Optimization of RNA extraction from FFPE tissues for expression profiling in the DASL assay. Biotechniques. 2008;44(3):417-23. doi: 10.2144/000112703. [PubMed: 18361796].
  • 16. Ogura M, Agata Y, Watanabe K, McCormick RM, Hamaguchi Y, Aso Y, et al. RNA chip: quality assessment of RNA by microchannel linear gel electrophoresis in injection-molded plastic chips. Clin Chem. 1998;44(11):2249-55. [PubMed: 9799750].
  • 17. Egyhazi S, Bjohle J, Skoog L, Huang F, Borg AL, Frostvik Stolt M, et al. Proteinase K added to the extraction procedure markedly increases RNA yield from primary breast tumors for use in microarray studies. Clin Chem. 2004;50(5):975-6. doi: 10.1373/clinchem.2003.027102. [PubMed: 15105365].
  • 18. von Ahlfen S, Missel A, Bendrat K, Schlumpberger M. Determinants of RNA quality from FFPE samples. PLoS One. 2007;2(12). e1261. doi: 10.1371/journal.pone.0001261. [PubMed: 18060057].
  • 19. Nam SK, Im J, Kwak Y, Han N, Nam KH, Seo AN, et al. Effects of fixation and storage of human tissue samples on nucleic Acid preservation. Korean J Pathol. 2014;48(1):36-42. doi: 10.4132/KoreanJPathol.2014.48.1.36. [PubMed: 24627693].
  • 20. Kokkat TJ, Patel MS, McGarvey D, LiVolsi VA, Baloch ZW. Archived formalin-fixed paraffin-embedded (FFPE) blocks: A valuable underexploited resource for extraction of DNA, RNA, and protein. Biopreserv Biobank. 2013;11(2):101-6. doi: 10.1089/bio.2012.0052. [PubMed: 24845430].
  • 21. Ribeiro-Silva A, Zhang H, Jeffrey SS. RNA extraction from ten year old formalin-fixed paraffin-embedded breast cancer samples: a comparison of column purification and magnetic bead-based technologies. BMC Mol Biol. 2007;8:118. doi: 10.1186/1471-2199-8-118. [PubMed: 18154675].
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