Formalin Fixation of Human Healthy Autopsied Tissues: The Influence of Type of Tissue, Temperature and Incubation Time on the Quality of Isolated DNA

1. Legnard, B., Mazancourt, P.D., Durigon, M., Khalifat., V, Crainic, K. (2002). DNA genotyping of unbuffered formalin fixed paraffin embedded tissues. Forensic Sci Int. 125(2-3), 205-211. https://doi.org/10.1016/S0379-0738(01)00641-710.1016/S0379-0738(01)00641-7Search in Google Scholar

2. Bagnall, R.D., Ingles, J., Yeates, L., Berkovic, S.F., Semsarian, C. (2017). Exome sequencing-based molecular autopsy of formalin-fixed paraffin-embedded tissue after sudden death. Genet Med. 19(10), 1127-1133. https://dx.doi.org/10.1038/gim.2017.15.10.1038/gim.2017.15Search in Google Scholar

3. Thavarajah, R., Mudimbaimannar, V.K., Elizabeth, J., Rao, U.K., Ranganathan, K. (2012). Chemical and physical basics of routine formaldehyde fixation. J Oral Maxillofac Pathol. 16(3), 400-405. doi: 10.4103/0973-029X.102496.Open DOISearch in Google Scholar

4. Hewitt, S.M., Lewis, F.A., Cao, Y., Conrad, R.C., Cronin, M., Danenberg, K.D., Goralski, T.J., Langmore, J.R., Raja, R.G., Williams, P.M., Palma, J.F., Warrington, J.A. (2008). Tissue handling and specimen preparation in surgical pathology: issues concerning the recovery of nucleic acids from formalin-fixed, paraffin-embedded tissue. Arch Pathol Lab Med. 132(12), 1929-1935. doi: 10.1043/1543-2165-132.12.1929Open DOISearch in Google Scholar

5. Medeiros, F., Rigl, C.T., Anderson, G.G., Becker, S.H., Halling, K.C. (2007). Tissuehandling for genome-wide expression analysis: a review of the issues, evidence, and opportunities. Arch Pathol Lab Med. 131, 1805–1816. doi: 10.1043/1543-2165(2007)131[1805:THFGEA]2.0.CO;2Open DOISearch in Google Scholar

6. Lewis, F., Maughan, N.J., Smith, V., Hillan, K., Quirke, P.(2001). Unlocking thearchive–gene expression in paraffin-embedded tissue. J Pathol, 195, 66–71. doi: 10.1002/1096-9896(200109)195:1<66::AIDPATH921>3.0.CO;2-FOpen DOISearch in Google Scholar

7. Masuda, N., Ohnishi, T., Kawamoto, S., Monden, M., Okubo, K. (1999). Analysis of chemical modification of RNA from formalin-fixed samples and optimization of molecular biology applications for such samples. Nucleic Acids Res. 27, 4436–4443.10.1093/nar/27.22.4436Search in Google Scholar

8. Chung, J.Y., Braunschweig, T., Williams, R., Guerrero, N., Hoffmann, K.M., Kwon, M., Song, Y.K., Libutti, S.K., Hewitt, S.M. (2008). Factors in tissue handling and processing that impact RNA obtained from formalin-fixed, paraffin-embedded tissue. J Histochem Cytochem. 56, 1033–1042. doi: 10.1369/jhc.2008.951863.Open DOISearch in Google Scholar

9. Miething, F., Hering, S., Hanschke, B., Dressler, J.(2006). Effect of fixation to the degradation of nuclear and mitochondrial DNA in different tissues. J Histochem Cytochem. 54(3), 371-374. https://doi.org/10.1369/jhc.5B6726.200510.1369/jhc.5B6726.2005Search in Google Scholar

10. Vitošević, K., Todorović, M., Varljen, T., Slović, Z., Matić, S., Todorović, D. (2018). Effect of formalin fixation on PCR amplification of DNA isolated from healthy autopsy tissues. Acta Histochem. 120(8), 780-788. doi: 10.1016/j.acthis.2018.09.005.Open DOISearch in Google Scholar

11. Kiernan, J.A. (2000). Formaldehyde, formalin, para-formaldehyde and glutaraldehyde: What they are and what they do. Microscopy Today. 1, 8-12.10.1017/S1551929500057060Search in Google Scholar

12. Douglas, M.P. & Rogers, S.O. (1998). DNA damage caused by common cytological fixatives. Mutat Res. 401(1-2), 77-88. https://doi.org/10.1016/S0027-5107(97)00314-X10.1016/S0027-5107(97)00314-XSearch in Google Scholar

13. Gouvegia, G.R., Ferreira, S.C., Siqueira, S.A.C., Pereira, J. (2016). Nucleic Acids Extraction from Formalin-Fixed and Paraffin-Embedded Tissues. In: Larramendy ML and Soloneski S (Eds), Nucleic Acids-From Basic Aspects to Laboratory Tools. (pp27-36) IntechOpen. http://dx.doi.org/10.5772/6158110.5772/61581Search in Google Scholar

14. Srinivasan, M., Sedmak, D., Jewell, S.(2002). Effect of fixatives and tissue processing on the content and integrity of nucleic acids. Am J Pathol. 161(6), 1961-1971. https://doi.org/10.1016/S0002-9440(10)64472-010.1016/S0002-9440(10)64472-0Search in Google Scholar

15. Bussolati, G., Annaratone, L., Medico, E., D’Armento, G., Sapino, A. (2011). Formalin fixation at low temperature better preserves nucleic acid integrity. PLoS ONE. 6(6), e21043. https://doi.org/10.1371/journal.pone.002104310.1371/journal.pone.0021043311596721698245Search in Google Scholar

16. Stanta, G. (2011). Guidelines for Molecular Analysis in Archive Tissues. Springer Berlin Heidelberg. doi: 10.1007/978-3-642-17890-0_1Open DOISearch in Google Scholar

17. Okello, J.B., Zurek, J., Devault, A.M., Kuch, M., Okwi, A.L., Sewankambo, N.K., Bimenya, G.S., Poinar, D., Poinar, H.N. (2010). Comparison of methods in the recovery of nucleic acids from archival formalin-fixed paraffin-embedded autopsy tissues. Anal Biochem 400(1), 110-117. https://doi.org/10.1016/j.ab.2010.01.01410.1016/j.ab.2010.01.01420079706Search in Google Scholar

18. Rabelo-Goncalves, E., Roesler, B., Guardia, A.C., Milan, A., Hara, N., Escanhoela, C., Almeida, J., Boin, I., Zeitune, J.M. (2014). Evaluation of five DNA extraction methods for detection of H. pylori in formalin-fixed paraffin-embedded (FFPE) liver tissue from patients with hepatocellular carcinoma. Pathol Res Pract 210(3), 142-6. https://doi.org/10.1016/j.prp.2013.11.00310.1016/j.prp.2013.11.00324355442Search in Google Scholar

19. Babol-Pokora, K. & Berent, J.(2008). SNP-minisequencing as an excellent tool for analysing degraded DNA recovered from archival tissues. Acta Biochim Pol. 55(4), 815-819.10.18388/abp.2008_3045Search in Google Scholar

20. Turashvili, G., Yang, W., McKinney, S., Kalloger, S., Gale, N., Ng, Y., Chow, K., Bell, L., Lorette, J., Carrier, M., Luk, M., Aparicio, S., Huntsman, D., Yip, S. (2012). Nucleic acidquantity and quality from paraffin blocks: defining optimal fixation, processing and DNA/RNA extraction techniques. Exp Mol Pathol. 92, 33–43. doi: http://dx.doi.org/10.1016/j.yexmp.2011.09.013.10.1016/j.yexmp.2011.09.01321963600Search in Google Scholar

21. Funabashi, K.S., Barcelos, D., Visoná, I., e Silva, M.S., e Sousa, M.L.A.P.O., de Franco, M.F., Iwamura, E.S.M. (2012). DNA extraction and molecular analysis of non-tumoral liver, spleen, and brain from autopsy samples: the effect of formalin fixation and paraffin embedding, Pathol Res Pract. 208, 584–591. doi: 10.1016/j.prp.2012.07.001.Open DOISearch in Google Scholar

22. Niland, E.E., McGuire, A., Cox, M.H., Sandusky, G.E. (2012). High quality DNA obtained with an automated DNA extraction method with 70+ year old formalin-fixed celloidin-embedded (FFCE) blocks from the indiana medical history museum. Am J Transl Res. 4(2), 198-205.Search in Google Scholar

23. Hamazaki, S., Koshiba, M., Habuchi, T., Takahashi, R., Sugiyama, T. (1993). The effect of formalin fixation on restriction endonuclease digestion of DNA and PCR amplification. Pathol Res Pract. 189(5), 553-557. https://doi.org/10.1016/S0344-0338(11)80365-110.1016/S0344-0338(11)80365-1Search in Google Scholar

24. Santos, M.C., Saito, C.P., Line, S.R. (2008). Extraction of genomic DNA from paraffin-embedded tissue sections of human foetuses fixed and stored in formalin for long periods. Pathol Res Pract. 204(9), 633-636. https://doi.org/10.1016/j.prp.2008.04.00510.1016/j.prp.2008.04.00518573618Search in Google Scholar

25. Nam, S.K., Im, J., Kwak, Y., Han, N., Nam, K.H., Seo, A.N., Lee, H.S. (2014). Effects of Fixation and Storage of Human Tissue Samples on Nucleic Acid Preservation. Korean J Pathol. 48(1), 36-42. https://doi.org/10.4132/KoreanJPathol.2014.48.1.3610.4132/KoreanJPathol.2014.48.1.36395023324627693Search in Google Scholar

26. Ludyga, N., Grünwald, B., Azimzadeh, O., Englert, S., Höfler, H., Tapio, S., Aubele, M. (2012). Nucleic acids from long-term preserved FFPE tissues are suitable for downstream analyses. Virchows Arch. 460(2), 131-40. doi: 10.1007/s00428-011-1184-9.22270699Open DOISearch in Google Scholar

27. Budimlija, Z., Lu, C., Axler-DiPerte, G., Seifarth, J., Popiolek, D., Fogt, F., Prinz, M. (2009). Malignant tumors and forensics-dilemmas and proposals. Croat Med J 50(3), 218-227. http://doi.org/10.3325/cmj.2009.50.21810.3325/cmj.2009.50.218270273719480018Search in Google Scholar

28. Bonin, S. & Stanta, G. (2013). Nucleic acid extraction methods from fixed and paraffin-embedded tissues in cancer diagnostics. Expert Rev Mol Diagn. 13(3), 271-282. https://doi.org/10.1586/erm.13.14.10.1586/erm.13.1423570405Search in Google Scholar

29. Start, R.D., Layton, C.M., Cross, S.S., Smith, J.H. (1992). Reassessment of the rate of fixative diffusion. J Clin Pathol. 45, 1120–1121.10.1136/jcp.45.12.11204950131479044Search in Google Scholar

30. Werner, M., Chott, A., Fabiano, A., Battifora, H. (2000). Effect of formalin tissue fixation and processing on immunohistochemistry, Am J Surg Pathol. 24, 1016–1019.10.1097/00000478-200007000-00014Search in Google Scholar

31. 31. Fox, C.H., Johnson, F.B., Whiting, J., Roller, P.P. (1985). FormaldehydeFixation. J Histochem Cytochem. 33, 845-53. https://doi.org/10.1177/33.8.389450210.1177/33.8.38945023894502Search in Google Scholar