Optimizing nucleic acid extraction from thyroid fine-needle aspiration cells in stained slides, formalin-fixed/ paraffin-embedded tissues, and long-term stored blood samples;Otimização da extração de ácidos nucleicos de material de punção aspirativa por agulha fina de tiroide obtido de lâminas coradas, tecidos fixados em formalina e emblocados em parafina e amostras de sangue estocadas por longo período

Arquivos Brasileiros de Endocrinologia e Metabologia

Volumn 56, Issue 9, 2012, Pages 618-626

  Kizys, Marina M L ^a   Cardoso, Mirian G ^a   Lindsey, Susan C ^a   Harada, Michelle Y ^a   Soares, Fernando A ^a   Melo, Maria Clara C ^a   Montoya, Marlyn Z ^a   Kasamatsu, Teresa S ^a   Kunii, Ilda S ^a   Giannocco, Gisele ^a,b   Martins, João Roberto M ^a   Cerutti, Janete M ^a   Maciel, Rui M B ^a   Dias da Silva, Magnus R ^a  

^a FEDERAL UNIVERSITY OF SÃO PAULO   (Brazil)

^b FACULDADE DE MEDICINA DO ABC   (Brazil)

Author keywords

Blood; DNA; FFPE tissue; FNA; Nucleic acid extraction; RNA

Indexed keywords

DNA; PARAFFIN; RNA;

AGAR GEL ELECTROPHORESIS; ARTICLE; BLOOD; FINE NEEDLE ASPIRATION BIOPSY; GENETICS; HUMAN; ISOLATION AND PURIFICATION; PATHOLOGY; POLYMERASE CHAIN REACTION; STAINING; THYROID GLAND; THYROID TUMOR; TISSUE FIXATION;

BIOPSY, FINE-NEEDLE; DNA; ELECTROPHORESIS, AGAR GEL; HUMANS; PARAFFIN EMBEDDING; POLYMERASE CHAIN REACTION; RNA; STAINING AND LABELING; THYROID GLAND; THYROID NEOPLASMS; TISSUE FIXATION;

EID: 84872770274     PISSN: 00042730     EISSN: 16779487     Source Type: Journal    
DOI: 10.1590/S0004-27302012000900004     Document Type: Article

References (30)

1. Huang WY, Sheehy TM, Moore LE, Hsing AW, Purdue MP. Simultaneous recovery of DNA and RNA from formalin-fixed paraffin-embedded tissue and application in epidemiologic studies. Cancer epidemiology, biomarkers & prevention: a publication of the American Association for Cancer Research, cosponsored by the American Society of Preventive Oncology. 2010;19(4):973-7.
2. Pikor LA, Enfield KS, Cameron H, Lam WL. DNA extraction from paraffin embedded material for genetic and epigenetic analyses. JoVE. 2011(49).
3. Kotoula V, Charalambous E, Biesmans B, Malousi A, Vrettou E, Fountzilas G, et al. Targeted KRAS mutation assessment on patient tumor histologic material in real time diagnostics. PloS One. 2009;4(11):e7746.
4. Ferraz C, Eszlinger M, Paschke R. Current state and future perspective of molecular diagnosis of fine-needle aspiration biopsy of thyroid nodules. J Clin Endocrinol Metab. 2011;96(7):2016-26.
5. Bowtell DD. Rapid isolation of eukaryotic DNA. Anal Biochem. 1987;162(2):463-5.
6. Miller SA, Dykes DD, Polesky HF. A simple salting out procedure for extracting DNA from human nucleated cells. Nucleic Acids Res. 1988;16(3):1215.
7. Buffone GJ, Darlington GJ. Isolation of DNA from biological specimens without extraction with phenol. Clin Chem. 1985;31(1):164-5.
8. Adkins KK, Strom DA, Jacobson TE, Seemann CR, O'Brien DP, Heath EM. Utilizing genomic DNA purified from clotted blood samples for single nucleotide polymorphism genotyping. Arch Pathol Lab Med. 2002;126(3):266-70.
9. Di Pietro F, Ortenzi F, Tilio M, Concetti F, Napolioni V. Genomic DNA extraction from whole blood stored from 15-to 30-years at-20 degrees C by rapid phenol-chloroform protocol: a useful tool for genetic epidemiology studies. Mol Cell Probes. 2011;25(1):44-8.
10. Crider KS, Quinlivan EP, Berry RJ, Hao L, Li Z, Maneval D, et al. Genomic DNA methylation changes in response to folic acid supplementation in a population-based intervention study among women of reproductive age. PloS One. 2011;6(12):e28144.
11. Goelz SE, Hamilton SR, Vogelstein B. Purification of DNA from formaldehyde fixed and paraffin embedded human tissue. Biochem Biophys Res Commun. 1985;130(1):118-26.
12. Bonin S, Petrera F, Niccolini B, Stanta G. PCR analysis in archival postmortem tissues. Mol Pathol. 2003;56(3):184-6.
13. Patterson K, Molloy L, Qu W, Clark S. DNA methylation: bisulphite modification and analysis. J Vis Exp. 2011(56). pii: 3170.
14. Godfrey TE, Kim SH, Chavira M, Ruff DW, Warren RS, Gray JW, et al. Quantitative mRNA expression analysis from formalin-fixed, paraffin-embedded tissues using 5' nuclease quantitative reverse transcription-polymerase chain reaction. J Mol Diagn. 2000;2(2):84-91.
15. Krafft AE, Duncan BW, Bijwaard KE, Taubenberger JK, Lichy JH. Optimization of the Isolation and Amplification of RNA From Formalin-fixed, Paraffin-embedded Tissue: The Armed Forces Institute of Pathology Experience and Literature Review. Mol Diagn. 1997;2(3):217-30.
16. Masuda N, Ohnishi T, Kawamoto S, Monden M, Okubo K. Analysis of chemical modification of RNA from formalin-fixed samples and optimization of molecular biology applications for such samples. Nucleic Acids Res. 1999;27(22):4436-43.
17. Jackson DP, Lewis FA, Taylor GR, Boylston AW, Quirke P. Tissue extraction of DNA and RNA and analysis by the polymerase chain reaction. J Clin Pathol. 1990;43(6):499-504.
18. Dedhia P, Tarale S, Dhongde G, Khadapkar R, Das B. Evaluation of DNA extraction methods and real time PCR optimization on formalin-fixed paraffin-embedded tissues. Asian Pac J Cancer Prev. 2007;8(1):55-9.
19. Korbler T, Grskovic M, Dominis M, Antica M. A simple method for RNA isolation from formalin-fixed and paraffin-embedded lymphatic tissues. Exp Mol Pathol. 2003;74(3):336-40.
20. Koopmans M, Monroe SS, Coffield LM, Zaki SR. Optimization of extraction and PCR amplification of RNA extracts from paraffin-embedded tissue in different fixatives. J Virol Methods. 1993;43(2):189-204.
21. Chomczynski P, Sacchi N. Single-step method of RNA isolation by acid guanidinium thiocyanate-phenol-chloroform extraction. Anal Biochem. 1987;162(1):156-9.
22. Witchell J, Varshney D, Gajjar T, Wangoo A, Goyal M. RNA isolation and quantitative PCR from HOPE-and formalin-fixed bovine lymph node tissues. Pathol Res Pract. 2008;204(2):105-11.
23. Lehmann U, Kreipe H. Real-time PCR analysis of DNA and RNA extracted from formalin-fixed and paraffin-embedded biopsies. Methods. 2001;25(4):409-18.
24. Canfell K, Gray W, Snijders P, Murray C, Tipper S, Drinkwater K, et al. Factors predicting successful DNA recovery from archival cervical smear samples. Cytopathology. 2004;15(5):276-82.
25. Mattu R, Sorbara L, Filie AC, Little R, Wilson W, Raffeld M, et al. Utilization of polymerase chain reaction on archival cytologic material: a comparison with fresh material with special emphasis on cerebrospinal fluids. Mod Pathol. 2004;17(10):1295-301.
26. Marchetti I, Lessi F, Mazzanti CM, Bertacca G, Elisei R, Coscio GD, et al. A morpho-molecular diagnosis of papillary thyroid carcinoma: BRAF V600E detection as an important tool in preoperative evaluation of fine-needle aspirates. Thyroid. 2009;19(8):837-42.
27. Poljak M, Barlic J, Seme K, Avsic-Zupanc T, Zore A. Isolation of DNA from archival Papanicolaou stained cytological smears using a simple salting-out procedure. Clin Mol Pathol. 1995;48(1):M55-6.
28. Smith GD, Chadwick BE, Willmore-Payne C, Bentz JS. Detection of epidermal growth factor receptor gene mutations in cytology specimens from patients with non-small cell lung cancer utilising high-resolution melting amplicon analysis. J Clin Pathol. 2008;61(4):487-93.
29. de Roda Husman AM, Snijders PJ, Stel HV, van den Brule AJ, Meijer CJ, Walboomers JM. Processing of long-stored archival cervical smears for human papillomavirus detection by the polymerase chain reaction. Br J Cancer. 1995;72(2):412-7.
30. Pompanon F, Bonin A, Bellemain E, Taberlet P. Genotyping errors: causes, consequences and solutions. Nat Rev Genet. 2005;6(11):847-59.