Evaluation of five DNA extraction methods for detection of H. pylori in formalin-fixed paraffin-embedded (FFPE) liver tissue from patients with hepatocellular carcinoma |
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Authors: | Elizabeth Rabelo-Gonç alves,Bruna Roesler,Ana Carolina Guardia,Arlete Milan,Natalicia Hara,Cecí lia Escanhoela,Jazon Almeida,Ilka Boin,José Murilo Zeitune |
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Affiliation: | 1. Laboratory of Bacteriology, Gastrocenter, State University of Campinas, Campinas, São Paulo, Brazil;2. Department of Anatomic Pathology, Faculty of Medical Sciences, State University of Campinas, Campinas, São Paulo, Brazil;3. Gastrocenter, Faculty of Medical Sciences, State University of Campinas, Campinas, São Paulo, Brazil |
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Abstract: | Since Helicobacter spp. DNA was identified in liver tissue resected from patients with hepatocelullar carcinoma (HCC), researchers have suggested a role of this bacterium in hepatic carcinogenesis. Archives of formalin-fixed, paraffin-embedded (FFPE) tissues represent an extraordinary source for clinical studies providing many advantages. However, DNA extraction from FFPE tissues is laborious, time-consuming and still remains a challenge. The aim of this study was to evaluate five protocols for DNA extraction from FFPE liver obtained from patients with HCC in order to detect Helicobacter pylori DNA. These methods were: (1) QIAamp FFPE Tissue Kit, (2) QIAamp DNA Mini Kit, (3) Wizard SV Genomic DNA Purification System, (4) RealiaPrep FFPE gDNA Miniprep System and (5) phenol–chloroform. H. pylori detection was performed using 16S rRNA gene amplification by PCR. The highest total amount of DNA was obtained using the phenol–chloroform method. Analyses of 16S rRNA gene amplification did not show statistically significant differences among the methods (p = 0.466), although the highest percentage of positive cases (70%) was found in samples extracted with phenol-chloroform. We suggest that of the five methods evaluated, phenol/chloroform is the most suitable for detection of H. pylori in FFPE liver from patients with HCC. |
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Keywords: | Helicobacter pylori DNA Paraffin embedded Liver 16S Ribosomal RNA |
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