Quantity and quality of nucleic acids extracted from archival formalin fixed paraffin embedded prostate biopsies

• DOI: 10.1186/s12874-018-0628-1
• Publication Date: 2018-12-05T04:55:39Z
• Authors: Jessica Carlsson; Sabina Davidsson; Jonna Fridfeldt; Francesca Giunchi; Valentina Fiano; Chiara Grasso; Renata Zelic; Lorenzo Richiardi; Ove Andrén; Andreas Pettersson; Michelangelo Fior...; Olof Akre
• Keywords: Archival formalin-fixed paraffin-embedded tissue; Male; Medicine (General); Tissue Fixation; Nucleic acid isolation kits; Biopsy; Specimen Handling; Fixatives; 03 medical and health sciences; Archival formalin-fixed paraffin-embedded tissue; Nucleic acid isolation kits; Prostate biopsies; RNA integrity number; R5-920; Formaldehyde; Nucleic Acids; Humans; Sweden; 0303 health sciences; Paraffin Embedding; Prostate; Prostatic Neoplasms; Reproducibility of Results; 3. Good health; Archival formalin-fixed paraffin-embedded tissue; Nucleic acid isolation kits; Prostate biopsies; RNA integrity number; Epidemiology; Health Informatics; RNA integrity number; Female; Reagent Kits, Diagnostic; Prostate biopsies; Research Article

In Sweden, human tissue samples obtained from diagnostic and surgical procedures have for decades been routinely stored in a formalin-fixed, paraffin-embedded, form. Through linkage with nationwide registers, these are available molecular studies to identify biomarkers predicting mortality even slow-progressing prostate cancer. However, fixation causes modifications of nucleic acids, making it challenging extract high-quality acids formalin fixated tissues. this study, the efficiency five commercial acid extraction kits was compared on 30 biopsies normal histology, quantity quality products were using spectrophotometry Agilent's BioAnalyzer. Student's t-test's Bland-Altman analyses performed order investigate differences between kits. The best performing subsequently tested an additional 84 tumor A Spearman's correlation test linear regression impact age amount quality. Nucleic extracted RNeasy® FFPE QIAamp® DNA Tissue kit had highest quality, used successfully all biopsies, (in millimeter) found strongest association acids. To conclude, study shows that choice affects products. Furthermore, we show archival formalin-fixed is possible, allowing be valuable sample collection.