mRNA and micro-RNA expression analysis in laser-capture microdissected prostate biopsies: valuable tool for risk assessment and prevention trials.
Diagnosis of prostate cancer (PCa) typically relies on needle biopsies, which are routinely archived in paraffin after formalin fixation and may contain valuable risk or prognostic information. The objective of this study was to determine the feasibility of mRNA and miRNA expression analysis in laser-capture microdissected (LCM) formalin-fixed paraffin-embedded archived prostate biopsies compared to the gold standard of frozen tissue. We analyzed the expression of compartment-specific and PCa-related genes in epithelial and stromal tissues collected from paired sets of archived prostate biopsies and frozen radical prostatectomy specimens from three patients. Our results showed appropriate compartment-specific and PCa-related expression with good within patient agreement between the FFPE biopsies and the frozen tissue. The potential for both mRNA and micro-RNA expression profiling in the biopsies was also demonstrated using PCR arrays which showed high correlation between the biopsy and frozen tissue, notwithstanding sensitivity limitations for mRNA detection in the FFPE specimen. This is the first study to compare RNA expression from biopsy and frozen tissues from the same patient and to examine miRNA expression in LCM-collected tissue from prostate biopsies. With careful technique and use of appropriate controls, RNA profiling from archived biopsy material is quite feasible showing high correlation to frozen tissue.
Nonn
Larisa
L
Department of Pathology, University of Illinois at Chicago, Chicago, IL 60612, USA. lnonn@uic.edu
Vaishnav
Avani
A
Gallagher
Lindsay
L
Gann
Peter H
PH
D014408:Biomarkers, Tumor / Q000378:metabolism; D001707:Biopsy, Needle; D005240:Feasibility Studies; D005557:Formaldehyde; D005629:Frozen Sections; D020869:Gene Expression Profiling / Q000379:methods; D018398:Homeodomain Proteins / Q000235:genetics / Q000378:metabolism; D006801:Humans; D008297:Male; D035683:MicroRNAs / Q000032:analysis / Q000235:genetics*; D042282:Microdissection / Q000379:methods; D008875:Middle Aged; D009363:Neoplasm Proteins / Q000235:genetics* / Q000378:metabolism; D020411:Oligonucleotide Array Sequence Analysis; D016612:Paraffin Embedding; D011468:Prostatectomy; D011471:Prostatic Neoplasms / Q000235:genetics* / Q000378:metabolism / Q000473:pathology; D012333:RNA, Messenger / Q000032:analysis / Q000235:genetics*; D019998:Racemases and Epimerases / Q000235:genetics / Q000378:metabolism; D020133:Reverse Transcriptase Polymerase Chain Reaction; D016707:Tissue Fixation; D014157:Transcription Factors / Q000235:genetics / Q000378:metabolism
D014408:Biomarkers, Tumor; D018398:Homeodomain Proteins; D035683:MicroRNAs; C491178:NKX3-1 protein, human; D009363:Neoplasm Proteins; D012333:RNA, Messenger; D014157:Transcription Factors; D005557:Formaldehyde; D019998:Racemases and Epimerases; C108352:alpha-methylacyl-CoA racemase