Uveal melanoma cells were grown to 90% confluence. Messenger RNA was isolated using RNeasy Micro Kit (Qiagen, Valencia, CA, USA). Complementary DNA was synthesized with random hexamers using reverse transcriptase (SuperScript III; Invitrogen, Carlsbad, CA, USA). Primers (MWG Biotech, Ebersberg, Germany) were designed using Primer3 software and BLAST (Basic Local Alignment Search Tool, National Center for Biotechnology Information) as described previously.
27 Polymerase chain reactions (25 μL) contained 50 ng cDNA, 0.4 μM of each forward and reverse primer, and master mix (SsoFast EvaGreen Supermix; Bio-Rad, Hercules, CA, USA). Reverse transcriptase–PCR was performed under the following conditions: initial denaturation step at 95°C for 2 minutes, 40 cycles at 95°C for 5 seconds and at 60°C for 15 seconds, followed by an additional denaturation step at 95°C for 60 seconds. All RT-PCR products were analyzed by gel electrophoresis on a 2% agarose gel and were visualized by GelRed nucleic acid staining (Biotium, Inc., Hayward, CA, USA) using the ChemiDoc Imager (Bio-Rad, Munich, Germany). Real-time PCRs were performed under the above-mentioned conditions to quantify VEGF-A and PEDF mRNA expression, using
HPRT-1 as reference gene. A no-template control (NTC) was included in all experiments to exclude DNA contamination. Messenger RNA isolation, cDNA synthesis, and PCRs were performed twice. Primer sequences were as follows:
HPRT-1 forward 5′-CCTGGCGTCGTGATTAGTG-3′, reverse 5′-GCCTCCCATCTCCTTCATC-3′;
VEGF-A forward 5′-ACAGGTACAGGGATGAGGACAC-3′, reverse 5′-AAGCAGGTGAGAGTAAGCGAAG-3′;
VEGF-R1 forward 5′-CTACCACTCCCTTGAACACGA-3′, reverse 5′-GGTCCACTCCTTACACGACAA-3′;
VEGF-R2 forward 5′-ACCTCACCTGTTTCCTGTATGG-3′, reverse 5′-GACTGATTCCTGCTGTGTTGTC-3′;
PEDF forward 5′-CATTCTCCTTCTCGGTGTGG-3′, reverse 5′-ACGGTCCTCTCTTCATCCAAG-3′.