PCR was carried out on RNA extracted from fibroblast cells after 2, 4 and 6 passages, to ensure these cells produced
MMP-2,
TIMP-2, and
MT1-MMP, the major components of the activation complex, and
TIMP-1, another key regulator of MMP-2 activity. Scleral cDNA was used as a positive control for expression of these genes. Briefly, cells were detached, with trypsin, and RNA isolated using Nucleospin RNA II columns (Macherey-Nagel, Bethlehem, PA, USA) as per the manufacturer's instructions. Contaminating genomic DNA was removed by incubation on the column with a DNase I-containing buffer. Total RNA was eluted from the column into 100 μL RNase-free water, quantified, checked for purity using a spectrophotometer, and stored at −80°C. Reverse transcription was carried out using the protocol described earlier. The detection of gene-specific cDNA was carried out using primers specific for tree shrew
TIMP-1,
TIMP-2,
MMP-2, and
MT1-MMP, designed and validated as described earlier, and detailed in
Table 1. The primer sequence used for
MMP-2 in this particular aspect of the current study was as follows: F, 5′ GAC GAT ATC AAG GGC ATT CAA GA 3′ and R, 5′ TTC TTG CTC CAG TTA AAA GCA GC 3′, generating a product length of 425 bp.
37 PCR reactions were carried out using
Taq DNA polymerase (Promega) on a Progene block cycler (initial 2-minute melting step at 94°C followed by 40 cycles of 94°C for 2 minutes, an annealing step of 1 minute at 55°C, and a 1-minute extension step at 72°C), 0.5 mM dNTPs, (10×) thermostable buffer (10 mM Tris-HCl, 50 mM KCl, and 0.1% Triton-X, Promega), and optimized MgCl
2 concentrations. PCR product from each primer set was mixed with 5 μL DNA loading dye, and the sample was loaded into a 2% agarose gel in (0.5×) TBE and run. The gel was photographed using a UV light box.