Total RNA was extracted from the frozen stored retina by the
guanidium thiocyanate method. PolyA
+RNA was then
purified from the total RNA by an oligo-dT column. Aliquots of
polyA
+RNA (0.1 μg) were used to make the cDNA
with a first-strand cDNA synthesis kit (Pharmacia-Biotech, Uppsala,
Sweden). PCR was performed by the method of Saiki et al.
34 with slight modifications. The following conditions were used:
denaturation at 94°C for 45 seconds; annealing at 55°C for 45
seconds; and extension at 72°C for 90 seconds. The reaction was
performed for 33 to 35 cycles. After PCR, 1 μl of PCR product was
cloned directly into a plasmid vector (pCRII; Invitrogen, San Diego,
CA). Nucleotide sequencing of the cloned DNA was performed by the
dideoxynucleotide chain termination method by using a gene analyzer
(ABI Prism 310; Perkin–Elmer, Foster City, CA). The sequence data of
the PCR products were identical with rat sequences found in GenBank.
The optimal PCR cycle number for each primer set was obtained by
varying the number of PCR cycles. Primers used to amplify the target
genes were: Rat caspase-1 cDNA, 5′-TTCAGGCATGCCGTGGAG (sense) and
5′-AATGTCCCGGGAAGAGGT (antisense), 363 bp
35 ; rat caspase-3
cDNA, 5′-ACATGGAAGCGAATCAATGGACTC (sense) and
5′-AAGGACTCAAATTCTGTTGCCACC (antisense), 698 bp
35 ; and ratβ
-actin cDNA, 5′-AGCTGAGAGGGAAATCGTGC (sense) and
5′-CCACAGGAT-TCCATACCTGA (antisense), 297 bp.
36 Expression of β-actin was used as the internal standard. Reaction
mixture of 1 picomole/ml caspase-1 primer sets and 0.3 picomoles/mlβ
-actin primer sets in a tube was amplified for 33 cycles.
Thirty-five PCR cycles were performed for caspase-3 cDNA amplification
in a tube including 1 picomole/ml caspase-3 primer sets and 0.2
picomoles/ml β-actin primer sets. PCR products were electrophoresed
on a 3% agarose gel and visualized with ethidium bromide. The digital
photograph was analyzed (Gel Plotting Macros; NIH Image ver. 1.62;
National Institutes of Health, Bethesda, MD). Levels of individual PCR
products were expressed as the ratio of individual product optical
density to that of the internal standard.