Total nucleic acid from lysed mouse photoreceptors was used for
first-strand cDNA synthesis. Then, 0.5 μl of a solution containing 6μ
M oligo(dT)
16 (Boehringer–Mannheim,
Indianapolis, IN) was added to PCR tubes containing 5.5 μl of the
photoreceptor cell–detergent mixture. The tube mixture was heated to
70°C for 10 minutes and then iced for an additional 5 minutes. Next,
4.5 μl of a solution containing the following additional reagents was
added to each PCR sample tube to achieve the final concentrations
indicated: 50 mM Tris-HCl (pH 8.3), 75 mM KCl, 2.5 mM
MgCl
2, 10 mM dithiothreitol, 0.5 mM each of the
four deoxyribonucleotide triphosphates (Boehringer–Mannheim), 20 U
RNase inhibitor (Promega, Madison, WI), and 100 U reverse transcriptase
(Superscript II RNase H
−; Life Technologies).
The entire 10-μl volume was incubated for 50 minutes at 42°C,
deactivated by heating at 70°C for 15 minutes, and then stored on ice
for subsequent PCR amplification. First-round PCR amplification was
performed in sample tubes containing 10 μl of cDNA template, the
outside primer pair derived from the mouse Vn nucleotide
sequence,
8 and three additional sets of control primers
designed to amplify target sequences from the coding regions of the
following genes (see
Table 1 ): phosducin,
21 a phototransduction protein and
regulator of G-protein function in photoreceptors that also appears to
be expressed in liver, lung, heart, and brain
22 ;
Thy-1,
24 a cell-surface protein expressed by neurons
including retinal ganglion cells, hematopoietic stem
cells,
25 and hepatic oval cells
26 ; glial
fibrillary acidic protein (GFAP),
27 an intermediate
filament protein expressed by glia in the brain, in the retina and also
by Ito cells in the liver.
28 Next, 40 μl of a solution
that included the following additional reagents was added to the sample
tubes to achieve final concentrations of: 10 mM Tris-HCl (pH 8.3), 50
mM KCl, 2.0 mM MgCl
2, 0.2 mM each of the four
deoxyribonucleotide triphosphates, and 2.5 U
Taq polymerase (Promega, Madison, WI). Final primer concentration was 0.2μ
M. Autoclaved, double-distilled H
2O without reverse
transcriptase was included as a negative control. First-round PCR
amplification was carried through 40 cycles (94°C, 30 seconds;
55°C, 30 seconds; 72°C, 90 seconds) using a thermal cycler (GeneAmp
PCR System 9600; PE Biosystems).