The medium of corneal fibroblasts was changed to serum-free MEM, and the cells were cultured for an additional 24 hours. After incubation for a further 6 hours in MEM with sCD14 or LBP, in the absence or presence of LPS (10 ng/mL), the fibroblasts were washed with PBS, and total RNA was extracted (MagNa Pure system; Roche Molecular Biochemicals, Mannheim, Germany). The RNA was subjected to reverse transcription (RT) with a kit (Promega, Madison, WI), and the resultant cDNA was subjected to real-time polymerase chain reaction (PCR) analysis by rapid cycling in glass capillaries with a thermocycler (LightCycler; Roche Molecular Biochemicals), as described previously.
19 20 21 The reaction was performed in a final volume of 20 μL with PCR reagents (QuantiTect SYBR Green; Qiagen) and specific primers. After an initial denaturation step at 95°C for 10 minutes, 40 cycles of amplification were performed. Each cycle comprised denaturation at 94°C for 15 seconds, primer annealing at 55°C for 20 seconds, and elongation at 72°C for 10 seconds (IL-8 and MCP-1) or 14 seconds (ICAM-1 and glyceraldehyde-3-phosphate dehydrogenase [GAPDH]). SYBR Green I fluorescence was monitored at the end of each cycle to obtain a measure of the amount of PCR product formed. After completion of the amplification protocol, melting curve analysis was performed to confirm the specificity of amplification by cooling the sample to 65°C at a rate of 20°C/s, maintaining a temperature of 65°C for 10 seconds, and then heating at a rate of 0.1°C/s to 97°C, with continuous measurement of fluorescence. The fluorescence signal (
F) was plotted against temperature (
T) to generate a melting curve for each sample. The melting curve was then converted to a melting peak by plotting the negative derivative of fluorescence with respect to temperature against temperature (−
dF/
dT versus
T). Each PCR product gives rise to a specific melting temperature. The sequences of the PCR primers for IL-8, MCP-1, ICAM-1, and GAPDH were as described previously.
4 The thermocycler PCR data were analyzed with the dedicated software (LightCycler; Roche Molecular Biochemicals), which first adjusts the values for each sample by subtraction of the background fluorescence generated during the initial cycles. A fluorescence threshold is then set at 5% of full scale, and the software determines the cycle number at which each sample reached this threshold. The cycle number corresponding to the fluorescence threshold is inversely related to the log of the initial template concentration. Given that amplification occurs in an exponential manner, a difference in cycle threshold of 1 corresponds to an approximately twofold difference in relative transcript abundance. The amount of IL-8, MCP-1, or ICAM-1 mRNA was normalized by that of GAPDH mRNA and is presented in arbitrary units (1 unit corresponds to the value for cells incubated in the absence of LPS, sCD14, and LBP).