The 87 genes identified in the microarray analysis reflect this estimation.
A statistically significant correlation was observed between microarray and qRT-PCR data (r = 0.7, p-value ≤ 0.0001), despite quantitative differences in the level of change, suggesting that the results obtained by microarray analysis reflect the actual changes in gene expression.
In order to verify that the changes in gene expression detected in our microarray analysis reflect actual changes in transcript levels, quantitative reverse-transcriptase PCR (qRT-PCR) was carried out using total RNAs samples isolated from plant tissue samples from identical treatments harvested independently.
These qRT-PCR results demonstrated that the microarray analysis accurately reflected expression levels of the miRNAs.
We therefore conclude that the results of tiling microarray analysis indeed reflect differences in the function of genes involved in mycoparasitism.
Our qRT-RTPCR results correlated well with the expression patterns noted in microarray data (R, 0.53 0.90) [Table 4], indicating that observed expression levels detected by microarray analysis likely reflect tumor differences.
We constructed a Venn diagram, based on the results of the stringent microarray analysis, to roughly reflect the temporal changes in the gene expression of SARS-CoV-infected 2B4 cells.
In the latter case, Lck expression was greater in Comma/PDK1 cells as determined by qrt-PCR vs. microarray analysis, which likely reflected the extremely low background and basal expression in control cells as detected by qrt-PCR.
Furthermore, the pattern of relative copy number among test species observed in the qPCR analysis, reflected, with few exceptions, the pattern of relative copy number observed in the microarray analysis.
Underestimation of fold changes by microarray analysis has been reported previously, reflecting the higher sensitivity of qRT-PCR [ 5, 13].
Taken together, the microarray analysis reported in the present study unambiguously reflects the global transcriptomic profiles of the sakacin P-resistant strains.
