1A,B). At time points between 3-18 hours, ∼50% of miRNA expression remained unchanged, and 25%-40% were up-regulated (Table 1). However, at 24 hours and later, we detected a significant reduction in expression levels in up to 70% of the miRNAs (Fig. 1A), with a later trend to normal expression. The distribution of miRNA changes at 3, 24, and 72 hours showed a significant shift in expression levels (Fig. 1C). Next, we determined miRNA distribution at the three time points (3,
24, and 72 hours) that showed the greatest change by microarray (Fig. 1D; Table 1). By Venn diagram, only a small subset of miRNAs exhibited the same expression patterns at 3, 24, or 72 hours post-PH, with 7 up-regulated miRNAs, 21 miRNAs showing no change, and 4 miRNAs that were down-regulated. Taken together, the microarray
GSK-3 assay data suggested that miRNA levels undergo dynamic changes during different stages of liver regeneration after 70% PH and clearly display a biphasic expression pattern, reflecting their key role in regulating the regenerative process.18, 22-24 Besides the mouse and rat miRNA results described above, we also found that some human miRNAs could also hybridize to the rat liver samples in the microarray study, and determined that the expression changes during the process of liver regeneration displayed similar patterns (Supporting Table 1). To validate the microarray results, qRT-PCR was performed for 20 miRNAs, representing all three expression Ridaforolimus order patterns (i.e., up-regulated, unchanged, and down-regulated). The correlation between microarray and qRT-PCR results was ∼80% at both 3 and 24 hours, with the best fit observed in the down-regulated miRNAs (Fig. 2A,B; Supporting Table 2). We also verified the time course of
expression of miRNAs, let-7, miR-21, miR-29, and miR-30 MCE at 3, 24, and 72 hours postsurgery (Fig. 2C). The qRT-PCR data confirmed the microarray results supporting the biphasic genomewide changes observed in the miRNA expression patterns at the various times post-PH. We postulated that the regulatory mechanism(s) involved in miRNA processing were responsible for this genomewide miRNA down-regulation at 24 hours post-PH.4, 25 To test this hypothesis, we studied the expression patterns of miRNA-processing genes Rnasen (Drosha) and Dgcr8 (Pasha), Dicer, Tarbp2 (TRBP), and Prkra (PACT) during liver regeneration (LR). Our results indicated that gene expression was not stable in sham controls, suggesting some modulation of gene expression associated with the stress of the sham procedure (Supporting Fig. 1). To obviate effects from the stress, we normalized the results of treated sample to that of sham controls, as previously reported.26-28 The qRT-PCR results of sham and PH samples revealed that miRNA-processing gene transcripts were significantly down-regulated between the 3- and 24-hour time points (Fig. 3A).
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