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This conclusion was also supported by the expression analysis, since identical, highly specific signals were reproducibly obtained on P. marinus embryos with homologous and heterologous probes (see figure legends and Table 1 for clone details).
This result was further confirmed by the expression analysis of BCL2, which is negatively regulated by miR-16-1 (47).
Real time RT-PCR, immunofluorescence and immunoblot analyses, were performed for a selected subgroup of regulated gene products to confirm the results obtained by the expression analysis.
Illumina libraries were prepared and run for 40 cycles by the Expression Analysis Core at the UC Davis Genome Center [ 68].
The proliferation results of the cell cycle analysis were validated by the expression analysis of PCNA Proliferating Cell Nuclear Antigenn) (Additional file 2: Figure S2).
In contrast, trehalose phosphorylase was found to increase during the interflush period [ 34], which was also confirmed by the expression analysis in our study.
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We next examined the above hypothesis by undertaking the expression analysis of molecules involved in ROS-induced DNA damage signaling and growth arrest of cells.
Twenty genes were randomly selected between the differentially expressed genes in silico for the expression analysis by RT-qPCR.
The anti-FasL antibody clone BR-17 (Diaclone, Besançon, France) was used for the expression analysis by flow cytometry.
We next performed motif discovery analysis on the peaks identified by the differential expression analysis to find transcription factor binding sites.
Since oxidative stress response was one of the pathways highlighted by the gene expression analysis, we measured direct and indirect signs of ROS increase.
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