Transcriptomic uniqueness and commonality of the ion channels and transporters in the four heart chambers

Abstract

Myocardium transcriptomes of left and right atria and ventricles from four adult male C57Bl/6j mice were profiled with Agilent microarrays to identify the differences responsible for the distinct functional roles of the four heart chambers. Female mice were not investigated owing to their transcriptome dependence on the estrous cycle phase. Out of the quantified 16,886 unigenes, 15.76% on the left side and 16.5% on the right side exhibited differential expression between the atrium and the ventricle, while 5.8% of genes were differently expressed between the two atria and only 1.2% between the two ventricles. The study revealed also chamber differences in gene expression control and coordination. We analyzed ion channels and transporters, and genes within the cardiac muscle contraction, oxidative phosphorylation, glycolysis/gluconeogenesis, calcium and adrenergic signaling pathways. Interestingly, while expression of Ank2 oscillates in phase with all 27 quantified binding partners in the left ventricle, the percentage of in-phase oscillating partners of Ank2 is 15% and 37% in the left and right atria and 74% in the right ventricle. The analysis indicated high interventricular synchrony of the ion channels expressions and the substantially lower synchrony between the two atria and between the atrium and the ventricle from the same side.

A Personalized Genomics Approach of the Prostate Cancer

“…Figure S2 brings another confirmation of the transcriptomic networks’ dependence not only on the cell phenotype (compare regions “N” and “A”), but also on the localization of that phenotype within the tumor (compare “B” and “C”) as we have reported before for the two atria and the two ventricles of the mouse heart [ 68 ]. We found that TP53 activation of the target genes is substantially different among the four profiled regions of the tumor.…”

“…Figure S3 presents the KEGG-identified prostate cancer genes [ 39 ] that are statistically ( p < 0.05) significantly expressed in-phase and in anti-phase among the profiled regions of the tumor. This analysis is based on our model of transcellular transcriptomic networks [ 43 ] that was also recently applied to identify synchronous expression of ion channels between adjacent heart chambers [ 68 ].…”

“…A positive correlation means that the expression of that gene goes up and down simultaneously (in-phase) in both regions, while a negative correlation means that when the expression of one gene goes up in one region it goes down in the other (in-antiphase). In previous studies ([ 43 , 68 , 81 ]) we have provided experimental evidence about transcellular transcriptomic communication between astrocytes and oligodendrocytes in the brain and between the myocardial walls of the adjacent heart chambers of the mouse. This type of analysis may provide clues about the transcriptomic integration of heterogeneous tissues.…”

Personalized 3-Gene Panel for Prostate Cancer Target Therapy

“…These genes were used only to illustrate the independence of AVE, REV and COR, but any other gene subset would equally prove the independence. It was also proved in previous publications for apoptosis in human thyroid [21], chemokine signaling in human kidney [18] and mouse cortex [80], evading apoptosis in human prostate [33], ionic channels in mouse heart [81] and PI3K-AKT signaling in mouse hippocampus [82]).…”

Personalized 1-2-3-Gene(s) Tickets to Cancer-Free Prostate

“…The independence and complementarity of these types of characteristics was proved in Figure 1. It was also proved in previous publications for apoptosis in human thyroid [21], chemokine signaling in human kidney [18] and mouse cortex [65], evading apoptosis in human prostate [31], ionic channels in mouse heart [66], and PI3K-AKT signaling in mouse hippocampus [67]).…”