Introduction:
Cardiac fibroblasts (CFs) have a crucial role in ECM remodeling as well as influencing contractility through crosstalk with the cardiomyocytes. There is accumulating evidence that the phenotype of CFs is disease specific. We here investigate the transcriptome signature of CFs in HCM patients and their functional significance.
Methods:
Primary CFs were isolated from the myectomy specimens of 12 clinically phenotyped HCM patients and 3 controls. RNA library was prepared from the cell isolates, and whole transcriptome sequencing was performed. Differential expression analysis was carried out using the Tuxedo pipeline. Pathway, Gene Ontology (GO) enrichment, and gene network analyses were performed using Ingenuity Pathways Analysis (IPA) and Gprofiler, respectively. Expression of candidate genes was validated using real time PCR, ICC, immunohistochemistry, cytokines profiling and western blotting.
Results:
Whole transcriptome analysis identified 292 significant differentially expressed genes (DEGs) (pvalue <0.05 threshold) in HCM fibroblasts compared to controls. The DEGs identified with the highest significance were associated with the “Cardiovascular System development and Function” network (1.55e-27 <pvalue< 3.10e-08). The most significant GO terms identified were associated with ECM remodeling, collagen binding, signal receptor binding, circulatory system development and biological adhesion and other relevant processes. The DEGs encompassed gene families such as collagens (
COL7A1, COL17A1, COL21A1, COL15A1 and COL5A3
), proteases (
MMP9, MMP12, ABI13BP
and
ADAM19
), fibulins (FBLN1 and FBLN5), inflammatory and signaling cytokines (
IL6, CCL2, CCL4, CCL11, IGF2, CSF1, FGF16
and
FGF2
), integrins and signaling receptors (
ITGA4, ITGA7, NRP2, SULF2, ADORA2B, CXCR4, FOLR2, PLXNA4
and
TREM2
) and kinases (
DDR1, EFNB2, RGCC, MAPK11, CDKN2B, PTK7, MARCKSL1, ROCK2, MET, TYROBP
and
KSR1
). Assessment of candidate genes was further performed by studying their expression patterns in patients’ samples (CFs extracts and tissue sections).
Conclusion:
Transcriptome signature of CFs derived from HCM identifies new candidate genes and pathways for ECM remodeling, collagen binding and pro-inflammatory signaling.