Tissue elasticity regulated tumor gene expression: implication for diagnostic biomarkers of primitive neuroectodermal tumor

PloS One
Long T VuShengwen Calvin Li

Abstract

The tumor microenvironment consists of both physical and chemical factors. Tissue elasticity is one physical factor contributing to the microenvironment of tumor cells. To test the importance of tissue elasticity in cell culture, primitive neuroectodermal tumor (PNET) stem cells were cultured on soft polyacrylamide (PAA) hydrogel plates that mimics the elasticity of brain tissue compared with PNET on standard polystyrene (PS) plates. We report the molecular profiles of PNET grown on either PAA or PS. A whole-genome microarray profile of transcriptional expression between the two culture conditions was performed as a way to probe effects of substrate on cell behavior in culture. The results showed more genes downregulated on PAA compared to PS. This led us to propose microRNA (miRNA) silencing as a potential mechanism for downregulation. Bioinformatic analysis predicted a greater number of miRNA binding sites from the 3' UTR of downregulated genes and identified as specific miRNA binding sites that were enriched when cells were grown on PAA-this supports the hypothesis that tissue elasticity plays a role in influencing miRNA expression. Thus, Dicer was examined to determine if miRNA processing was affected by tissue elasticity. ...Continue Reading

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Citations

Jan 25, 2019·Current Stem Cell Research & Therapy·Maryam FarzanehSeyed E Khoshnam

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Methods Mentioned

BETA
DNA-Chip
chip
zymography
pull down
electrophoresis
PCR
chips
Pull-down

Software Mentioned

mirExTra
Ensembl viewer
Diana MicroT
Ensembl
DNA
dChip
DIANA
Database for Annotation , Visualization and Integrated Discove...
Affymetrix
microT

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