Genomics

Dataset Information

40

Downregulation of CK2-Beta is sufficient to drive epithelial-to-mesenchymal transition through Snail 1 induction


ABSTRACT: To understand how CK2β silencing promotes a mesenchymal phenotype in human epithelial cells, like TGFβ does, we have employed whole genome microarray expression profiling as a discovery platform to compare genes regulated in CK2β-depleted cells and in TGFβ-treated cells. To do so, we began by deriving individual gene expression signatures of WT-, TGFβ-treated, CK2β-depleted or CK2β-depleted and rescued with chicken CK2β, whose expression is not affected by the shRNA in MCF10A cells, and cataloguing genes exhibiting at least a 1.5-fold up- or down-regulation under each experimental condition. We observed that EMT triggered by TGFβ1 or CK2β-depletion induced an overlapping set of changes in gene expression. Of ~25,000 unique genes tested, we found ~1,200 genes whose expression was significantly modulated in TGFβ1-treated or CK2β-depleted cells as compared to Mock-cells. Of the 439 genes down-regulated in TGFβ1-treated cells, 74 genes (17%) were also repressed in CK2β-depleted MCF10A cells and 45 genes (10%) were commonly up-regulated. As expected, among commonly regulated genes, several mesenchymal genes (CDH2, FN1, MYL9, VIM) were upregulated, whereas epithelial genes such as CDH1, CDH3, CLDN1, CLDN7, OCLN, KRT5, KRT6B, COL2A1 and MUC1, were inversely turned down. The expression of the EMT-inducing transcription factors, Snail and Zeb, was also significantly up-regulated in accordance with the repression of their known target genes. While showing similar phenotypes, the genetic program of TGFβ1-treated or CK2β-depleted MCF10A cells also exhibited distinct features. These results highlight that in addition to TGFβ1-regulated genes, CK2β-depletion may affect alternative pathways. Overall design: The microarray analysis was performed with RNAs isolated from parental MCF10A cells and the following MCF10A-derived cells: ΔCK2β- and TGFβ1-treated cells (2ng/ml for 72h) and each from two independent cell cultures (duplicates).

INSTRUMENT(S): Agilent-014850 Whole Human Genome Microarray 4x44K G4112F (Probe Name version)

ORGANISM(S): Homo Sapiens

SUBMITTER: Odile FILHOL  

PROVIDER: GSE28569 | GEO | 2012-05-07

SECONDARY ACCESSION(S): PRJNA139141

REPOSITORIES: GEO

Dataset's files

Source:
Action DRS
GSE28569_RAW.tar Raw
filelist.txt Txt
Items per page:
1 - 2 of 2

Similar Datasets

2012-05-06 | E-GEOD-28569 | ArrayExpress
| E-GEOD-28569 | BioStudies
| E-GEOD-28448 | BioStudies
| S-EPMC7782820 | BioStudies
| E-GEOD-56445 | BioStudies
| S-ECPF-GEOD-56445 | BioStudies
| S-EPMC8154591 | BioStudies
| S-EPMC3733955 | BioStudies
| S-EPMC8690490 | BioStudies
| S-EPMC8028662 | BioStudies