Skip to main content
. 2017 Sep 24;8(49):84743–84760. doi: 10.18632/oncotarget.21262

Figure 3. Vemurafenib-resistant PTC patient-derived cells with BRAFV600E and P16-/- show an increased tetraploidy/aneuploidy and expansion of clones with chromosome 5 amplification.

Figure 3

A.-C. Ideogram of an Affymetrix oligonucleotide-SNP microarray analysis of the chromosomes landscape of KTC1Naive, KTC1Res.1, and KTC1Res.2 cells showed copy number gain of chromosome 5 (red box) and on 17p, loss on chromosome 9p and copy number neutral loss of heterozygosity on chromosomes 2 and 7. KTC1Res.1 and KTC1Res.2 cells acquire copy number gain of 5q compared to KTC1Naive cells. D. Affymetrix oligonucleotide-SNP microarray analysis with zoom in of somatic copy number variations (SCNV) of chromosome 5 in KTC1Naive (pink), KTC1Res.1 (orange) and KTC1Res.1 (blue) cells. KTC1Res.1 (2.45 copies) and KTC1Res.2 (2.44) showed extra copies of chromosome 5q compared to the KTC1Naive cells (2 copies). KTC1Naive cells showed 3.8 extra copies of 5p (produced by two copies of one 5p isochromosome) in 45% of the cells in the sample. KTC1Res.1 cells showed 2.56 copies of chromosome 5p in 44% of the cells and 2 extra copies of 5p (produced by a 5p isochromosome) in 17% of the cells in the sample. KTC1Res.2 cells showed 2.78 copies of chromosome 5 in 45% of the cells and 2 extra copies of 5p (produced by a 5p isochromosome) in 5.5% of the cells in the sample. All these findings were validated by at least by two independent experiments with replicates measurements. E. Clones with respect to chromosome 5 identified in KTC1Naive, KTC1Res.1 and KTC1Res.2 cells. KTC1 cells showed karyotype with either diploidy, or aneuploidy or tetrasomy (due to tetraploidy) of chromosome 5. Green and red dots exemplify how these karyotypes are visualized by FISH in panel F. F. Chromosome 5 clones assessed by fluorescence in situ hybridization (FISH) analysis in KTC1Naive, KTC1Res.1 and KTC1Res.2 cells. Specific probes identify chromosome 5p (green) and 5q (red). G. Quantification of chromosome 5 clones detected by FISH in KTC1Naive, KTC1Res.1 and KTC1Res.2 cells.