Chronic lymphocytic leukemia is characterized by the accumulation of B cells that are resistant to apoptosis. This resistance is induced by pro-survival stimuli from the microenvironment. TCL1 and ATM are central to the pathogenesis of the disease and associated with more aggressive disease. Their protein products have recently been shown to physically interact in leukemic cells and to impact on NF-kB signaling, which is a key regulator of apoptosis. In the present study we show that TCL1 and ATM are significantly co-expressed and up-regulated in malignant cells compared to non-malignant B cells, and that expression of TCL1 is partially deregulated by aberrant DNA-methylation. In addition, complex external stimuli induce essentially similar TCL1 and ATM time-course kinetics. In line with a coordinative regulation of NF-kB signaling by TCL1, its knockdown induced apoptosis in primary leukemia cells. These findings suggest that both genes functionally cooperate to modulate similar apoptosis-related cellular pathways.
ABSTRACT
© F e r r a t a S t o r t i F o u n d a t i o nwas performed with Absolute-QPCR-SYBR-Green-ROX-Mix (Thermo-Scientific) containing 70nM primers (Online Supplementary Table S1) with 7300-Real-time-PCR-System (Applied Biosystems) at 15 minutes 95°C, 40 cycles: 15s 95°C; 30s 60°C. Expression arrays: Illumina-Human-Sentrix-12-BeadChip.
Modeling and statisticsFor analysis and visualization of previously published gene expression data, Oncomine™ (Compendia Bioscience, Ann Arbor, MI) was used. For details of network modeling please see Online Supplementary Design and Methods. In brief, genes were grouped into clusters according to their expression kinetics using Partitioning Around Medoids (PAM) clustering method to yield an appropriate number of genes. The resulting medoids represent genes corresponding to network nodes. Networks were estimated using a dynamic Bayesian network approach. The analysis employs a Markov Chain Monte Carlo algorithm for obtaining posterior edge probabilities of the network.
SiRNA transfectionWe transfected 5x10 6 CLL-PBMCs using 1 μg siRNA targeting TCL1A (Silencer-Select-Pre-designed-and-Validated siRNA, Ambion) and 100µl B-cell solution-B using program U-015 (Amaxa NucleofectorII). ON-TARGETplus SMARTpool siRNA, MCL-1 (Dharmacon) and Silencer-Negative-Control #1 (Ambion) were used as controls. After transfection, cells were cocultured with HS-5 cells (2.6x10 4 cells/ 24-well). CLL cell survival was analyzed by staining 7-AAD, Annexin V and propidium iodide (PI) and CD19-APC using FACSCalibur flow cytometer (BD Biosciences).
Results and DiscussionTCL1A and ATM ( Figure 1A) are central players in the pathogenesis of CLL. We therefore studied transcription of TCL1A and ATM and discovered a strikingly strong correlation of their expression levels in primary cells ( © F e r r a t a S t o r t i F o u n d a t i o n 1B). In order to rule out confounding effects caused by deletion of the critical region in 11q22-q23 harboring the ATM and the miR34b-5p genes that target TCL1A, ...