Complex patterns of chromosome 11 aberrations in myeloid malignancies target CBL, MLL, DDB1 and LMO2

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Authors	KLAMPFL T. MILOSEVIC J. PUDA A. SCHONEGGER A. BAGIENSKI K. BERG T. HARUTYUNYAN A. GISSLINGER B. RUMI E. MALCOVATI L. PIETRA D. ELENA Ch. DELLA PORTA M G PIERI L. GUGLIELMELLI P. BOCK Ch. DOUBEK Michael DVOŘÁKOVÁ Dana SUVAJDZIC N. TOMIN D. TOSIC N. RÁČIL Zdeněk STEURER M. PAVLOVIC S. VANNUCCHI A. CAZZOLA M. GISSLINGER H. KRALOVICS R.
Year of publication	2013
Type	Article in Periodical
Magazine / Source	PLOS ONE
MU Faculty or unit	Central European Institute of Technology
Citation
Web	http://www.plosone.org/article/info%3Adoi%2F10.1371%2Fjournal.pone.0077819
Doi	http://dx.doi.org/10.1371/journal.pone.0077819
Field	Oncology and hematology
Keywords	CBL; DDB1; LMO2; myeloid malignancies target
Attached files	EL_1138599_Complex_patterns.pdf
Description	Exome sequencing of primary tumors identifies complex somatic mutation patterns. Assignment of relevance of individual somatic mutations is difficult and poses the next challenge for interpretation of next generation sequencing data. Here we present an approach how exome sequencing in combination with SNP microarray data may identify targets of chromosomal aberrations in myeloid malignancies. The rationale of this approach is that hotspots of chromosomal aberrations might also harbor point mutations in the target genes of deletions, gains or uniparental disomies (UPDs). Chromosome 11 is a frequent target of lesions in myeloid malignancies. Therefore, we studied chromosome 11 in a total of 813 samples from 773 individual patients with different myeloid malignancies by SNP microarrays and complemented the data with exome sequencing in selected cases exhibiting chromosome 11 defects. We found gains, losses and UPDs of chromosome 11 in 52 of the 813 samples (6.4%). Chromosome 11q UPDs frequently associated with mutations of CBL. In one patient the 11qUPD amplified somatic mutations in both CBL and the DNA repair gene DDB1. A duplication within MLL exon 3 was detected in another patient with 11qUPD. We identified several common deleted regions (CDR) on chromosome 11. One of the CDRs associated with de novo acute myeloid leukemia (P=0.013). One patient with a deletion at the LMO2 locus harbored an additional point mutation on the other allele indicating that LMO2 might be a tumor suppressor frequently targeted by 11p deletions. Our chromosome-centered analysis indicates that chromosome 11 contains a number of tumor suppressor genes and that the role of this chromosome in myeloid malignancies is more complex than previously recognized.
Related projects:	Functional and molecular characteristics of cancer and normal stem cells - identification of targets for novel therapeutics and therapeutic strategies CEITEC - Central European Institute of Technology