| Literature DB >> 27123097 |
Eyad Alhourani1, Moneeb A K Othman1, Joana B Melo2, Isabel M Carreira2, Beata Grygalewicz3, Dragana Vujić4, Zeljko Zecević5, Gordana Joksić6, Anita Glaser1, Beate Pohle1, Cordula Schlie1, Sven Hauke7, Thomas Liehr1.
Abstract
Deletions within chromosome 11q22-23, are considered among the most common chromosomal aberrations in chronic lymphocytic leukemia (CLL), and are associated with a poor outcome. In addition to the ataxia telangiectasia mutated (ATM) gene, the baculoviral IAP repeat-containing 3 (BIRC3) gene is also located in the region. BIRC3 encodes a negative regulator of the non-canonical nuclear factor κ-light-chain-enhancer of activated B cells (NF-κB) protein. Disruption of BIRC3 is known to be restricted to CLL fludarabine-refractory patients. The aim of the present study was to determine the frequency of copy number changes of BIRC3 and to assess its association with two known predictors of negative CLL outcome, ATM and tumor protein 53 (TP53) gene deletions. To evaluate the specificity of BIRC3 alterations to CLL, BIRC3 copy numbers were assessed in 117 CLL patients in addition to 45 B-cell acute lymphocytic leukemia (B-ALL) patients. A commercially available multiplex ligation dependent probe amplification kit, which includes four probes for the detection of TP53 and four probes for ATM gene region, was applied. Interphase-directed fluorescence in situ hybridization was used to apply commercially available probes for BIRC3, ATM and TP53. High resolution array-comparative genomic hybridization was conducted in selected cases. Genetic abnormalities of BIRC3 were detected in 23/117 (~20%) of CLL and 2/45 (~4%) of B-ALL cases. Overall, 20 patients with CLL and 1 with B-ALL possessed a BIRC3 deletion, whilst 3 patients with CLL and 1 with B-ALL harbored a BIRC3 duplication. All patients with an ATM deletion also carried a BIRC3 deletion. Only 2 CLL cases possessed deletions in BIRC3, ATM and TP53 simultaneously. Evidently, the deletion or duplication of BIRC3 may be observed rarely in B-ALL patients. BIRC3 duplication may occur in CLL patients, for which the prognosis requires additional studies in the future. The likelihood that TP53 deletions occur simultaneously with BIRC3 and/or ATM aberrations is low. However, as ATM deletions may, but not always, associate with BIRC3 deletions, each region should be considered in the future diagnostics of CLL in order to aid treatment decisions, notably whether to treat with or without fludarabine.Entities:
Keywords: B-cell acute lymphocytic leukemia; baculoviral IAP repeat-containing 3 gene; chronic lymphocytic leukemia; copy number alterations; deletion; duplication; hyperdiploidy
Year: 2016 PMID: 27123097 PMCID: PMC4840914 DOI: 10.3892/ol.2016.4388
Source DB: PubMed Journal: Oncol Lett ISSN: 1792-1074 Impact factor: 2.967
Gender, age and cytogenetic results of the B-ALL and CLL cases used in the present study.
| Case no. | Gender | Age, years | DNA extracted from | Cytogenetic results |
|---|---|---|---|---|
| A-1 | Male | 84 | BM | 46,XY, −9,t(9;22)(q34;q11),del( |
| A-2 | Male | 23 | BM | Hyperdiploid/46,XY |
| A-3 | Male | 34 | BM | 46,XY |
| A-4 | Male | 19 | BM | 46,XY |
| A-5 | Female | 76 | BM | 45,X,-X[14]/46,XX[2] |
| C-1 | Male | 73 | BM | 46–47,XY,del( |
| C-2 | Female | 50 | B | n.a. |
| C-3 | Female | 39 | BM | 43–46,XY,del( |
| C-4 | Male | 64 | BM | 46,XY |
| C-5 | Male | 43 | BM | 46,XY |
| C-6 | Male | 67 | BM | 46,XY |
| C-7 | Male | 77 | BM | 46,XY,del( |
| C-8 | Male | 53 | BM | 46,XY |
| C-9 | Male | 59 | BM | n.a. |
| C-10 | Male | 73 | BM | 45,XY,der( |
| C-11 | Male | 72 | B | n.a. |
| C-12 | Female | 73 | BM | 46,XX,add( |
| C-13 | Male | 54 | B | 46,XY |
| C-14 | Male | 68 | BM | 46,XY |
| C-15 | Male | 53 | BM | 46,XY |
| C-16 | Male | 75 | BM | n.a. |
| C-17 | Female | 67 | BM | 46,XX[18] 45,X,-X[1] |
| C-18 | Male | 74 | BM | n.a. |
| C-19 | Male | 65 | BM | 46,XY |
| C-20 | Male | 77 | B | 45–46,XY,del( |
| C-21 | Male | 83 | BM | 47,XY,-11,+12,+mar[cp3]/ 47,XY,del( |
| C-22 | Male | 72 | BM | 46,XY |
| C-23 | Male | 59 | B | 46,XY |
| C-24 | Female | 66 | B | n.a. |
| C-25 | Female | 71 | B | 46,XX |
| C-26 | Male | 65 | BM | 46,XY,?t(3;?)(p21;?),add( |
| C-27 | Female | 74 | B | 46,XX |
| C-28 | Female | 74 | BM | 46,XX,i( |
| C-29 | Female | 90 | B | n.a. |
| C-30 | Male | 56 | BM | n.a. |
| C-31 | Female | 65 | BM | 46,XX |
A-, B-ALL case; C-, CLL case; BM, cell pellet in Carnoys fixative from bone marrow; B, blood; n.a., data not available.
Figure 1.The distribution and of BIRC3, ATM and TP53 aberrations in CLL and B-ALL patients are summarized. (A) In CLL and B-ALL, the majority of patients did not show alterations in the three genes. Distribution of the loss and gain of copy numbers in the two patient groups is depicted. (B) Combinations of loss and gain of the three genes were identified in the patients with CLL and B-ALL, with alterations from part (A). BIRC3, baculoviral IAP repeat-containing 3; ATM, ataxia telangiectasia mutated; TP53, tumor protein 53; CLL, chronic lymphocytic leukemia; B-ALL, B-cell acute lymphocytic leukemia.
Summary of MLPA and iFISH results of TP53, ATM, BIRC3 and MALT1 in all studied cases.
| Case no. | MLPA | iFISH | MLPA | iFISH | iFISH | iFISH |
|---|---|---|---|---|---|---|
| A-1 | N | N | D | D (76.5) | D (75.0) | N |
| A-2 | n.a. | A (100.0) | n.a. | A (100.0) | A (100.0) | A (100.0) |
| A-3 | D | D (8.5) | N | N | N | N |
| A-4 | D | D (10.0) | N | N | N | N |
| A-5 | D | D (10.0) | N | N | N | N |
| A-6 to A-33 | N | N | N | N | N | N |
| A-34 to A-45 | n.a. | N | n.a. | N | N | N |
| C-1 | D | D (86.0) | D | D (11.0) | D (80.0) | N |
| C-2 | D | D (21.0) | N | D (23.0) | D (22.0) | N |
| C-3 | N | N | D | D (98.0) | D (90.0) | N |
| C-4 | N | N | D | D (23.5) | D (30.0) | N |
| C-5 | N | N | D | D (24.0) | D (25.0) | N |
| C-6 | N | N | D | D (88.0) | D (85.0) | N |
| C-7 | N | N | D | D (90.0) | D (80.0) | N |
| C-8 | N | N | D | D (77.0) | D (50.0) | N |
| C-9 | N | N | D | D (98.0) | D (75.0) | N |
| C-10 | N | N | D | D (87.0) | D (60.0) | N |
| C-11 | N | N | D | D (95.0) | D (90.0) | N |
| C-12 | N | N | D | D (83.0) | D (80.0) | N |
| C-13 | N | N | D | D (93.0) | D (25.0) | N |
| C-14 | N | N | N | D (33.0) | D (15.0) | N |
| C-15 | N | N | N | D (12.0) | D (13.0) | N |
| C-16 | n.a. | N | n.a. | D (80.0) | D (78.0) | N |
| C-17 | n.a. | N | n.a. | D (10.0) | D (9.0) | N |
| C-18 | n.a. | N | n.a. | D (73.0) | D (64.0) | N |
| C-19 | n.a. | N | n.a. | D (9.0) | D (10.0) | N |
| C-20 | n.a. | N | n.a. | D (96.0) | D (42.0) | N |
| C-21 | D | D (16.0) | N | A (50.0) | A (50.0) | A (50.0) |
| C-22 | D | D (40.0) | N | A (40.0) | A (40.0) | A (40.0) |
| C-23 | N | N | N | N | A (36.0) | N |
| C-24 | D | D (19.0) | N | N | N | N |
| C-25 | D | D (36.0) | N | N | N | N |
| C-26 | D | D (89.0) | N | N | N | N |
| C-27 | D | D (77.0) | N | N | N | N |
| C-28 | D | D (95.0) | N | N | N | N |
| C-29 | N | D (11.5) | N | N | N | N |
| C-30 | n.a. | D (86.5) | n.a. | N | N | N |
| C-31 | N | N | N | N | N | A (75.0) |
| C-32 to C-91 | N | N | N | N | N | N |
| C-92 to C-117 | n.a. | N | n.a. | N | N | N |
Data are expressed as type of change to copy number (% of cells with aberration). TP53, tumor protein 53; ATM, ataxia telangiectasia mutated; BIRC3, baculoviral IAP repeat-containing 3; MALT1, mucosa-associated lymphoid tissue lymphoma translocation gene 1; MLPA, multiplex ligation-dependent probe amplification; iFISH, interphase fluorescence in situ hybridization; A-, B-ALL case; C-, CLL case; N, no aberration; D, deletion; A, amplification; n.a., data not available.
Figure 2.(A) Array comparative genomic hybridization confirmed the deletion in TP53, which was detected initially using iFISH and multiplex ligation dependent probe amplification for CLL cases C-21 and C-22. The whole short arm was deleted and the long arm was possibly duplicated due to an isochromosome 17 formation, at least in case C-21. (B) Examples for gain of copy numbers for BIRC3 and MALT1 in the 2 cases by iFISH: i) C-21, an example of 3 copies and ii) C-22, an example of 4 copies. (C) iFISH results of the CLL case C-23. BIRC3 had 3 copies in certain cells; however ATM, MALT1 and TP53 exhibited only 2 copies each, in all cells. TP53, tumor protein 53; CLL, chronic lymphocytic leukemia; iFISH, interphase fluorescence in situ hybridization; BIRC3, baculoviral IAP repeat-containing 3; MALT1, mucosa-associated lymphoid tissue lymphoma translocation gene 1; ATM, ataxia telangiectasia mutated.
Figure 3.Results obtained for B-ALL case A-1 by array comparative genomic hybridization and iFISH are summarized. (A) Deletion in 11q22-q23, initially detected by iFISH, resulted in loss of the whole long arm of a chromosome 11. (B) Examples for heterozygote deletions of ATM and BIRC3 detected by iFISH are depicted. iFISH, interphase fluorescence in situ hybridization; ATM, ataxia telangiectasia mutated; BIRC3, baculoviral IAP repeat-containing 3; MALT1, mucosa-associated lymphoid tissue lymphoma translocation gene 1; D11Z1, CEP 11 probe.