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Most cancer cells have acquired clonal chromosome abnormalities. An increasing number of characteristic aberrations, in particular balanced changes, are with remarkable specificity associated with distinctive morphological and clinical disease characteristics. The identification of these recurrent aberrations has several important implications. First, cytogenetics has become an increasingly important tool in the clinical management of cancer patients to help establish a correct diagnosis, to predict prognosis and to select the most appropriate treatment. Second, the cytogenetic information has provided invaluable help to identify genes of importance in the carcinogenic process by focusing the attention to chromosomal sites that may harbour genes which when rearranged lead to neoplasia. Practically, all balanced structural rearrangements that have been characterised at the molecular level have been found to exert their action through one of the two alternative mechanisms: deregulation, usually overexpression, of a seemingly normal gene in one of the breakpoints, or the creation of an abnormal hybrid gene through fusion of parts of two genes, one in each breakpoint. Key Concepts Chromosome aberrations are a characteristic feature of neoplasia. Chromosome abnormalities have been reported in almost 70 000 human neoplasms. Recurrent balanced chromosome rearrangements, in particular translocations, are associated with distinctive tumour characteristics. Cancer‐associated chromosome changes are of clinical importance for diagnosis, prognosis and treatment. The breakpoints of balanced structural chromosome aberrations point at the locations of cancer‐relevant genes. Cancer‐associated structural chromosome abnormalities lead to the formation of hybrid genes through fusions of parts of two genes located in the breakpoints. Almost 800 gene fusions created by an acquired chromosome change are known.
Most cancer cells have acquired clonal chromosome abnormalities. An increasing number of characteristic aberrations, in particular balanced changes, are with remarkable specificity associated with distinctive morphological and clinical disease characteristics. The identification of these recurrent aberrations has several important implications. First, cytogenetics has become an increasingly important tool in the clinical management of cancer patients to help establish a correct diagnosis, to predict prognosis and to select the most appropriate treatment. Second, the cytogenetic information has provided invaluable help to identify genes of importance in the carcinogenic process by focusing the attention to chromosomal sites that may harbour genes which when rearranged lead to neoplasia. Practically, all balanced structural rearrangements that have been characterised at the molecular level have been found to exert their action through one of the two alternative mechanisms: deregulation, usually overexpression, of a seemingly normal gene in one of the breakpoints, or the creation of an abnormal hybrid gene through fusion of parts of two genes, one in each breakpoint. Key Concepts Chromosome aberrations are a characteristic feature of neoplasia. Chromosome abnormalities have been reported in almost 70 000 human neoplasms. Recurrent balanced chromosome rearrangements, in particular translocations, are associated with distinctive tumour characteristics. Cancer‐associated chromosome changes are of clinical importance for diagnosis, prognosis and treatment. The breakpoints of balanced structural chromosome aberrations point at the locations of cancer‐relevant genes. Cancer‐associated structural chromosome abnormalities lead to the formation of hybrid genes through fusions of parts of two genes located in the breakpoints. Almost 800 gene fusions created by an acquired chromosome change are known.
BackgroundAcquired primary chromosomal changes in cancer are sometimes found as sole karyotypic abnormalities. They are specifically associated with particular types of neoplasia, essential in establishing the neoplasm, and they often lead to the generation of chimeric genes of pathogenetic, diagnostic, and prognostic importance. Thus, the report of new primary cancer-specific chromosomal aberrations is not only of scientific but also potentially of clinical interest, as is the detection of their gene-level consequences.Case presentationRNA-sequencing was performed on a bone marrow sample from a patient with myelodysplastic syndrome (MDS). The karyotype was 46,XX,t(7;13)(p14;q12)[2]/46,XX[23]. The MDS later evolved into acute myeloid leukemia (AML) at which point the bone marrow cells also contained additional, secondary aberrations. The 7;13-translocation resulted in fusion of the gene PAN3 from 13q12 with PSMA2 from 7p14 to generate an out-of-frame PAN3–PSMA2 fusion transcript whose presence was verified by RT-PCR together with Sanger sequencing. Interphase fluorescence in situ hybridization analysis confirmed the existence of the chimeric gene.ConclusionsThe novel t(7;13)(p14;q12)/PAN3–PSMA2 in the neoplastic bone marrow cells could affect two key protein complex: (a) the PAN2/PAN3 complex (PAN3 rearrangement) which is responsible for deadenylation, the process of removing the poly(A) tail from RNA, and (b) the proteasome (PSMA2 rearrangement) which is responsible for degradation of intracellular proteins. The patient showed a favorable response to decitabine after treatment with 5-azacitidine and conventional intensive chemotherapy had failed. Whether this might represent a consistent feature of MDS/AML with this particular gene fusion, remains unknown.
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