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Genomic and Cytogenetic Characterization of a Balanced Translocation Disrupting NUP98.

Authors :
Thibodeau, My Linh
Steinraths, Michelle
Brown, Lindsay
Zong, Zheyuan
Shomer, Naomi
Taubert, Stefan
Mungall, Karen L.
Ma, Yussanne P.
Mueller, Rosemary
Birol, Inanc
Lehman, anna
Source :
Cytogenetic & Genome Research; Oct2017, Vol. 152 Issue 3, p117-121, 5p, 1 Diagram
Publication Year :
2017

Abstract

A 41-year-old Asian woman with bilateral renal angiomyolipomas (AML) was incidentally identified to have a balanced translocation, 46,XX,t(11; 12)(p15.4;q 15). She had no other features or family history to suggest a diagnosis of tuberous sclerosis. Her healthy daughter had the same translocation and no renal AML at the age of 3 years. Whole-genome sequencing was performed on genomic maternal DNA isolated from blood. A targeted de novo assembly was then conducted with ABySS for chromosomes 11 and 12. Sanger sequencing was used to validate the translocation breakpoints. As a result, genomic characterization of chromosomes 11 and 12 revealed that the 11 p breakpoint disrupted the NUP98 gene in intron 1, causing a separation of the promoter and transcription start site from the rest of the gene. The translocation breakpoint on chromosome 12q was located in a gene desert. NUP98 has not yet been associated with renal AML pathogenesis, but somatic NUP98 alterations are recurrently implicated in hematological malignancies, most often following a gene fusion event. We also found evidence for complex structural events involving chromosome 12, which appear to disrupt the TDG gene. We identified a TDGP1 partially processed pseudogene at 12p 12.1, which adds complexity to the de novo assembly. In conclusion, this is the first report of a germline constitutional structural chromosome rearrangement disrupting NUP98 that occurred in a generally healthy woman with bilateral renal AML. [ABSTRACT FROM AUTHOR]

Details

Language :
English
ISSN :
14248581
Volume :
152
Issue :
3
Database :
Complementary Index
Journal :
Cytogenetic & Genome Research
Publication Type :
Academic Journal
Accession number :
125529198
Full Text :
https://doi.org/10.1159/000479463