1. Ultrasensitive Detection of NOTCH1 c.7544_7545delCT Mutations in Chronic Lymphocytic Leukemia by Droplet Digital PCR Reveals High Frequency of Subclonal Mutations and Predicts Clinical Outcome in Cases with Trisomy 12
- Author
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Samuel Gusscott, Helene Bruyere, Alexa Johnston, Catherine Hoofd, Sonya Lam, Alina S. Gerrie, Rachel O.L. Wong, Steven J.T. Huang, David W. Scott, Susana Ben-Neriah, Cynthia L. Toze, Christian Steidl, Tanya L. Gillan, and Andrew P. Weng
- Subjects
0301 basic medicine ,Adult ,Male ,Genotype ,Chronic lymphocytic leukemia ,medicine.disease_cause ,Real-Time Polymerase Chain Reaction ,Sensitivity and Specificity ,Pathology and Forensic Medicine ,Frameshift mutation ,03 medical and health sciences ,symbols.namesake ,0302 clinical medicine ,Gene Frequency ,hemic and lymphatic diseases ,medicine ,Humans ,Digital polymerase chain reaction ,Allele ,Receptor, Notch1 ,Allele frequency ,Alleles ,Aged ,Proportional Hazards Models ,Sanger sequencing ,Aged, 80 and over ,Mutation ,business.industry ,Middle Aged ,medicine.disease ,Prognosis ,Leukemia, Lymphocytic, Chronic, B-Cell ,030104 developmental biology ,030220 oncology & carcinogenesis ,symbols ,Cancer research ,Molecular Medicine ,Female ,business ,Trisomy - Abstract
NOTCH1 is recurrently mutated in chronic lymphocytic leukemia (CLL), most commonly as a 2-bp frameshift deletion (c.7541_7542delCT). This mutated allele encodes a truncated form of the receptor (p.P2514Rfs∗4) lacking the C-terminal proline, glutamic acid, serine, and threonine (PEST) degradation domain that increases NOTCH1 signaling duration. NOTCH1 mutation has been associated with poor clinical outcomes in CLL. We validated a highly sensitive and quantitative droplet digital PCR assay for the NOTCH1 delCT mutation, which was anticipated to perform well compared with Sanger sequencing and allele-specific PCR. Performance characteristics of this assay were tested on 126 samples from an unselected CLL cohort and a separate cohort of 85 samples from patients with trisomy 12 CLL. The delCT mutation was detected at allele frequencies as low as 0.024%; 25% of unselected cases and 55% of trisomy 12 cases were positive at the 0.024% detection threshold. Mutational burdens ≥1% were significantly associated with shorter overall survival (OS) in patients with trisomy 12+ disease in multivariate analysis (median OS, 9.1 versus 13 years, with hazard ratio of 2.34; P = 0.031). Mutational burdens1% correlated with shorter OS in univariate, but not multivariate, analyses. These results suggest that droplet digital PCR testing for NOTCH1 delCT mutation may aid in risk stratification and/or disease monitoring in certain subsets of patients with CLL.
- Published
- 2019