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Next Generation Sequencing for the Detection of Actionable Mutations in Solid and Liquid Tumors
Published on: September 20, 2016
Mutational analysis of the CDKN2 (MTS1/p16ink4A) gene in primary B-cell lymphomas
T Uchida1, T Watanabe, T Kinoshita
1First Department of Internal Medicine, Nagoya University School of Medicine, Japan.
Abstract:
The CDKN2 gene located on chromosome 9p21 encodes the cyclin-dependent kinase-4 inhibitor p16. This gene is a putative tumor-suppressor gene because of its frequent alterations in many kinds of tumor cell lines. We analyzed the CDKN2 gene to evaluate its alterations in 52 primary specimens of non-Hodgkin's lymphoma (NHL) or chronic lymphocytic leukemia (CLL) of B-cell origin by Southern blot analysis, polymerase chain reaction-mediated single-strand conformation polymorphism (PCR-SSCP) analysis, and direct sequencing. By Southern blot analysis, we showed homozygous deletion of the CDKN2 gene in 3 of 42 patients with B-NHL (7.1%). After screening by PCR-SSCP analysis, direct sequencing identified one missense mutation at codon 72 (nucleotide 233) and two frameshifts due to a 35-bp deletion arising at codon 49 (nucleotides 163 to 175) in patients with B-NHL (3 of 42, 7.1%). In the patient carrying the missense mutation, hemizygous deletion of the CDKN2 gene was also suspected. In this study, we detected alterations in CDKN2 in 6 of 42 patients (14.3%) with B-NHL and in none of 10 patients with B-CLL. Our results suggest that the CDKN2 alterations contribute in tumorigenesis in some patients with B-NHL.
Insights
Alterations in the CDKN2 gene were found in 14.3% of B-cell non-Hodgkin
Area of Science:
- Oncology
- Molecular Biology
- Genetics
Background:
- The CDKN2 gene, encoding the cyclin-dependent kinase-4 inhibitor p16, is frequently altered in tumor cell lines, suggesting a tumor-suppressor role.
- Understanding CDKN2 gene alterations is crucial for investigating the molecular mechanisms underlying B-cell malignancies.
Purpose of the Study:
- To evaluate alterations of the CDKN2 gene in primary B-cell non-Hodgkin's lymphoma (NHL) and chronic lymphocytic leukemia (CLL) specimens.
- To determine the frequency and types of CDKN2 gene alterations in these hematological malignancies.
Main Methods:
- Analysis of 52 primary B-cell NHL and CLL specimens.
- Utilized Southern blot analysis, polymerase chain reaction-mediated single-strand conformation polymorphism (PCR-SSCP), and direct sequencing to detect CDKN2 alterations.
Main Results:
- Homozygous deletion of CDKN2 was observed in 7.1% (3/42) of B-NHL patients.
- Identified one missense mutation and two frameshift mutations (due to a 35-bp deletion) in 7.1% (3/42) of B-NHL patients.
- Overall, CDKN2 alterations were detected in 14.3% (6/42) of B-NHL patients, with no alterations found in 10 B-CLL patients.
Conclusions:
- CDKN2 gene alterations, including deletions and mutations, are present in a subset of B-cell non-Hodgkin's lymphoma.
- These findings suggest that CDKN2 alterations play a role in the tumorigenesis of some B-NHL cases.
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