AUTHOR=Zhu Qiong , Wang Jianchao , Zhang Wenfang , Zhu Weifeng , Wu Zaizeng , Chen Yanping , Chen Musheng , Zheng Limei , Tang Jianqing , Zhang Sheng , Wang Di , Wang Xingfu , Chen Gang 

TITLE=Whole-Genome/Exome Sequencing Uncovers Mutations and Copy Number Variations in Primary Diffuse Large B-Cell Lymphoma of the Central Nervous System

JOURNAL=Frontiers in Genetics

VOLUME=13

YEAR=2022

URL=https://www.frontiersin.org/journals/genetics/articles/10.3389/fgene.2022.878618

DOI=10.3389/fgene.2022.878618

ISSN=1664-8021

ABSTRACT=<p><bold>Background/objective:</bold> Identification of key genetic alterations is of importance in the targeted therapies of primary central nervous system lymphoma (PCNSL). However, only a small number of studies have been carried out in PCNSL. In this study, we further described the genetic mutations and copy number variations (CNVs) in PCNSL patients using whole-genome/exome sequencing (WGS/WES), as well as revealed their associations with patients’ clinicopathological features and prognosis.</p><p><bold>Methods:</bold> Tumor specimens from 38 patients with primary diffuse large B-cell lymphoma of the central nervous system (CNS DLBCL) were enrolled to WGS (<italic>n</italic> = 24) or WES (<italic>n</italic> = 14). The CNVs and mutations of 24 samples (WGS) and 38 samples (WGS/WES) were characterized, respectively. The associations between CNVs and mutations with the overall survival rates of PCNSL patients were also evaluated.</p><p><bold>Results:</bold> The most common mutations were identified in <italic>IGLL5</italic> (68%), <italic>PIM1</italic> (63%), <italic>MYD88</italic> (55%), <italic>CD79B</italic> (42%), <italic>BTG2</italic> (39%), <italic>PCLO</italic> (39%), <italic>KMT2D</italic> (34%), and <italic>BTG1</italic> (29%) genes. Among the mutated genes, <italic>EP300</italic>, <italic>ETV6,</italic> and <italic>HIST1H1E</italic> mutations were exclusively detected in the elderly, while <italic>DUSP2</italic> mutations were associated with the immune microenvironment indicators. In addition, <italic>KMT2D</italic> mutation was associated with a poor prognosis. In addition, 488 CNVs including 91 gains and 397 deletions were observed across 24 samples from WGS results. Notably, 1q31.3 amplification was closely associated with the poor prognosis of PCNSL patients.</p><p><bold>Conclusion:</bold> This study further characterizes the genomic landscape of primary CNS DLBCL using WGS/WES, which provides insight into understanding the pathogenesis of PCNSL and fosters new ideas for the targeted treatment of PCNSL.</p>