Tumor Mutational Burden by Whole-Genome Sequencing in Resected NSCLC of Never Smokers

• Published in: Cancer epidemiology, biomarkers & prevention biomarkers & prevention, 2022-12, Vol.31 (12), p.2219-2227
• Main Authors: Ruel, Louis-Jacques, Li, Zhonglin, Gaudreault, Nathalie, Henry, Cyndi, Saavedra Armero, Victoria, Boudreau, Dominique K, Zhang, Tongwu, Landi, Maria Teresa, Labbé, Catherine, Couture, Christian, Desmeules, Patrice, Joubert, Philippe, Bossé, Yohan
• Format: Article
• Language: English
• Subjects: Biomarkers, Tumor - genetics; Carcinoma, Non-Small-Cell Lung - genetics; Carcinoma, Non-Small-Cell Lung - surgery; Exome Sequencing; Humans; Lung Neoplasms - genetics; Lung Neoplasms - surgery; Smokers
• ISSN: 1055-9965; 1538-7755
• DOI: 10.1158/1055-9965.EPI-22-0630

Data are scarce about tumor mutational burden (TMB) as a biomarker in never smokers with non-small cell lung cancer (NSCLC). TMB was assessed by whole-genome sequencing (WGS) and compared with in silico reduced whole-exome sequencing (WES) and targeted commercial next-generation sequencing (NGS) gene panels in 92 paired tumor-normal samples from never smokers who underwent NSCLC resection with curative intent. Analyses were performed to test for association with survival after surgery and to identify the optimal prognostic TMB cutoff. Tumors of never smokers with NSCLC had low TMB scores (median 1.57 mutations/Mb; range, 0.13-17.94). A TMB cutoff of 1.70 mutations/Mb was associated with a 5-year overall survival of 58% in the high-TMB (42% of cases) compared with 86% in low-TMB patients (Wald P = 0.0029). TMB scores from WGS and WES were highly correlated (Spearman ρ = 0.93, P < 2.2e-16). TMB scores from NGS panels demonstrated high intraindividual fluctuations and identified high-TMB patients with 65% concordance in average compared with WGS. In resected NSCLC of never smokers, high TMB was associated with worse prognosis. WES provided a good estimate of TMB while targeted NGS panels seem to lack adequate depth and resolution in the setting of low mutation burden. TMB is a prognostic indicator of survival in resected NSCLC from individuals who never smoked. In this setting of low mutation counts, TMB can be accurately measured by WGS or WES, but not NGS panels.