1. Genome-wide profiling of non-smoking-related lung cancer cells reveals common RB1 rearrangements associated with histopathologic transformation in EGFR-mutant tumors
- Author
-
Julian Carretero, Ana Patiño-García, Enriqueta Felip, M Saigi, Ernest Nadal, Ramon Palmero, Daniel Alameda, S. Verdura, Noemi Reguart, Luis M. Montuenga, Beatriz Martinez-Delgado, Conxi Lázaro, Juan J. Alburquerque-Bejar, David Sidransky, A Teulé, O. Juan-Vidal, Raul Tonda, Eva Pros, Montserrat Sanchez-Cespedes, I. Català, Anna Esteve-Codina, Ignacio Gil-Bazo, Gema Gomez-Mariano, M. Jove, J Torres-Lanzas, Ruben Pio, Fundación Científica AECC, Ministerio de Economía y Competitividad (España), Instituto de Salud Carlos III - ISCIII, European Regional Development Fund (ERDF/FEDER), Fundación Ramón Areces, Gobierno de Navarra, Asociación Española Contra el Cáncer, Instituto de Salud Carlos III, Unión Europea. Fondo Europeo de Desarrollo Regional (FEDER/ERDF), and Comunidad Foral de Navarra (España)
- Subjects
0301 basic medicine ,Lung Neoplasms ,EGFR ,Ubiquitin-Protein Ligases ,Adenocarcinoma of Lung ,medicine.disease_cause ,03 medical and health sciences ,0302 clinical medicine ,Germline mutation ,tyrosine kinase inhibitors ,medicine ,Genetic predisposition ,Humans ,whole-exome sequencing ,Lung cancer ,Gene ,Protein Kinase Inhibitors ,Exome sequencing ,Mutation ,business.industry ,EGFR, RB1, lung adenocarcinoma, nonsmokers, tyrosine kinase inhibitors, whole-exome sequencing ,Hematology ,respiratory system ,medicine.disease ,lung adenocarcinoma ,digestive system diseases ,respiratory tract diseases ,ErbB Receptors ,Retinoblastoma Binding Proteins ,030104 developmental biology ,Oncology ,Drug Resistance, Neoplasm ,030220 oncology & carcinogenesis ,Cancer cell ,Cancer research ,business ,RB1 ,Tyrosine kinase ,Microtubule-Associated Proteins ,nonsmokers - Abstract
The etiology and the molecular basis of lung adenocarcinomas (LuADs) in nonsmokers are currently unknown. Furthermore, the scarcity of available primary cultures continues to hamper our biological understanding of non-smoking-related lung adenocarcinomas (NSK-LuADs). We established patient-derived cancer cell (PDC) cultures from metastatic NSK-LuADs, including two pairs of matched EGFR-mutant PDCs before and after resistance to tyrosine kinase inhibitors (TKIs), and then performed whole-exome and RNA sequencing to delineate their genomic architecture. For validation, we analyzed independent cohorts of primary LuADs. In addition to known non-smoker-associated alterations (e.g. RET, ALK, EGFR, and ERBB2), we discovered novel fusions and recurrently mutated genes, including ATF7IP, a regulator of gene expression, that was inactivated in 5% of primary LuAD cases. We also found germline mutations at dominant familiar-cancer genes, highlighting the importance of genetic predisposition in the origin of a subset of NSK-LuADs. Furthermore, there was an over-representation of inactivating alterations at RB1, mostly through complex intragenic rearrangements, in treatment-naive EGFR-mutant LuADs. Three EGFR-mutant and one EGFR-wild-type tumors acquired resistance to EGFR-TKIs and chemotherapy, respectively, and histology on re-biopsies revealed the development of small-cell lung cancer/squamous cell carcinoma (SCLC/LuSCC) transformation. These features were consistent with RB1 inactivation and acquired EGFR-T790M mutation or FGFR3-TACC3 fusion in EGFR-mutant tumors. We found recurrent alterations in LuADs that deserve further exploration. Our work also demonstrates that a subset of NSK-LuADs arises within cancer-predisposition syndromes. The preferential occurrence of RB1 inactivation, via complex rearrangements, found in EGFR-mutant tumors appears to favor SCLC/LuSCC transformation under growth-inhibition pressures. Thus RB1 inactivation may predict the risk of LuAD transformation to a more aggressive type of lung cancer, and may need to be considered as a part of the clinical management of NSK-LuADs patients. This work was supported by the Fundacion Cientifica Asociacion Española Contra el Cancer-AECC (grant number GCB14142170MONT) to LMM, MS-C, and EF; the Spanish Ministry of Economy and Competitivity-MINECO (grant number SAF-2017-82186R to MS-C; Rio Hortega-CM17/00180 to MS; PROYBAR17005NADA to EN); the Health Institute Carlos III-ISCIII, Fondo Europeo de Desarrollo Regional-FEDER (grant Number PT13/0001/0044, PT17/0009/0019, PI16 01821); the Government of Navarra (grant number DIANA project); and the Ramon Areces Foundation (no grant number is applicable) to LMM and RP. Sí
- Published
- 2020