KEAP1/NFE2L2 mutations predict lung cancer radiation resistance that can be targeted by glutaminase inhibition.

Tumor genotyping is not routinely performed in localized non-small cell lung cancer (NSCLC) due to lack of associations of mutations with outcome. Here, we analyze 232 consecutive patients with localized NSCLC and demonstrate that KEAP1 and NFE2L2 mutations are predictive of high rates of local recurrence (LR) after radiotherapy but not surgery. Half of LRs occurred in KEAP1/NFE2L2 mutation tumors, indicating they are major molecular drivers of clinical radioresistance. Next, we functionally evaluate KEAP1/NFE2L2 mutations in our radiotherapy cohort and demonstrate that only pathogenic mutations are associated with radioresistance. Furthermore, expression of NFE2L2 target genes does not predict LR, underscoring the utility of tumor genotyping. Finally, we show that glutaminase inhibition preferentially radiosensitizes KEAP1 mutant cells via depletion of glutathione and increased radiation-induced DNA damage. Our findings suggest that genotyping for KEAP1/NFE2L2 mutations could facilitate treatment personalization and provide a potential strategy for overcoming radioresistance conferred by these mutations.

[1]  K. Forster,et al.  Long-Term Results of NRG Oncology RTOG 0617: Standard- Versus High-Dose Chemoradiotherapy With or Without Cetuximab for Unresectable Stage III Non-Small-Cell Lung Cancer. , 2019, Journal of clinical oncology : official journal of the American Society of Clinical Oncology.

[2]  Kwok-Kin Wong,et al.  Activation of Oxidative Stress Response in Cancer Generates a Druggable Dependency on Exogenous Non-essential Amino Acids. , 2019, Cell metabolism.

[3]  G. Ciliberto,et al.  Mutations in the KEAP1-NFE2L2 pathway define a molecular subset of rapidly progressing lung adenocarcinoma. , 2019, Journal of thoracic oncology : official publication of the International Association for the Study of Lung Cancer.

[4]  K. Ramchandran,et al.  Role of KEAP1/NFE2L2 Mutations in the Chemotherapeutic Response of Patients with Non–Small Cell Lung Cancer , 2019, Clinical Cancer Research.

[5]  R. Deberardinis,et al.  LKB1 and KEAP1/NRF2 pathways cooperatively promote metabolic reprogramming with enhanced glutamine dependence in KRAS-mutant lung adenocarcinoma. , 2019, Cancer research.

[6]  David A. Knowles,et al.  Clinically-relevant cell type cross-talk identified from a human lung tumor microenvironment interactome , 2019, bioRxiv.

[7]  Michael Lock,et al.  Stereotactic ablative radiotherapy versus standard of care palliative treatment in patients with oligometastatic cancers (SABR-COMET): a randomised, phase 2, open-label trial , 2019, The Lancet.

[8]  J. Lee,et al.  Local Consolidative Therapy Vs. Maintenance Therapy or Observation for Patients With Oligometastatic Non-Small-Cell Lung Cancer: Long-Term Results of a Multi-Institutional, Phase II, Randomized Study. , 2019, Journal of clinical oncology : official journal of the American Society of Clinical Oncology.

[9]  Ash A. Alizadeh,et al.  Determining cell-type abundance and expression from bulk tissues with digital cytometry , 2019, Nature Biotechnology.

[10]  Tomas Kron,et al.  Stereotactic ablative radiotherapy versus standard radiotherapy in stage 1 non-small-cell lung cancer (TROG 09.02 CHISEL): a phase 3, open-label, randomised controlled trial. , 2019, The Lancet. Oncology.

[11]  Ryan L. Collins,et al.  Variation across 141,456 human exomes and genomes reveals the spectrum of loss-of-function intolerance across human protein-coding genes , 2019, bioRxiv.

[12]  Mary A Davis,et al.  Glutaminase inhibitor CB-839 increases radiation sensitivity of lung tumor cells and human lung tumor xenografts in mice , 2019, International journal of radiation biology.

[13]  P. Adriaensens,et al.  Glutamine Addiction and Therapeutic Strategies in Lung Cancer , 2019, International journal of molecular sciences.

[14]  C. Paweletz,et al.  Suppression of STING Associated with LKB1 Loss in KRAS-Driven Lung Cancer. , 2018, Cancer discovery.

[15]  M. V. van Gisbergen,et al.  Targeting glucose and glutamine metabolism combined with radiation therapy in non-small cell lung cancer. , 2018, Lung cancer.

[16]  S. Kalnicki,et al.  Positron Emission Tomography-Adjusted Intensity Modulated Radiation Therapy for Locally Advanced Non-Small Cell Lung Cancer. , 2018, International journal of radiation oncology, biology, physics.

[17]  K. Sutherland,et al.  “Keaping” a lid on lung cancer: the Keap1-Nrf2 pathway , 2018, Cell cycle.

[18]  J. Szustakowski,et al.  STK11/LKB1 Mutations and PD-1 Inhibitor Resistance in KRAS-Mutant Lung Adenocarcinoma. , 2018, Cancer discovery.

[19]  T. Graeber,et al.  The GSK3 Signaling Axis Regulates Adaptive Glutamine Metabolism in Lung Squamous Cell Carcinoma. , 2018, Cancer cell.

[20]  Adrian V. Lee,et al.  An Integrated TCGA Pan-Cancer Clinical Data Resource to Drive High-Quality Survival Outcome Analytics , 2018, Cell.

[21]  Akiko Seki,et al.  Optimized RNP transfection for highly efficient CRISPR/Cas9-mediated gene knockout in primary T cells , 2018, The Journal of experimental medicine.

[22]  Ash A. Alizadeh,et al.  Combination Approach for Detecting Different Types of Alterations in Circulating Tumor DNA in Leiomyosarcoma , 2018, Clinical Cancer Research.

[23]  A. Jemal,et al.  Cancer statistics, 2018 , 2018, CA: a cancer journal for clinicians.

[24]  P. Iyengar,et al.  Consolidative Radiotherapy for Limited Metastatic Non–Small-Cell Lung Cancer: A Phase 2 Randomized Clinical Trial , 2018, JAMA oncology.

[25]  E. Yorke,et al.  PIK3CA mutation is associated with increased local failure in lung stereotactic body radiation therapy (SBRT) , 2017, Clinical and translational radiation oncology.

[26]  Julian C. Hong,et al.  Mid-radiotherapy PET/CT for prognostication and detection of early progression in patients with stage III non-small cell lung cancer. , 2017, Radiotherapy and oncology : journal of the European Society for Therapeutic Radiology and Oncology.

[27]  W. Curran,et al.  Next‐generation sequencing and clinical outcomes of patients with lung adenocarcinoma treated with stereotactic body radiotherapy , 2017, Cancer.

[28]  Francisco J. Sánchez-Rivera,et al.  Keap1 loss promotes Kras-driven lung cancer and results in a dependence on glutaminolysis , 2017, Nature Medicine.

[29]  Ash A. Alizadeh,et al.  Role of KEAP1/NRF2 and TP53 Mutations in Lung Squamous Cell Carcinoma Development and Radiation Resistance. , 2017, Cancer discovery.

[30]  H. Stehr,et al.  ERBB2‐Mutated Metastatic Non–Small Cell Lung Cancer: Response and Resistance to Targeted Therapies , 2017, Journal of thoracic oncology : official publication of the International Association for the Study of Lung Cancer.

[31]  S. Kalnicki,et al.  18F-Fluorodeoxyglucose/Positron Emission Tomography Predicts Patterns of Failure After Definitive Chemoradiation Therapy for Locally Advanced Non-Small Cell Lung Cancer. , 2017, International journal of radiation oncology, biology, physics.

[32]  D. Dziedzic,et al.  Risk Factors for Local and Distant Recurrence After Surgical Treatment in Patients With Non-Small-Cell Lung Cancer. , 2016, Clinical lung cancer.

[33]  Angela N. Brooks,et al.  High-throughput Phenotyping of Lung Cancer Somatic Mutations. , 2016, Cancer cell.

[34]  Joe Y. Chang,et al.  Planning Target Volume D95 and Mean Dose Should Be Considered for Optimal Local Control for Stereotactic Ablative Radiation Therapy. , 2016, International journal of radiation oncology, biology, physics.

[35]  Yiguo Zhang,et al.  Molecular and cellular basis for the unique functioning of Nrf1, an indispensable transcription factor for maintaining cell homoeostasis and organ integrity. , 2016, The Biochemical journal.

[36]  Gabriela Alexe,et al.  Characterizing genomic alterations in cancer by complementary functional associations , 2016, Nature Biotechnology.

[37]  J. Sonke,et al.  Differential analysis of local and regional failure in locally advanced non-small cell lung cancer patients treated with concurrent chemoradiotherapy. , 2016, Radiotherapy and oncology : journal of the European Society for Therapeutic Radiology and Oncology.

[38]  Robert Patro,et al.  RapMap: a rapid, sensitive and accurate tool for mapping RNA-seq reads to transcriptomes , 2015, bioRxiv.

[39]  H. Date,et al.  Treatment and Prognosis of Isolated Local Relapse after Stereotactic Body Radiotherapy for Clinical Stage I Non–Small-Cell Lung Cancer: Importance of Salvage Surgery , 2015, Journal of thoracic oncology : official publication of the International Association for the Study of Lung Cancer.

[40]  W. Curran,et al.  Standard-dose versus high-dose conformal radiotherapy with concurrent and consolidation carboplatin plus paclitaxel with or without cetuximab for patients with stage IIIA or IIIB non-small-cell lung cancer (RTOG 0617): a randomised, two-by-two factorial phase 3 study. , 2015, The Lancet. Oncology.

[41]  P. Catalano,et al.  Outcomes by tumor histology and KRAS mutation status after lung stereotactic body radiation therapy for early-stage non-small-cell lung cancer. , 2015, Clinical lung cancer.

[42]  Steven J. M. Jones,et al.  Comprehensive molecular profiling of lung adenocarcinoma , 2014, Nature.

[43]  Jukka Westermarck,et al.  ColonyArea: An ImageJ Plugin to Automatically Quantify Colony Formation in Clonogenic Assays , 2014, PloS one.

[44]  Bridgid E Hast,et al.  Molecular and Cellular Pathobiology Cancer-derived Mutations in Keap1 Impair Nrf2 Degradation but Not Ubiquitination , 2022 .

[45]  F. Galateau-Sallé,et al.  Impact of Delay to Cryopreservation on RNA Integrity and Genome-Wide Expression Profiles in Resected Tumor Samples , 2013, PloS one.

[46]  J. Mesirov,et al.  Integrative radiogenomic profiling of squamous cell lung cancer. , 2013, Cancer research.

[47]  P. Massion,et al.  SLC1A5 Mediates Glutamine Transport Required for Lung Cancer Cell Growth and Survival , 2012, Clinical Cancer Research.

[48]  Suresh Senan,et al.  Patterns of disease recurrence after stereotactic ablative radiotherapy for early stage non-small-cell lung cancer: a retrospective analysis. , 2012, The Lancet. Oncology.

[49]  C. Bhamidipati,et al.  Tumor recurrence after complete resection for non-small cell lung cancer. , 2012, The Annals of thoracic surgery.

[50]  Benjamin Movsas,et al.  Defining Local-Regional Control and Its Importance in Locally Advanced Non-small Cell Lung Carcinoma , 2012, Journal of thoracic oncology : official publication of the International Association for the Study of Lung Cancer.

[51]  R. Whyte,et al.  Tumor volume-adapted dosing in stereotactic ablative radiotherapy of lung tumors. , 2010, International journal of radiation oncology, biology, physics.

[52]  L. Hlatky,et al.  Ionizing radiation activates the Nrf2 antioxidant response. , 2010, Cancer research.

[53]  S. Biswal,et al.  Gain of Nrf2 function in non-small-cell lung cancer cells confers radioresistance. , 2010, Antioxidants & redox signaling.

[54]  A. Gazdar,et al.  Activating and resistance mutations of EGFR in non-small-cell lung cancer: role in clinical response to EGFR tyrosine kinase inhibitors , 2009, Oncogene.

[55]  Maria Werner-Wasik,et al.  Increasing tumor volume is predictive of poor overall and progression-free survival: secondary analysis of the Radiation Therapy Oncology Group 93-11 phase I-II radiation dose-escalation study in patients with inoperable non-small-cell lung cancer. , 2008, International journal of radiation oncology, biology, physics.

[56]  J. Herman,et al.  Dysfunctional KEAP1–NRF2 Interaction in Non-Small-Cell Lung Cancer , 2006, PLoS medicine.

[57]  Angel Ortega,et al.  Glutathione in Cancer Biology and Therapy , 2006, Critical reviews in clinical laboratory sciences.