BRCAREV: Unravelling how reversion mutations in the BRCA1 and BRCA2 tumour suppressor genes occur
Lead Research Organisation:
Institute of Cancer Research
Department Name: Division of Breast Cancer Research
Abstract
A fundamental question in cancer research is what determines the success of treatment. Currently, up to 25% of breast cancer patients (40-70% of the poor-prognosis Triple Negative subtype) and about 5% of prostate cancer patients have BRCA1/2 deficiency and are suitable for treatment with PARP inhibitors (PARPi). However, over 40% of these patients do not respond to this treatment due to resistance mechanisms, which are not fully characterised. We propose to address this question by studying how tumour cells become resistant to PARPi. In the BRCAREV project, we will combine in silico and "wet-lab" experimental approaches to dissect this problem and use the information gained in this work to generate a predictor that estimates the likelihood that a person with a particular BRCA1 or BRCA2 mutation will or will not develop resistance to PARPi. Therefore, this work will: (i) benefits patients with BRCA1/BRCA2 mutant cancers; (ii) establish some of the fundamental rules that govern how cancer-associated mutations cause drug resistance; (iii) allow both the host group (a pioneer group researching the implication of BRCA mutations in cancer) and the applicant (a highly trained researcher on cancer genomics through computational structural approaches) to combine their knowledge and to generate new one of BRCA-mutated cancer therapeutics as part of an interdisciplinary project of mutual synergistic benefit, to the researchers and patients.
Publications
Harvey-Jones E
(2024)
Longitudinal profiling identifies co-occurring BRCA1/2 reversions, TP53BP1, RIF1 and PAXIP1 mutations in PARP inhibitor-resistant advanced breast cancer.
in Annals of oncology : official journal of the European Society for Medical Oncology
Seed G
(2024)
Elucidating acquired PARP inhibitor resistance in advanced prostate cancer.
in Cancer cell
| Description | Drugs called PARP inhibitors are now widely used to treat breast, ovarian, prostate and pancreatic cancers, particularly in people who have mutations that stop the BRCA1 or BRCA2 cancer genes from working. Although PARP inhibitors are effective in shrinking cancers and extending the lives of people with cancer, some cancer return after treatment, an effect known as drug resistance. We have found in people with either metastatic breast cancer or metastatic prostate cancer, PARP inhibitor resistance is mainly caused by new mutations occurring in the BRCA1 or BRCA2 genes which switch these genes back on. In metastatic breast cancer up to 60 % of people whose cancer returns after treatment with a PARP inhibitor had one of these new mutations, whereas in prostate cancer, 80 % did. We know that this is a major cause of PARPi resistance, we are designing ways of either preventing these new mutations from happening or ways to kill cancer cells where these new mutations have already occurred. |
| Exploitation Route | We propose, based on our work, that reversion mutations in BRCA1/2 (for example detected via ctDNA sequencing using already approved platforms such as Foundation One or Guardant 360 / Infinity) be prospectively assessed as biomarkers that predict the futility of PARP inhibitor treatment. |
| Sectors | Healthcare |
| Description | Collaboration with Andrew Tutt |
| Organisation | King's College London |
| Department | Breast Cancer Now Research Unit |
| Country | United Kingdom |
| Sector | Academic/University |
| PI Contribution | Collaboration on DNA repair defects in breast cancer. |
| Collaborator Contribution | Collaboration on DNA repair defects in breast cancer. |
| Impact | * Haider S, Brough R, Madera S, Iacovacci J, Gulati A, Wicks A, Alexander J, Pettitt SJ, Tutt ANJ, Lord CJ. The transcriptomic architecture of common cancers reflects synthetic lethal interactions. Nat Genetics (2024) In Press * Harvey-Jones E, Raghunandan M, Robbez-Masson L, Magraner-Pardo L, Alaguthurai T, Yablonovitch A, Yen J, Xiao H, Brough R, Frankum J, Song F, Yeung J, Savy T, Gulati A, Alexander J, Kemp H, Starling C, Konde A, Marlow R, Cheang M, Proszek P, Hubank M, Cai M, Trendell J, Lu R, Liccardo R, Ravindran N, Llop-Guevara A, Rodriguez O, Balmana J, Lukashchuk N, Dorschner M, Drusbosky L, Roxanis I, Serra V, Haider S, Pettitt SJ, Lord CJ, Tutt ANJ. Longitudinal profiling identifies co-occurring BRCA1/2 reversions, TP53BP1, RIF1 and PAXIP1 mutations in PARP inhibitor resistant advanced breast cancer. Ann Oncol. (2024) 35(4):364-380. * Baxter JS, Brough R, Kastev DB, Song F, Sridhar S, Gulati A, Alexander J, Roumeliotis TI, Kozik Z, Choudhary JS, Haider S, Pettitt Sj, Tutt ANJ, Lord CJ. Cancer-associated FBXW7 loss is synthetic lethal with pharmacological targeting of CDC7. Mol Oncol (2024) 18(2):369-385. Cheung A, Chenoweth AM, Johansson A, Laddach R, Guppy N, Trendell J, Esapa B, Mavousian A, Navarro-Llinas B, Haider S, Romero-Clavijo P, Hoffmann RM, Andriollo P, Rahman KM, Jackson P, Tsoka S, Irshad S, Roxanis I, Grigoriadis A, Thurston DE, Lord CJ, Tutt ANJ, Karagiannis SN. Anti-EGFR antibody-drug conjugate carrying an inhibitor targeting CDK restricts triple-negative breast cancer growth. Clin Cancer Res. (2024) 30(15):3298-3315. * Pettitt SJ, Shao N, Zatreanu D, Frankum J, Bajrami I, Brough R, Krastev DB, Roumeliotis TI, Choudhary JS, Lorenz S, Rust A, de Bono JS, Yap TA, Tutt ANJ, Lord CJ. A HUWE1 defect causes PARP inhibitor resistance by modulating the BRCA1-?11q splice variant. Oncogene 42(36):2701-2709 (2023). * Zelceski A, Francica P, Lingg L, Mutlu M, Stok C, Liptay M, Alexander J, Baxter JS, Brough R, Gulati A, Haider S, Raghunandan M, Song F, Sridhar S, Forment JV, O'Connor MJ, Davies BR, van Vugt MATM, Krastev DB, Pettitt SJ, Tutt ANJ, Rottenberg S, Lord CJ. MND1 and PSMC3IP control PARP inhibitor sensitivity in mitotic cells. Cell Rep. 42(5):112484 (2023). Harvey-Jones EJ, Lord CJ, Tutt ANJ. Systemic Therapy for Hereditary Breast Cancers. Hematol Oncol Clin North Am. 37(1):203-224 (2023). * Krastev DB, Li S, Sun Y, Wicks AJ, Hoslett G, Weekes D, Badder LM, Knight EG, Marlow R, Pardo MC, Yu L, Talele TT, Bartek J, Choudhary JS, Pommier Y, Pettitt SJ, Tutt ANJ, Ramadan K, Lord CJ. The ubiquitin-dependent ATPase p97 removes cytotoxic trapped PARP1 from chromatin. Nat Cell Biol. 24(1):62-73 (2022) * Wicks AJ, Krastev DB, Pettitt SJ, Tutt ANJ, Lord CJ. Opinion: PARP inhibitors in cancer-what do we still need to know? Open Biol. 12(7):220118 (2022). Tarantino D, Walker C, Weekes D, Pemberton H, Davidson K, Torga G, Frankum J, Mendes-Pereira AM, Prince C, Ferro R, Brough R, Pettitt SJ, Lord CJ, Grigoriadis A, Nj Tutt A. Functional screening reveals HORMAD1-driven gene dependencies associated with translesion synthesis and replication stress tolerance. Oncogene. 41(32):3969-3977 (2022). * Zatreanu D, Robinson HMR, Alkhatib O, Boursier M, Finch H, Geo L, Grande D, Grinkevich V, Heald RA, Langdon S, Majithiya J, McWhirter C, Martin NMB, Moore S, Neves J, Rajendra E, Ranzani M, Schaedler T, Stockley M, Wiggins K, Brough R, Sridhar S, Gulati A, Shao N, Badder LM, Novo D, Knight EG, Marlow R, Haider S, Callen E, Hewitt G, Schimmel J, Prevo R, Alli C, Ferdinand A, Bell C, Blencowe P, Bot C, Calder M, Charles M, Curry J, Ekwuru T, Ewings K, Krajewski W, MacDonald E, McCarron H, Pang L, Pedder C, Rigoreau L, Swarbrick M, Wheatley E, Willis S, Wong AC, Nussenzweig A, Tijsterman M, Tutt A, Boulton SJ, Higgins GS, Pettitt SJ, Smith GCM, Lord CJ. Pol? inhibitors elicit BRCA-gene synthetic lethality and target PARP inhibitor resistance. Nat Comms. 12(1):3636 (2021) * Bajrami I, Walker C, Krastev DB, Weekes D, Song F, Wicks AJ, Alexander J, Haider S, Brough R, Pettitt SJ, Tutt ANJ, Lord CJ. Sirtuin inhibition is synthetic lethal with BRCA1 or BRCA2 deficiency. Commun Biol. 4(1):1270 (2021) Tutt ANJ, Garber JE, Kaufman B, Viale G, Fumagalli D, Rastogi P, Gelber RD, de Azambuja E, Fielding A, Balmaña J, Domchek SM, Gelmon KA, Hollingsworth SJ, Korde LA, Linderholm B, Bandos H, Senkus E, Suga JM, Shao Z, Pippas AW, Nowecki Z, Huzarski T, Ganz PA, Lucas PC, Baker N, Loibl S, McConnell R, Piccart M, Schmutzler R, Steger GG, Costantino JP, Arahmani A, Wolmark N, McFadden E, Karantza V, Lakhani SR, Yothers G, Campbell C, Geyer CE Jr; OlympiA Clinical Trial Steering Committee and Investigators#. Adjuvant Olaparib for Patients with BRCA1- or BRCA2-Mutated Breast Cancer. N Engl J Med. 384(25):2394-2405. (2021) (#Lord part of Translational Research Committee) * Pettitt SP, Frankum JR, Punta M, Lise S, Alexander J, Chen Y, Yap TA, Haider S, Tutt NJ, Lord CJ. Clinical BRCA1/2 reversion analysis identifies hotspot mutations and predicted neoantigens associated with therapy resistance. Cancer Discov. 1475-1488 (2020) * Bajrami I, Marlow R, van de Ven M, Brough R, Pemberton HN, Frankum J, Song F, Rafiq R, Konde A, Krastev DB, Menon M, Campbell J, Gulati A, Kumar R, Pettitt SJ, Gurden MD, Cardenosa ML, Chong I, Gazinska P, Wallberg F, Sawyer EJ, Martin LA, Dowsett M, Linardopoulos S, Natrajan R, Ryan CJ, Derksen PWB, Jonkers J, Tutt ANJ, Ashworth A, Lord CJ. E-Cadherin/ROS1 Inhibitor Synthetic Lethality in Breast Cancer. Cancer Discov. 8(4):498-515. (2018) Watkins, J., Weekes, D., Shah, V., Gazinska, P., Joshi, S., Sidhu, B., Gillett, C., Pinder, S., Vanoli, F., Jasin, M., Mayrhofer, M., Isaksson, A., Cheang, M. C., Mirza, H., Frankum, J., Lord, C.J., Ashworth, A., Vinayak, S., Ford, J. M., Telli, M. L., Grigoriadis, A. & Tutt, A. N. Genomic Complexity Profiling Reveals That HORMAD1 Overexpression Contributes to Homologous Recombination Deficiency in Triple-Negative Breast Cancers. Cancer Discov 5, 488-505, (2015). |
| Start Year | 2017 |
| Description | Collaboration with Johann De Bono |
| Organisation | Royal Marsden Hospital |
| Country | United Kingdom |
| Sector | Hospitals |
| PI Contribution | Functional analysis of therapeutic responses in prostate cancer |
| Collaborator Contribution | Clinical analysis of therapeutic responses in prostate cancer |
| Impact | Seed G, Beije N, Yuan W, Bertan C, Goodall J, Lundberg A, Tyler M, Figueiredo I, Pereira R, Baker C, Bogdan D, Gallagher L, Cieslik JP, Greening S, Lambros M, Neves R, Magraner-Pardo L, Fowler G, Ebbs B, Miranda S, Flohr P, Bianchini D, Rescigno P, Porta N, Hall E, Gurel B, Tunariu N, Sharp A, Pettit S, Stoecklein NH, Sandhu S, Quigley D, Lord CJ, Mateo J, Carreira S, de Bono J. Elucidating acquired PARP inhibitor resistance in advanced prostate cancer. Cancer Cell (2024) 42(12):2113-2123. Carmichael J, Figueiredo I, Gurel B, Beije N, Yuan W, Rekowski J, Seed G, Carreira S, Bertan C, Fenor de la Maza MLD, Chandran K, Neeb A, Welti J, Gallagher L, Bogdan D, Crespo M, Riisnaes R, Ferreira A, Miranda S, Lu J, Shen MM, Hall E, Porta N, Westaby D, Guo C, Grochot R, Lord CJ, Mateo J, Sharp A, de Bono J. RNASEH2B loss and PARP inhibition in advanced prostate cancer. J Clin Invest. (2024) 134(21):e178278. * Pettitt SJ, Shao N, Zatreanu D, Frankum J, Bajrami I, Brough R, Krastev DB, Roumeliotis TI, Choudhary JS, Lorenz S, Rust A, de Bono JS, Yap TA, Tutt ANJ, Lord CJ. A HUWE1 defect causes PARP inhibitor resistance by modulating the BRCA1-?11q splice variant. Oncogene 42(36):2701-2709 (2023). * Llorca-Cardenosa MJ, Aronson LI, Krastev DB, Nieminuszczy J, Alexander J, Song F, Dylewska M, Broderick R, Brough R, Zimmermann A, Zenke FT, Gurel B, Riisnaes R, Ferreira A, Roumeliotis T, Choudhary J, Pettitt SJ, de Bono J, Cervantes A, Haider S, Niedzwiedz W, Lord CJ, Chong IY. SMG8/SMG9 Heterodimer Loss Modulates SMG1 Kinase to Drive ATR Inhibitor Resistance. Cancer Res. 82(21):3962-3973 (2022). Carreira S, Porta N, Arce-Gallego S, Seed G, Llop-Guevara A, Bianchini D, Rescigno P, Paschalis A, Bertan C, Baker C, Goodall J, Miranda S, Riisnaes R, Figueiredo I, Ferreira A, Pereira R, Crespo M, Gurel B, Nava Rodrigues D, Pettitt SJ, Yuan W, Serra V, Rekowski J, Lord CJ, Hall E, Mateo J, de Bono JS. Biomarkers Associating with PARP Inhibitor Benefit in Prostate Cancer in the TOPARP-B Trial. Cancer Discov. 11(11):2812-2827 (2021) Sumanasuriya S, Seed G, Parr H, Christova R, Pope L, Bertan C, Bianchini D, Rescigno P, Figueiredo I, Goodall J, Fowler G, Flohr P, Mehra N, Neeb A, Rekowski J, Eisenberger M, Sartor O, Oudard S, Geffriaud-Ricouard C, Ozatilgan A, Chadjaa M, Macé S, Lord C, Baxter J, Pettitt S, Lambros M, Sharp A, Mateo J, Carreira S, Yuan W, de Bono JS. Elucidating Prostate Cancer Behaviour During Treatment via Low-pass Whole-genome Sequencing of Circulating Tumour DNA. Eur Urol. 80(2):243-253 (2021) Neeb A, Herranz N, Arce-Gallego S, Miranda S, Buroni L, Yuan W, Athie A, Casals T, Carmichael J, Rodrigues DN, Gurel B, Rescigno P, Rekowski J, Welti J, Riisnaes R, Gil V, Ning J, Wagner V, Casanova-Salas I, Cordoba S, Castro N, Fenor de la Maza MD, Seed G, Chandran K, Ferreira A, Figueiredo I, Bertan C, Bianchini D, Aversa C, Paschalis A, Gonzalez M, Morales-Barrera R, Suarez C, Carles J, Sharp A, Gil J, Serra V, Lord C, Carreira S, Mateo J and de Bono JS. Advanced prostate cancer with ATM loss: PARP and ATR inhibitors. Eur Urol. 79:200-211 (2021) |
| Start Year | 2017 |