1. Single-cell ATAC and RNA sequencing reveal pre-existing and persistent cells associated with prostate cancer relapse
- Author
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Taavitsainen, S., Engedal, N., Cao, S., Handle, F., Erickson, A., Prekovic, S., Wetterskog, D., Tolonen, T., Vuorinen, E. M., Kiviaho, A., Nätkin, R., Häkkinen, T., Devlies, W., Henttinen, S., Kaarijärvi, R., Lahnalampi, M., Kaljunen, H., Nowakowska, K., Syvälä, H., Bläuer, M., Cremaschi, P., Claessens, F., Visakorpi, T., Tammela, T. L. J., Murtola, T., Granberg, K. J., Lamb, A. D., Ketola, K., Mills, I. G., Attard, G., Wang, W., Nykter, M., Urbanucci, A., Tampere University, BioMediTech, Department of Pathology, Clinical Medicine, TAYS Cancer Centre, and Department of Surgery
- Subjects
Male ,CHROMATIN ,REGULATORY ELEMENTS ,Science ,3122 Cancers ,Antineoplastic Agents ,Article ,ANDROGEN-RECEPTOR ,SDG 3 - Good Health and Well-being ,Cell Line, Tumor ,Nitriles ,Phenylthiohydantoin ,Exome Sequencing ,PROGRAM ,Humans ,TRANSCRIPTION ,FAIRE ,Prostate cancer ,Science & Technology ,Sequence Analysis, RNA ,Gene Expression Profiling ,Prostate ,Prostatic Neoplasms ,DNA, Neoplasm ,Survival Analysis ,Chromatin ,EVOLUTION ,Neoplasm Proteins ,Gene Expression Regulation, Neoplastic ,Multidisciplinary Sciences ,HALLMARK ,Drug Resistance, Neoplasm ,DRIVES ,Benzamides ,Science & Technology - Other Topics ,Data integration ,3111 Biomedicine ,Single-Cell Analysis ,Transcriptome ,RESISTANCE - Abstract
Prostate cancer is heterogeneous and patients would benefit from methods that stratify those who are likely to respond to systemic therapy. Here, we employ single-cell assays for transposase-accessible chromatin (ATAC) and RNA sequencing in models of early treatment response and resistance to enzalutamide. In doing so, we identify pre-existing and treatment-persistent cell subpopulations that possess regenerative potential when subjected to treatment. We find distinct chromatin landscapes associated with enzalutamide treatment and resistance that are linked to alternative transcriptional programs. Transcriptional profiles characteristic of persistent cells are able to stratify the treatment response of patients. Ultimately, we show that defining changes in chromatin and gene expression in single-cell populations from pre-clinical models can reveal as yet unrecognized molecular predictors of treatment response. This suggests that the application of single-cell methods with high analytical resolution in pre-clinical models may powerfully inform clinical decision-making., Identifying the molecular mechanisms of response to systemic therapy in prostate cancer remains crucial. Here, the authors apply single cell-ATAC and RNAseq to models of early treatment response and resistance to enzalutamide and identify chromatin and gene expression patterns that can predict treatment response.
- Published
- 2021
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