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A tailored in vivo CRISPR screen identifies BAP1 as a potent tumor suppressor of sarcoma
Jianguo Huang, Xingliang Liu, Warren Floyd, William Haugh, Zhaoyu Sun, Melissa J. Kasiewicz, Yaping Wu, Brian Piening, John T. Welle, Wesley K. Rosales, Venkatesh Rajamanickam, So Young Kim, Eric S. Xu, Lixia Luo, Yan Ma, Rutulkumar Patel, Ziqiang Zhang, Brady Bernard, William L. Redmond, Walter J. Urba, R. Bryan Bell, David G. Kirsch
Jianguo Huang, Xingliang Liu, Warren Floyd, William Haugh, Zhaoyu Sun, Melissa J. Kasiewicz, Yaping Wu, Brian Piening, John T. Welle, Wesley K. Rosales, Venkatesh Rajamanickam, So Young Kim, Eric S. Xu, Lixia Luo, Yan Ma, Rutulkumar Patel, Ziqiang Zhang, Brady Bernard, William L. Redmond, Walter J. Urba, R. Bryan Bell, David G. Kirsch
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Research Article Genetics Oncology

A tailored in vivo CRISPR screen identifies BAP1 as a potent tumor suppressor of sarcoma

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Abstract

Undifferentiated pleomorphic sarcoma (UPS) is one of the most common adult soft-tissue sarcomas (STSs), yet therapeutic progress remains limited because of the absence of recurrent oncogenic driver mutations. To identify tumor suppressors contributing to UPS pathogenesis, we performed a customized in vivo CRISPR/Cas9 screen in mice. This approach identified BRCA1-associated protein 1 (BAP1) as a potent tumor suppressor in STS. Integrative analyses using RNA sequencing, multiplex immunohistochemistry, and flow cytometry revealed that Bap1-deficient sarcomas exhibited a markedly immunosuppressive tumor microenvironment. Consistent with these findings, BAP1 protein expression was reduced in human UPS, whereas polo-like kinase 1 (PLK1) expression was elevated. Functional studies demonstrated that PLK1 was required for the growth and survival of Bap1-deficient sarcomas. Pharmacologic inhibition of PLK1 with volasertib significantly suppressed tumor growth in both syngeneic and autochthonous mouse models. Moreover, combining PLK1 inhibition with anti–PD-1 therapy enhanced tumor control and improved survival compared with either treatment alone. Together, these results identify PLK1 as a potential therapeutic vulnerability in BAP1-deficient sarcomas and support further evaluation of combined PLK1 inhibition and immune checkpoint blockade as a treatment strategy for a subset of STSs.

Authors

Jianguo Huang, Xingliang Liu, Warren Floyd, William Haugh, Zhaoyu Sun, Melissa J. Kasiewicz, Yaping Wu, Brian Piening, John T. Welle, Wesley K. Rosales, Venkatesh Rajamanickam, So Young Kim, Eric S. Xu, Lixia Luo, Yan Ma, Rutulkumar Patel, Ziqiang Zhang, Brady Bernard, William L. Redmond, Walter J. Urba, R. Bryan Bell, David G. Kirsch

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Figure 4

RNA sequencing reveals immune suppression in Bap1-deficient sarcomas.

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RNA sequencing reveals immune suppression in Bap1-deficient sarcomas.
(A...
(A–C) PB CRISPR tumors show upregulation of E2F targets, G2/M checkpoint, MYC targets, DNA repair, and histone modification pathways and downregulation of immune response pathways versus normal muscle. (D) Comparison of hallmark pathways significantly dysregulated in human UPS (TCGA) versus normal human muscle and mouse PB CRISPR tumors versus normal mouse muscle revealed a significant correlation (R = 0.36538, P = 0.00944). Statistical significance was assessed using Pearson’s correlation analysis. (E–G) PRB Cre/CRISPR tumors exhibit upregulation of KRAS and MYC pathways and downregulation of B cell signaling and immune activation pathways versus PR Cre tumors. RNA-sequencing analyses were performed on biologically independent samples (PB CRISPR, n = 10; PR Cre, n = 5; PRB Cre/CRISPR, n = 7; normal muscle, n = 5). For GSEA, normalized enrichment scores and adjusted P values (FDR) were calculated as implemented in the fgsea package.

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ISSN 2379-3708

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