Ioannis Roxanis

Recurrent PTPRB and PLCG1 mutations in angiosarcoma

Angiosarcoma is an aggressive malignancy that arises spontaneously or secondarily to ionizing radiation or chronic lymphoedema. Previous work has identified aberrant angiogenesis, including occasional somatic mutations in angiogenesis signaling genes, as a key driver of angiosarcoma. Here we employed whole-genome, whole-exome and targeted sequencing to study the somatic changes underpinning primary and secondary angiosarcoma. We identified recurrent mutations in two genes, PTPRB and PLCG1, which are intimately linked to angiogenesis. The endothelial phosphatase PTPRB, a negative regulator of vascular growth factor tyrosine kinases, harbored predominantly truncating mutations in 10 of 39 tumors (26%). PLCG1, a signal transducer of tyrosine kinases, encoded a recurrent, likely activating p.Arg707Gln missense variant in 3 of 34 cases (9%). Overall, 15 of 39 tumors (38%) harbored at least one driver mutation in angiogenesis signaling genes. Our findings inform and reinforce current therapeutic efforts to target angiogenesis signaling in angiosarcoma.

Potential of PET to Predict the Response to Trastuzumab Treatment in an ErbB2-Positive Human Xenograft Tumor Model

Currently, an alteration in the gross volume of a tumor is used to assess its response to trastuzumab; however, this approach provides only a late indication of response. Tissue-sample ex vivo assays are potentially valuable, but their procurement through biopsies is invasive and might be biased by tumor heterogeneity. We studied the feasibility of using PET to quantify changes in ErbB2 (HER2/neu) expression and to predict the response to trastuzumab in BT474 breast cancer xenografts with N-[2-(4-18F-fluorobenzamido)ethyl]maleimide (18F-FBEM)-HER2:342 Affibody. Methods: Mice bearing BT474 tumors were given trastuzumab (50 mg/kg loading dose, 25 mg/kg maintenance dose, administered intraperitoneally twice a week) or saline (control) for a total of 5 doses. Tumor size was monitored twice a week. Animals were scanned before the treatment, at 48 h, and 2 wk after the beginning of therapy. After the final scan, PET results were correlated with tumor response and immunohistochemical assessment of ErbB2 level, as well as with vasculature in the treated tumors. Results: Analysis of PET images indicated that tracer uptake was significantly reduced after 1 dose of trastuzumab, compared with baseline, suggesting applicability as an early indicator of changes in ErbB2 expression. After 5 doses of trastuzumab, the overall decrease in 18F-FBEM-HER2:342 Affibody uptake also correlated with tumor response and downregulation of ErbB2 expression by immunohistochemical assessment. However, individual animals had different responses. There was a correlation between bigger PET changes and a higher vessel count in the tumors, suggesting that an increased number of vessels could lead to better trastuzumab delivery. We confirmed that the difference in average vessel count in the tumors was not related to the size of the tumors and therefore was not due to the selection of more vascular tumors. This finding is consistent with previous findings demonstrating that the number of vessels in a tumor could be a useful prognostic marker for treatment response. Conclusion: Our data suggest that Affibody-based PET can noninvasively provide specific information on changes in receptor expression and could be a valuable strategy for predicting tumor response to trastuzumab.

Clinical whole-genome sequencing from routine formalin-fixed, paraffin-embedded specimens: pilot study for the 100,000 Genomes Project

PurposeFresh-frozen (FF) tissue is the optimal source of DNA for whole-genome sequencing (WGS) of cancer patients. However, it is not always available, limiting the widespread application of WGS in clinical practice. We explored the viability of using formalin-fixed, paraffin-embedded (FFPE) tissues, available routinely for cancer patients, as a source of DNA for clinical WGS.MethodsWe conducted a prospective study using DNAs from matched FF, FFPE, and peripheral blood germ-line specimens collected from 52 cancer patients (156 samples) following routine diagnostic protocols. We compared somatic variants detected in FFPE and matching FF samples.ResultsWe found the single-nucleotide variant agreement reached 71% across the genome and somatic copy-number alterations (CNAs) detection from FFPE samples was suboptimal (0.44 median correlation with FF) due to nonuniform coverage. CNA detection was improved significantly with lower reverse crosslinking temperature in FFPE DNA extraction (80 °C or 65 °C depending on the methods). Our final data showed somatic variant detection from FFPE for clinical decision making is possible. We detected 98% of clinically actionable variants (including 30/31 CNAs).ConclusionWe present the first prospective WGS study of cancer patients using FFPE specimens collected in a routine clinical environment proving WGS can be applied in the clinic.

Paracrine effect of GTP cyclohydrolase and angiopoietin-1 interaction in stromal fibroblasts on tumor Tie2 activation and breast cancer growth

Cancer-associated fibroblasts (CAFs) play a key role in promoting tumor growth, acting through complex paracrine regulation. GTP cyclohydrolase (GTPCH) expression for tetrahydrobiopterin synthesis in tumor stroma is implicated in angiogenesis and tumor development. However, the clinical significance of GTPCH expression in breast cancer is still elusive and how GTPCH regulates stromal fibroblast and tumor cell communication remains unknown. We found that GTPCH was upregulated in breast CAFs and epithelia, and high GTPCH RNA was significantly correlated with larger high grade tumors and worse prognosis. In cocultures, GTPCH expressing fibroblasts stimulated breast cancer cell proliferation and motility, cancer cell Tie2 phosphorylation and consequent downstream pathway activation. GTPCH interacted with Ang-1 in stromal fibroblasts and enhanced Ang-1 expression and function, which in turn phosphorylated tumor Tie2 and induced cell proliferation. In coimplantation xenografts, GTPCH in fibroblasts enhanced tumor growth, upregulating Ang-1 and alpha-smooth muscle actin mainly in fibroblast-like cells. GTPCH inhibition resulted in the attenuation of tumor growth and angiogenesis. GTPCH/Ang-1 interaction in stromal fibroblasts and activation of Tie2 on breast tumor cells could play an important role in supporting breast cancer growth. GTPCH may be an important mechanism of paracrine tumor growth and hence a target for therapy in breast cancer.

Differential regulation of LC3 A and B, GABARAPL 1 and 2 autophagy genes by micro-environmental stress and role in breast cancer survival

The microtubule-associated protein light chain 3 MAP1LC3 (LC3) and GABARAPL1 and 2 are the major proteins to monitor autophagy. Here, we analyzed the role of both MAP1LC3, GABARAPL1 and 2 in breast cancer cells and primary human breast cancer. HER2 amplified (BT474, SKBR3, MDA-MB-453), ER positive (MCF7, T47D) and triple negative (MDAMB231) breast cancer cell lines were studied in response to hypoxia, in high [25mM] and low glucose [5mM] treatment. Low glucose increased the basal levels for LC3A-II, LC3B-II and GABARAPL2-II in BT474, MCF7 and MDAMB231 cell lines. SKBR3 cell line had the lowest autophagic protein levels for LC3B-II, and Gabarapl2-II and was the most resistance to the autophagy inhibition mediated using siRNAs to all theseIn hypoxia both LC3B (up to 8 fold) and GABARAPL1 (up to 12 fold) mRNA expression were induced in all cell lines (p Co-expression analysis of autophagic genes define distinctive clusters of MAP1LC3, GABARAPL 1 and 2 with the hypoxic signature in breast cancer subtypes using the METABRIC series. The expression levels of the MAP1LC3 and GABARAPL1 and 2 among the breast cancer subtypes and normal tissue showed significant suppession of all of them in cancer compared to normal breast tissue. In conclusion, all the pathways were suppressed at RNA level in cancer compared to normal, baseline levels were not associated with core classification of breast cancer types. These latter data were confirmed in a breast cancer cell line panel, which showed a marked variation in inducibility by environemntal stress and role in survival under low glucose and hypoxia. Thus analysis of induced gene expression in response to stress may be important, or heterogeneity in selection of tumors for anti-autophagy therapy. Citation Format: Christos E. Zois, Syed Haider, Simon Wigfield, Alexandra Giatromanolaki, Efthimios Sivridis, Karl Morten, Ioannis Roxanis, Russell Leek, Francesca Buffa, Michael Koukourakis, Adrian L. Harris. Differential regulation of LC3 A and B, GABARAPL 1 and 2 autophagy genes by micro-environmental stress and role in breast cancer survival. [abstract]. In: Proceedings of the 106th Annual Meeting of the American Association for Cancer Research; 2015 Apr 18-22; Philadelphia, PA. Philadelphia (PA): AACR; Cancer Res 2015;75(15 Suppl):Abstract nr 2903. doi:10.1158/1538-7445.AM2015-2903

Abstract 531: HER4 cleavage and nuclear localization mediate Trastuzumab resistance in HER2-positive breast cancer.

Proceedings: AACR 104th Annual Meeting 2013; Apr 6-10, 2013; Washington, DC Background. Trastuzumab is used in HER2 positive breast cancer patients and has been shown to increase survival in these patients. However, drug resistance imposes a crucial limitation to the successful treatment of HER2 positive breast cancer. Multiple mechanisms have been proposed but the role of HER4 in relation to Trastuzumab treatment and resistance remains unclear. This study aims to investigate the role of HER4 in relation to Trastuzumab treatment and resistance in HER2 positive breast cancer. Methods. The effects of Trastuzumab on the protein and mRNA levels of HER4 were studied in both naive and Trastuzumab resistant cells using western blot and RT-PCR. HER4 localisation after Trastuzumab treatment was determined by confocal microscopy and nuclear fractionation. A gamma-secretase inhibitor (GSI) and a pan-HER kinase inhibitor, Neratinib, were used to inhibit HER4 cleavage during Trastuzumab treatment. The role of HER4 was further validated using siRNA experiments. HER4 level and its localisation were also assessed by IHC in BT474 xenograft samples treated with Trastuzumab or control. To understand the prognostic role of HER4, TMAs of a cohort of HER2 positive breast cancer patients were stained for HER4 expression using IHC and the levels were correlated with patients’ outcome. Results. The basal level of HER4 in HER2 positive SKBR3 and BT474 is comparable to HER2 negative MCF7 cells. In SKBR3 and BT474, Trastuzumab treatment upregulated HER4 mRNA and protein expression in a dose responsive manner. Moreover, HER480kDa was also increased and an enhanced nuclear localisation was observed, indicating that Trastuzumab promotes HER4 cleavage. Resistant cells appear to have more nuclear HER4 and Trastuzumab withdrawal causes a decrease in nuclear intensity. HER4 downregulation via siRNA reduces cell viability in Trastuzumab sensitive and resistant cells. In SKBR3, GSI decreased HER4 nuclear staining and decreased Trastuzumab induced HER4 nuclear translocation. In addition, GSI also enhanced response to Trastuzumab in decreasing cell viability. Neratinib also blocks HER480kDa formation induced by Trastuzumab, and combination treatment of Trastuzumab and Neratinib had an additive inhibition effect on cell viability. There was a significant upregulation of nuclear HER4 in a Trastuzumab treated BT474 xenograft model compared to the control. Nuclear HER4 was also prognostic in a cohort of HER2 positive breast cancer patients. Conclusion. This study shows that Trastuzumab upregulates HER4 in vitro and in vivo. Nuclear HER4 seems to mediate Trastuzumab resistance in HER2 positive breast cancer cells. HER4 knockdown as well as drug treatments that decrease nuclear HER4 may enhance sensitivity to Trastuzumab. We believe that the prognostic and predictive values of nuclear HER4 in relation to Trastuzumab resistance need to be further validated in HER2 positive breast cancer patients. Citation Format: Siti Norasikin Mohd Nafi, Merel Gijsen, Ioannis Roxanis, Gabriela Kramer-Marek, Jacek Capala, Anthony Kong. HER4 cleavage and nuclear localization mediate Trastuzumab resistance in HER2-positive breast cancer. [abstract]. In: Proceedings of the 104th Annual Meeting of the American Association for Cancer Research; 2013 Apr 6-10; Washington, DC. Philadelphia (PA): AACR; Cancer Res 2013;73(8 Suppl):Abstract nr 531. doi:10.1158/1538-7445.AM2013-531

Abstract P6-05-08: Nuclear HER3 localisation plays a role in trastuzumab resistance in HER2-positive breast cancer

Background: HER3 is known to locate in the nucleus. Unlike HER4, nuclear HER3 translocation has not been reported to be due to a proteolytic cleavage process by ADAM17 and gamma-secretase. The mechanisms of nuclear HER3 induction and its role in relation to trastuzumab treatment and resistance for HER2-positive breast cancer is unclear. Methods: Using nuclear fractionation and confocal microscopy, nuclear HER3 localisation was investigated in response to trastuzumab with or without ADAM17 inhibitor and gamma-secretase inhibitor in a panel of HER2 expressing cell lines. We also correlated nuclear HER3 expression by immunohistochemistry with treatment response in patients who underwent window trastuzumab study as well as the survival outcome in a cohort of HER2-positive breast cancer patients using Kaplan–Meier survival curves with Log-rank test. Results: HER3 ligand heregulin and trastuzumab was found to induce nuclear HER3 translocation in HER2-positive breast cancer cell lines, including SKBR3. Nuclear HER3 was also enriched in acquired trastuzumab resistant SKBR3 cells (SKBr3-TR). Trastuzumab treatment induced several HER3 fragments and HER3100kD was found to be responsible for nuclear HER3 enrichment by fractionation. This fragment was confirmed to be a specific band of HER3 as shown by HER3 knockdown. Nuclear HER3 was reduced by inhibiting either gamma-secretase or ADAM17 inhibitor. Gamma-secretase or ADAM17 inhibitor reduced HER3100kD in both SKBr3 and SKBr3-TR cells. In HER2-positive breast cancer patients who underwent window trastuzumab study, baseline nuclear HER3 status was not a predictor of response for trastuzumab monotherapy at day 21. However, nuclear HER3 was enriched after trastuzumab treatment in a poor-responder patient. Total HER3 expression level in cytoplasm positively was correlated with poor response to trastuzumab monotherapy in HER2-positive patients ( r = 0.67, p = 0.05). There was no statistically significant difference in disease-free survival between positive and negative nuclear HER3 expression but the number of patients was small (n = 87). Further validation to assess nuclear HER3 expression as a prognostic and predictive biomarker in HER2-positive breast cancer patients undergoing trastuzumab treatment will be assessed in randomized tumour samples from FinHER study. Conclusion: Heregulin and trastuzumab treatment seems to induce nuclear HER3 translocation in some of the HER2 positive breast cancer cells. This may be due to proteolytic cleavage of HER3 as it is reduced by ADAM17 or gamma-secretase inhibitor. Enriched nuclear localisation of HER3 seems to be one possible mechanism of acquired resistance to trastuzumab in HER2-positive breast cancer. Citation Information: Cancer Res 2013;73(24 Suppl): Abstract nr P6-05-08.