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Cancer Biology & Therapy logoLink to Cancer Biology & Therapy
. 2015 Nov 17;17(2):181–187. doi: 10.1080/15384047.2015.1108489

E6 viral protein ratio correlates with outcomes in human papillomavirus related oropharyngeal cancer

Angela Hong a,b, Xiaoying Zhang c, Deanna Jones c, Mei Zhang a,b, C Soon Lee d, J Guy Lyons a, Anne-Sophie Veillard e, Barbara Rose c
PMCID: PMC4847997  PMID: 26575468

ABSTRACT

Background: The study aimed to identify prognostic markers to improve the management of patients with HPV positive OSCC Methods: We determined the ratio of HPV E6*I and E6*II splice variants by quantitative RT-PCR in 177 HPV positive OSCC and correlated the findings with other clinicopathological data Results: There was no significant difference in locoregional recurrence (HR 1.72 p = 0.24) and death (HR 1.65, p = 0.13) among patients whose tumors had an E6*I/*II ratio ≥1 compared with an E6*I/*II ratio of <1. Univariate analysis showed that patients with E6*I/*II ≥1 OSCC were more likely to have an event. In the multivariable analysis, there was a trend for more events in patients with E6*I/*II ratio ≥1 (HR 1.70, 95% CI 0.95-3.03, p = 0.07) Conclusion: Our data suggest that the use of HPV 16 spliced transcripts may help to predict for poorer outcomes in patients with HPV positive OSCC.

KEYWORDS: E6, head and neck cancer, human papillomavirus, oropharyngeal cancer, p16

Introduction

Human papillomavirus (HPV) infection is now the main etiology of oropharyngeal squamous cell cancer (OSCC) in developed countries.1,2 More than 90% of HPV positive OSCC is caused by the HPV type 16 genotype.3 The prognostic significance of HPV in OSCC is well established, with HPV positive OSCC having significantly better outcomes after adjusting for other known prognostic variables.4,5 The better outcome seen in HPV positive OSCC has been attributed to better response to chemotherapy and radiation therapy.6 Despite the better prognosis, the 3-year locoregional recurrence rate for HPV positive OSCC is still 13.6% and the overall survival is 82%.4 A more refined prognostic marker for HPV positive OSCC is needed to guide treatment.

HPV type 16 has 2 splice acceptor sites. The HPV 16 E6 gene encodes E6*I and E6*II transcripts as well as the full length E6 mRNA. The unspliced E6 transcript gives rise to a 19 kDa protein containing 2 putative zinc fingers, whereas E6*I and E6*II give rise to nearly identical 6 kDa proteins truncated within the first zinc finger domain.7 Our previous study transfecting E6 isoforms individually or in combination into HPV negative OSCC cells showed that E6*I had the greatest radiosensitising effect and E6*II had no effect at all.8 This suggested that E6*I may have a role in the radioresponsiveness of HPV positive OSCC and raised the possibility that E6*I level may predict clinical outcome. In support of the importance of E6 isoforms, cervix cancer studies have shown that higher grade cancers are more likely to have a higher E6*I/E6*II ratio.9

The role of established OSCC prognostic markers such as epidermal growth factor receptor (EGFR) and cyclin D1 as modifiers of the effect of HPV on outcome in OSCC also warrants further investigation. In HPV positive OSCC, the p53 and pRb pathways are inactivated by the viral oncoproteins. Retinoblastoma (pRb) pathway proteins (p16, cyclin D1 and pRb) have also shown potential as prognostic markers in head and neck cancer. In our previous study, patients with HPV positive and cyclin D1-positive cancers had up to an eightfold increased risk of poor outcome relative to those with HPV positive and cyclin D1-negative tumors. Others have reported similar findings.10 EGFR is abnormally activated in approximately 80% of head and neck cancers.11 EGFR expression has been associated with poorer prognosis in head and neck cancer, although previous study indicated that the effect of EGFR on outcome in OSCC may be limited to HPV negative OSCC.12

This study aimed to identify additional prognostic markers that could be used in conjunction with the existing clinicopathological markers to improve the management of patients with HPV positive OSCC. Our particular interest was in the role of E6*I/E6*II ratio to predict outcome and its relationships with cyclin D1 and EGFR expression.

Results

Patient characteristics

The baseline characteristics of the 177 patients are shown in Table 1. The median age at diagnosis was 55.3 years and 31.3 % were never smokers at the time of diagnosis. The primary tumor was located in the tonsil in 87.6% of the cases and the majority presented with stage 3 or 4 disease. Definitive radiation therapy with or without concurrent chemotherapy was used in 48% of the patients. For those who were treated with chemotherapy, the main agents were cisplatin and 5-Fu. No patient was treated with cetuximab. Immunohistochemistry showed that 71.6% of the tumors were positive for EGFR and 35% were positive for cyclin D1. There was no significant difference in the clinico-pathological characteristics by EGFR and cyclin D1 status (Table 1 and 2). Patients were divided into those with E6*I/*II <1 (n = 73, 41.2%) or ≥1 (n = 104, 58.8%). The baseline characteristics of the 2 groups were similar with no statistically significant difference between the 2 groups by patient characteristics such as gender, age, smoking and alcohol intake status.(Table 1)

Table 1.

Demographic and clinical characteristics of the study population.

  All Patients (N = 177) E6*I/*II ratio <1 (N = 73) E6*I/*II ratio ≥ 1 (N = 104) P-value for heterogeneity
Mean age at diagnosis (range) 55.3 (31-89) 55.2 (37-86) 55.4 (31-89) 0.91
Gender       0.88
 - F 33 (18.6%) 14 (19.2%) 19 (18.3%)  
 - M 144 (81.4%) 59 (80.8%) 85 (81.7%)  
Smoking status (Missing = 33)       0.63
 - Non-Smoker 45 (31.3%) 22 (35.5%) 23 (28.0%)  
 - Ex-Smoker 52 (36.1%) 21 (33.9%) 31 (37.8%)  
 - Current Smoker 47 (32.6%) 19 (30.6%) 28 (34.1%)  
Alcohol status (Missing = 65)       *
 - Non-Drinker 20 (17.9%) 12 (23.1%) 8 (13.3%)  
 - Ex-Drinker 5 (4.5%) 1 (1.9%) 4 (6.7%)  
 - Drinker 87 (77.7%) 39 (75.0%) 48 (80.0%)  
T stage (Missing = 2)       0.44
 - 1 50 (28.6%) 24 (32.9%) 26 (25.5%)  
 - 2 57 (32.6%) 22 (30.1%) 35 (34.3%)  
 - 3 47 (26.9%) 21 (28.8%) 26 (25.5%)  
 - 4 21 (12.0%) 6 (8.2%) 15 (14.7%)  
N stage       0.25
 - 0 34 (19.2%) 18 (24.7%) 16 (15.4%)  
 - 1 30 (16.9%) 13 (17.8%) 17 (16.3%)  
 - 2-3 113 (63.8%) 42 (57.5%) 71 (68.3%)  
TNM Stage       0.23
 - 1-2 17 (9.6%) 9 (12.3%) 8 (7.7%)  
 - 3 36 (20.3%) 18 (24.7%) 18 (17.3%)  
 - 4 124 (70.1%) 46 (63.0%) 78 (75.0%)  
Grade       0.87
 - 1-2 74 (41.8%) 30 (41.1%) 44 (42.3%)  
 - 3 103 (58.2%) 43 (58.9%) 60 (57.7%)  
Primary tumour tumor site       *
 - Tonsil 155 (87.6%) 68 (93.2%) 87 (83.7%)  
 - Base of Tongue 19 (10.7%) 3 (4.1%) 16 (15.4%)  
 - Other Oropharyngeal site 3 (1.7%) 2 (2.7%) 1 (1.0%)  
Treatment        
 - Radiotherapy +/− Chemo 85 (48.0%) 31 (42.5%) 54 (51.9%)  
 - Surgery +/− Adjuvant Radiotherapy +/− chemo 92 (52.0%) 42 (57.5%) 40 (48.1%)  
EGFR (Missing = 1)       0.60
 - Positive 126 (71.6%) 50 (69.4%) 76 (73.1%)  
 - Negative 50 (28.4%) 22 (30.6%) 28 (26.9%)  
Cyclin D1       0.41
 - Positive 62 (35.0%) 23 (31.5%) 39 (37.5%)  
 - Negative 115 (65.0%) 50 (68.5%) 65 (62.5%)  
*

no test was performed as the numbers were too small.

Effect of E6*I/*II ratio on outcomes

Loco-regional outcome data was incomplete in 5 patients. Overall loco-regional failure occurred in 12.8% of patients with failure at the primary site in 14 patients and in the regional nodal region (with disease controlled at the primary site) in 8 patients (Table 2). There were 57 (32.2%) events and 42 (23.7%) deaths from any cause.

Table 2.

Event rates at 5 year by E6*I/*II ratio and the Kaplan-Meier estimate of 5-year event rates are shown in square brackets.

  All Patients (n=177) E6*I/*II ratio <1 E6*I/*II  ratio ≥ 1 (n=104)
Locoregional recurrence 22 (12.8%) [14%] 7 (9.6%) [11%] 15 (15.2%) [17%]
Event (recurrence or death) 57 (32.2%) [34%] 17 (23.3%) [26%] 40 (38.5%) [40%]
Death 42 (23.7%) [23%] 13 (17.8%) [19%] 29 (27.9%) [26%]

There were more events among patients whose tumors had an E6*I/*II ratio ≥1 compared with an E6*I/*II ratio of <1 with the Kaplan-Meier estimate of 5-year event rates of 40% vs 26% (Fig. 1). Similarly there were non-significant differences in locoregional recurrence and death between the 2 groups. There were only 22 locoregional recurrences in total and the Kaplan-Meier estimate 5-year event rates of 17% vs 11%. Only 42 deaths (31 died of this cancer and 11 were non cancer related deaths) were observed among the 177 patients and those with tumors having E6*I/*II ratio >1 were more likely to die (the Kaplan-Meier estimate 5-year death rate 26% vs 19%).

Figure 1A.

Figure 1A.

Probability of remaining free of loco-regional recurrence by E6*I/*II ratio.

Univariate analysis showed that patients with E6*I/*II ≥1 OSCC were more likely to have an event than those with E6*I/*II <1 OSCC (Table 3B). After adjusting for confounders, there was a non-statistically significant trend in higher risk of event for patients with E6*I/*II ratio ≥1 (HR 1.70, 95% CI 0.95-3.03, p=0.07). E6*I/*II ratio did not predict locoregional recurrence or death on multivariable analysis (Tables 3A and 3C). N stage and EGFR status were strong predictors of locoregional recurrence. Gender and T stage were predictors of event-free survival. In term of overall survival, T stage and EGFR status were strong independent predictors.

Table 3A.

Multivariable associations of patient and disease characteristics with risk of locoregional recurrence.

    Univariate
Multivariable*
Characteristic Category HR (95% CI) P-value HR (95% CI) P-value
Age at diagnosis <60 1.00 0.19    
  ≥60 0.48 (0.16, 1.42)      
Gender Male 1.00 0.08    
  Female 0.17 (0.02, 1.27)      
Grade 1,2 1.00 0.35    
  3 0.67 (0.29, 1.54)      
T Stage 1 1.00 0.07    
  2 1.26 (0.30, 5.28)      
  3 3.20 (0.87, 11.85)      
  4 4.43 (1.06, 18.55)      
N Stage 0 1.00 0.06 1 0.033
  1 1.73 (0.56, 5.30)   1.71 (0.55, 5.31)  
  2,3 0.54 (0.18, 1.61)   0.47 (0.15, 1.43)  
EGFR Negative 1.00 0.034 1 0.035
  Positive 8.77 (1.18, 65.33)   8.72 (1.17, 65.09)  
Cyclin D1 Negative 1.00 0.66    
  Positive 0.81 (0.32, 2.07)      
E6*I/*II ratio <1 1.00 0.24 1 0.17
  ≥1 1.72 (0.70, 4.23)   1.94 (0.75, 5.02)  
*

Multivariable model is adjusted for age, gender, T stage, N stage, EGFR, treatment and E6*I/*II ratio.

Table 3B.

Multivariable associations of patient and disease characteristics with risk of an event (recurrence or death).

    Univariate
Multivariable*
Characteristic Category HR (95% CI) P-value HR (95% CI) P-value
Age at diagnosis <60 1.00 0.29    
  ≥60 1.34 (0.78, 2.31)      
Gender Male 1.00 0.034 1.00 0.020
  Female 0.37 (0.15, 0.93)   0.33 (0.13, 0.84)  
Grade 1,2 1.00 0.57    
  3 0.86 (0.51, 1.46)      
T Stage 1 1.00 0.005 1.00 0.004
  2 1.33 (0.56, 3.17)   1.41 (0.59, 3.38)  
  3 2.95 (1.31, 6.64)   2.98 (1.33, 6.70)  
  4 3.56 (1.43, 8.86)   3.90 (1.55, 9.86)  
N Stage 0 1.00 0.28    
  1 0.66 (0.29, 1.50)      
  2,3 0.61 (0.33, 1.13)      
EGFR Negative 1.00 0.06    
  Positive 1.93 (0.97, 3.83)      
Cyclin D1 Negative 1.00 0.20    
  Positive 1.42 (0.83, 2.42)      
E6 ratio <1 1.00 0.053 1.00 0.07
  ≥1 1.76 (0.99, 3.11)   1.70 (0.95, 3.03)  
*

Multivariable model is adjusted for age, gender, T stage, N stage, treatment and E6*I/*II ratio.

Table 3C.

Multivariable associations of patient and disease characteristics with risk of death from any cause.

    Univariate
Multivariable*
Characteristic Category HR (95% CI) P-value HR (95% CI) P-value
Age at diagnosis <60 1.00 0.09    
  ≥60 1.73 (0.92, 3.26)      
Gender Male 1.00 0.045    
  Female 0.30 (0.09, 0.97)      
Grade 1,2 1.00 0.24    
  3 0.69 (0.38, 1.28)      
T Stage 1 1.00 0.007 1.00 0.022
  2 1.84 (0.58, 5.90)   1.97 (0.61, 6.32)  
  3 4.55 (1.54, 13.47)   3.98 (1.34, 11.85)  
  4 4.83 (1.45, 16.07)   4.75 (1.41, 15.98)  
N Stage 0 1.00 0.11    
  1 0.49 (0.19, 1.30)      
  2,3 0.50 (0.25, 0.99)      
EGFR Negative 1.00 0.045 1.00 0.037
  Positive 2.44 (1.02, 5.82)   2.56 (1.06, 6.19)  
Cyclin D1 Negative 1.00 0.10    
  Positive 1.68 (0.91, 3.13)      
E6 ratio <1 1.00 0.13 1.00 0.26
  ≥1 1.65 (0.86, 3.19)   1.50 (0.75, 3.00)  
*

Multivariable model is adjusted for age, gender, T stage, N stage, EGFR, treatment and E6*I/*II ratio.

Discussion

This is the first study to examine the prognostic value of the E6 spliced transcripts in HPV type 16 positive OSCC. Type 16 is the main causative agent of HPV positive OSCC. Our previous data showed that up to 96% of HPV positive OSCC were related to HPV Type 16, therefore the result of this study is applicable to the vast majority of HPV positive OSCC.3 The better outcome seen in HPV positive OSCC compared with HPV negative OSCC is well established.13,14 However, further refinement of the prognostic value of HPV positivity is needed. Patients with HPV positive OSCC are known to have a better prognosis than patients with HPV negative OSCC, therefore there were fewer events and death in our study cohort. Nevertheless our data suggest that determination of E6*I/*II ratio might identify patients with HPV positive OSCC who are at higher risk of an event. Higher rates of locoregional recurrence and events were observed in patients E6*I/*II ≥1 OSCC as well as worse overall survival, however these results were not statistically significant.

The incidence of OSCC is increasing in Western countries despite declining tobacco use.2,15-18 This is attributable to a rising incidence of HPV positive OSCC with up to 70% of OSCC caused by HPV and type 16 accounting for more than 90% of the cases.14 The oncogenicity of HPV is directly related to the expression of E6 and E7. The E6 oncoprotein initiates degradation of the tumor suppressor protein p53.19 and the E7 oncoprotein can cause inactivation of the retinoblastoma gene.20 Together they cause a loss in cell cycle control. Except for type 16, all other high risk HPVs have only a single splice acceptor. In addition to the full length E6 mRNA, the type 16 HPV E6 gene encodes E6*I and E6*II transcripts by alternative splicing within the E6 open reading frame. These transcripts utilize the same splice donor site at nucleotide 226 but different splice acceptor sites at nucleotide 409 and nucleotide 526. The primary role of splicing events is unclear. A recent publication by Ajiro et al. suggested that the novel splice form of E6 isoform can enhance cell proliferation and therefore make type 16 a particularly carcinogenic type of HPV.21 In cervical cancer cell lines, splicing may help with the translation of the E7 oncoprotein.22 Our previous in vitro study of OSCC cell lines showed that the different isoforms of E6 affect the radiosensitivity by different degrees, with E6*I providing greatest radiosensitisation and E6*II having no effect.8 Based on these in vitro data, we expected that a high ratio of E6*I would correlate with radiosensitivity clinically and hence give better clinical outcomes. In contrast, this current study suggested that a higher E6*I/*II ratio may be a predictor of poorer outcomes. It is possible that differences between our in vitro data and the current study reflect limitations of in vitro studies. Apart from the radiosensitising effect, E6 isoforms could have other adverse effects on tumor progression and treatment response. It has been suggested that E6 might contribute to immunosuppression as it inhibits monocyte differentiation to Langerhans cells, which is responsible for induction of T cell-dependent immunity.23

The mechanism underpinning the poorer outcomes associated with a higher E6*I/*II ratio in this study is unknown. In one recent study, high grade cervix cancers had a higher E6*I/*II ratio than low grade cancers.9 The authors concluded that the detection of E6*I/E6*II mRNAs may help to predict disease progression. However, the effect of E6*I/*II ratio on outcomes of cervical cancer was not reported. Nonetheless, the adverse effect of a high E6*I/E6*II ratio is consistent with results of the current study. There has been no other published study on the prognostic value of E6*I/E6*II ratio in OSCC. Our testing focused on the primary tumor, it is not known whether there is a concordance between primary tumors and metastatic sites.

Several previous studies have tried to identify additional prognostic factors in HPV positive OSCC. Our previous study on EGFR provided weak evidence that the effects of EGFR on outcome were limited to people with HPV negative OSCC.12 Our current study showed that EGFR expression was a prognostic marker for locoregional recurrence and overall survival. Despite the inverse relationship between HPV and EGFR, it seems likely that the molecular pathways are independent. Both Kumar et al.24,25 and Kong et al.24,25 found that a combination of EGFR and HPV was useful for stratifying disease specific survival in head and neck cancer. Reimers et al.26 also concluded that testing for p16 in conjunction with EGFR had significant prognostic implications. The increased risk also applied to survival, but the effect was not as strong. In cervical cancer, splicing of HPV16 E6 is regulated by the EGFR pathway. The inverse relationship between HPV status and cyclin D1 has been well documented.10 It was therefore noteworthy that in the current study, cyclin D1 was not a significant prognostic factor after adjusting for E6*I/E6*II ratio in addition to known prognostic variables.

In conclusion, the detection of HPV 16 spliced transcripts may identify prognostic markers of poorer outcomes in patients with HPV type 16 positive OSCC and help future clinical trials design to improve the outcome of HPV positive OSCC. Due to few events in HPV positive OSCC, the results of the current study should be examined in a larger cohort.

Materials and methods

Study population

A total of 177 patients with stage 1-4 HPV type 16 OSCC treated with curative intent between 1985-2011 were included in the study. Ethics approval was obtained from the Sydney Local Health Service ethics committees (Protocols X12-0141 and HREC/08/RPAH/162). Demographic and clinicopathological data were retrieved from our prospective databases and medical records. Selection criteria included availability of primary tumor, baseline clinicopathological data and follow-up data. A HPV-positive cancer was defined as one testing positive for HPV DNA and with p16ink4 (p16) overexpression on immunohistochemistry.27,28 Patients were followed up for the occurrence of an event (recurrence in any form or death from any cause) for a median of 62 months after diagnosis. The study pathologist confirmed the histology, and tumor grade, and scored the immunohistochemistry blinded to the outcomes. Cancers were staged using the American Joint Committee in Cancer Staging System 7th edition.

EGFR and cyclin D1 expression were determined by semiquantitative immunohistochemistry using PharmDx™ Kit for autostainer (Dako) and clone SP4 (Neomarkers) respectively.10,12 EGFR positivity was defined as membrane staining of at least moderate intensity in 10% of cancer cells.12 Cyclin D1 positivity was defined as nuclear staining of at least moderate intensity in 10% of cancer cells.10

Detection of HPV E6*I and E6*II splice variants by quantitative RT-PCR

Four to 8 sections of 10µm formalin fixed paraffin embedded samples were used for RNA extraction with RNeasy FFPE kit (Qiagen) according to manufacturer's instructions. RNA extracts were quantified and assessed using NanoDrop ND 1000 (Thermo Fisher Scientific, USA). To determine the relative expression levels of E6*I and E6*II, a 2-step Cyber Green qRT-PCR was performed using Rotor-Gene 6000 machine (Corbett Life Science). HPV 16 E6*I and E6*II specific primers were designed according to the literature with some modifications.9 The forward primer for both E6*I and E6*II mRNA was 5′CAGTTATGCACAGAGCTGCA (nucleotide 121 to 139, GeneBank Accesion Number K02718). The reverse primers for E6*I and E6*II were 5′–GACAGTTAATACACCTCACGT and 5′–CGTGTTCTTATGATCTCACGT, which generated a 120bp and a 123 base pair product respectively. A B2M internal control gene specific primer set was purchased from Qiagen (PN: 249900).

A SuperScript™III Reverse Transcriptase kit (ABI, USA) was used for all cDNA syntheses. Each 20µl reaction mix contained 4µl of 5x FS buffer, 1µl of 10mM dNTP mix, 0.2µl of RNase inhibitor, 1 µl of 0.1M DTT, 650ng of total RNA, 300ng of the primer mix, and 1.0µl of Superscript™ III Reverse Transcriptase. The cycle conditions were as suggested were suggested by the manufacturer: 1) 25°C for 5 minutes, 2) 55°C for 60 minutes, 3) 70°C for 15 minutes, and 4) hold at 4°C. The resulting product was diluted at 1: 4 ratio with nuclease-free water stored at −20°C and used as a template in downstream qPCR.

E6*I and E6*II RNA transcripts were measured using the Cyber-Green assay according to the manufacturer's instruction. Each 10µl qPCR reaction mix contained 5µl of 2x Cyber-Green Master Mix (Invitrogen, USA), 4µl of 1 in 4 diluted cDNA products and each gene specific primer at a final concentration of 0.4µM. All reactions were conducted in duplicate, and a non-template control was included in each run. The cycle condition were optimised particularly for the E6*I and E6*II amplicons: 95°C for 10 minutes, followed by 40 cycles of 95°C for 10 seconds, 41°C for 15 seconds and 68°C for 20 seconds. The data were acquired at 68°C.

Relative expression level of a gene was calculated as described.29 PCRs with similar efficiencies were judged by having similar amplification plots and then selected for the down-stream analysis. Mean Ct values were normalized using B2M and indicated as the Δ mean Ct. The relative expression level of a given gene was calculated using 2−Δ and presented as fold change. The E*I/E6*II fold change ratio was calculated.

Statistical methods

Categorical variables were compared with chi-square tests. Times to loco-regional failure, any event (recurrence or death) and death from any cause were calculated from date of diagnosis. For the analysis of time to loco-regional failure (defined as clinical, radiological and/or pathological evidence of recurrence at the primary site or in the regional nodal area), patients were censored at last follow-up, death or distal recurrence where applicable. Five patients were excluded as they had incomplete information on recurrence. For the analysis of time to death from any cause, patients were censored at last follow-up if they were not known to have died. For the analysis of event-free survival, patients without events were censored at the date of last follow-up. An event was defined as recurrence of the OSCC in any form or death from any cause, with only the first event taken into account. Time-to-event analyses were undertaken using Cox proportional hazards regression modeling. Selection of predictor variables in the multivariable model was performed using the backward elimination method with E6*I/*II ratio forced into the final model.

Disclosure of potential conflicts of interest

No potential conflicts of interest were disclosed.

Figure 1B.

Figure 1B.

Event free survival by E6*I/*II ratio.

Figure 1C.

Figure 1C.

Overall survival by E6*I/*II ratio.

Funding

The authors would like to thank the following funding bodies for their supports: Royal Australian and New Zealand College of Radiologists, Cancer Council NSW and Priority-driven Collaborative Cancer Research Scheme co-funded by the Cure Cancer Australia Foundation and the Australian Government through Cancer Australia.

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