Circulating BRAF V600E Levels Correlate with Treatment in Patients with Thyroid Carcinoma

Abstract

Background:

BRAF^V600E is the most common mutation in papillary thyroid carcinoma (PTC) and can be associated with aggressive disease. Previously, a highly sensitive blood RNA-based BRAF^V600E assay was reported. The objective of this study was to assess the correlation of BRAF^V600E circulating tumor RNA levels with surgical and medical treatment.

Methods:

Circulating BRAF^V600E levels were assessed in (i) a murine model of undifferentiated (anaplastic) thyroid carcinoma with known BRAF^V600E mutation undergoing BRAF^V600E -inhibitor (BRAFi) treatment, and (ii) in 111 patients enrolled prior to thyroidectomy (n = 86) or treatment of advanced recurrent or metastatic PTC (n = 25). Blood samples were drawn for BRAF^V600E analysis before and after treatment. Testing characteristics were assessed and positivity criteria optimized. Changes in blood BRAF^V600E values were assessed and compared to clinical characteristics and response to therapy.

Results:

In a murine model of anaplastic thyroid carcinoma with BRAF^V600E mutation, blood BRAF^V600E RNA correlated with tumor volume in animals treated with BRAFi. In tissue BRAF^V600E -positive (n = 36) patients undergoing initial surgery for PTC, blood BRAF^V600E levels declined postoperatively (median 370.0–178.5 fg/ng; p = 0.002). In four patients with metastatic or poorly differentiated thyroid carcinoma receiving targeted therapies, blood BRAF^V600E declined following therapy and corresponded with radiographic evidence of partial response or stable disease.

Conclusions:

This study shows the correlation of blood BRAF^V600E levels in response to treatment in both an established animal model of thyroid cancer and in patients with BRAF^V600E -positive tumors with all stages of disease. This assay represents an alternative biomarker in patients with positive thyroglobulin antibodies, and tumors, which do not express thyroglobulin.

Introduction

Thyroid cancer has been increasing in incidence greater than any other cancer and is expected to be the third most common cancer in women by 2019 (1,2). Long-term disease-specific survival is excellent for most patients in this younger-skewing population, leading to an escalating prevalence of disease. While initially this increase in incidence was entirely attributed to increased diagnosis of small indolent tumors, a recent report shows increases in higher risk tumors as well (3). Acknowledgment of overdiagnosis of indolent disease and report of active surveillance protocols in Japan, among other observations, has led to a general shift in recommendations for less aggressive treatment of papillary thyroid carcinoma (PTC) (4 –6). Improved risk stratification is highlighted as an important focus of thyroid cancer research (5).

Most risk-stratification algorithms were designed to predict mortality and do not integrate mutational status. The 2009 American Thyroid Association (ATA) guidelines for the management of differentiated thyroid cancer introduced a three-tiered risk of persistent/recurrent disease following initial treatment, which was validated in a number of countries (7). In the 2015 revision of the ATA guidelines, the authors include BRAF^V600E as a potential additional prognostic variable (5). BRAF^V600E causes constitutive activation of the MAPK pathway and is present in more than one half of PTCs and in 5–20% of patients with poorly differentiated and anaplastic thyroid carcinomas (ATC) (8,9). The proportion of BRAF^V600E -positive PTC is reportedly increasing (10). In thyroid cancer patients, this mutation is highly specific for PTC. Commercial DNA and gene expression profile assays performed on thyroid fine-needle aspirates (FNA) are highly predictive of malignancy when the BRAF^V600E DNA mutation is present (11 –13). Currently, assessment of the thyroid tumor tissue for this mutation requires obtaining genetic material for mutational profiling through FNA or tissue for immunohistochemical staining with specific anti-BRAF^V600E antibodies (14). Traditional tissue assays are considered less sensitive because of the potential for background tissue contamination and sampling error (i.e., testing an adjacent BRAF^wt nodule) (5).

Knowing the mutation status of each tumor is important, since the mutation is associated with aggressive pathological features, local tumor recurrence, loss of radioactive iodine avidity (RAI), and increased disease-specific mortality (15 –21). Even in papillary thyroid microcarcinomas (<1 cm), aggressive features and a higher risk of recurrence are observed in patients with BRAF^V600E tumors (22,23). While prophylactic central cervical lymph node dissection in patients with cytological BRAF^V600E tumors is controversial, some experts recommend using BRAF^V600E status to guide extent of initial surgery and use of RAI (24 –27).

Recently, the development and feasibility of a highly sensitive blood RNA-based BRAF^V600E assay in patients with thyroid disease was reported (28). Circulating BRAF^V600E was able to be detected in the blood of thyroid cancer patients, and a good correlation was found with conventional tissue methods. The correlation of response to treatment in patients with melanoma undergoing BRAF^V600E -inhibitor (BRAFi) therapy has also been reported (5,29 –32). In patients with thyroid cancer, a liquid biopsy that can accurately measure circulating BRAF^V600E levels would be beneficial at multiple levels: (i) in patients with tumor recurrences, where tissue is not easily accessible; (ii) an alternative biomarker for surveillance of those patients with thyroglobulin antibodies (TgAb); (iii) a biomarker for advanced thyroid cancer patients undergoing BRAF^V600E -targeted therapies; and (iv) an alternative to Tg in patients undergoing thyroid lobectomy alone for lower-risk PTC, since the remnant gland is left in situ (5,30 –32). Compared to FNA, a routine blood draw is less expensive and less invasive. In addition, the FNA can only be done on one lesion at a time.

This work further characterized the RNA-based blood assay to see if it would allow for serial, quantitative analysis correlating with effects of treatments such as surgery or targeted therapies. In addition, BRAF^V600E levels were analyzed in a murine model of undifferentiated (anaplastic) thyroid carcinoma harboring the BRAF^V600E mutation during treatment with BRAF^V600E inhibitors. It was hypothesized that blood BRAF^V600E levels would correlate with response to treatment. Serial blood BRAF^V600E levels could provide an inexpensive, safe, and simple mechanism for risk stratification and surveillance in the 50% of patients with PTC with BRAF^V600E mutation, offer an alternative biomarker in in patients where Tg levels are not informative, and provide longitudinal assessment of treatment response.

Materials and Methods

Orthotopic murine model of human ATC

All animal work was done in the animal facility at Massachusetts General Hospital (Boston, MA) in accordance with federal, local, and institutional guidelines. Human ATC cells (8505c; BRAF^V600E ^/–, TP53^R248G/–; Deutsche Sammlung von Mikroorganismen und Zellkulturen) were cultured in Dulbecco's modified Eagle's medium (DMEM) supplemented with 10% fetal bovine serum and 1% penicillin/streptomycin in a 37°C 5% CO₂ incubator. An orthotopic murine model of BRAF^V600E -mutant ATC was chosen in order to provide proof-of-principle of the feasibility of detecting plasma BRAF^V600E RNA and the ability to correlate plasma levels with tumor volume. The 8505c human ATC orthotopic severe combined immunodeficiency (SCID) model progresses at a much faster rate compared to PTC models, which lends to improved ease of use. Human ATC cells were injected into the thyroid of 33 ten-week-old female SCID mice, as previously described (33). Briefly, the mice were anesthetized, the thyroid gland exposed, and 10⁶ 8505c cells were injected into the left thyroid lobe with a 27-gauge needle. The right thyroid lobe was not manipulated to serve as an internal control. Mice were randomized to either a control diet (Research Diets, Inc.) or 418 mg/kg BRAFi (PLX4720)-embedded chow (Research Diets, Inc.) ad libitum, starting two weeks after injection (34). Three mice were euthanized weekly for assessment of tumor volume (volume = [length × width × depth]/2), and blood was obtained by cardiopuncture and pooled to yield sufficient quantity. The blood BRAF^V600E level was quantified, as previously described and below (29).

Patient selection

Under approval by the Partners Human Research Committee Institutional Review Board at the Massachusetts General Hospital, patients with benign and malignant thyroid disorders undergoing initial curative surgery or treatment of recurrent disease were enrolled between September 2013 and September 2015. After informed consent, a 5 mL sample of peripheral blood was obtained from each patient before and after surgery or, in the cases of iodine-refractory metastatic disease, during treatment with targeted chemotherapies. The post-treatment blood was drawn at the time of the subsequent clinic visit, the vast majority being at the postoperative visit (median 17.5 days; interquartile range (IQR) 13.0 to 30.3 days).

Blood BRAF^V600E assay protocol

The assay was previously described in detail (28,29). Briefly, peripheral blood lymphocytes were isolated by Ficoll density centrifugation from each blood sample and stored in freezing medium. RNA was isolated by the Trizol method (Invitrogen, Grand Island, NY) and (50–100 ng) reverse transcribed to cDNA by standard methods, normalized in quantity with 18S RNA, and amplified. After DNA cleanup, wild-type BRAF (BRAF^wt ) was digested with TSPR1 (restriction site = NNCASTGNN; New England Biolabs, Beverly, MA) to reduce contamination by normal BRAF^V600E from surrounding normal tissue in the blood samples. The product was then subjected to a second round of polymerase chain reaction (PCR) and BRAF^wt digestion. To favor the mutant further over the wild-type product, a 33-fold excess of the reverse (common sequence in mutant and wild-type) to forward (exact match for mutant and one base mismatch for wild-type sequences) primers were used in the final real-time PCR assay for BRAF^V600E . Oligonucleotides were custom synthesized from Invitrogen (Carlsbad, CA) and Sigma–Aldrich (St. Louis, MO). Purified BRAF^V600E first-round PCR product with a known concentration was also run through the assay and was used to create a standard curve.

It was previously established that the assay can detect as low as 1 pg of BRAF^V600E and has a 1000-fold increased sensitivity compared to the BRAF^wt (28). This assay was used for the orthotopic murine model (discussed above), reported in pictograms, with a positivity criterion of 4.8 pg. The 18S reverse transcription PCR assay is now run in the presence of known amounts of purified RNA in order to generate a standard curve (input RNA in nanograms). Going forward, all new data generated by this assay will be reported as femtograms of BRAF^V600E /nanogram of RNA.

Tissue-based BRAF^V600E analysis

Tissue-based BRAF^V600E analysis has been previously described (28). Briefly, patients meeting inclusion criteria and with tissue available had BRAF^V600E mutational analysis as part of standard clinical care either via SNaPshot (Massachusetts General Hospital Cancer Center Translational Research Laboratory) or immunohistochemistry was done using a BRAF^V600E monoclonal antibody with 97% correlation with SNaPshot molecular testing (98% sensitivity and 97% specificity) (35). For PTC cases in which mutational status was not obtained clinically, BRAF^V600E mutation was sequenced from formalin-fixed, paraffin-embedded (FFPE) tissue blocks, as previously described.

Tg assay

A commercial assay (Mayo Medical Laboratories New England, MA) was used to determine Tg levels in all patients, as per standard clinical practice.

Statistical analysis

Clinical variables were chosen based on established demographic and pathological risk factors for decreased thyroid cancer-free survival. The American Joint Committee on Cancer TNM (AJCC TNM) stage was determined for each patient. For comparisons between BRAF^V600E and wild-type groups, pathological variables were only considered present if they were specifically described in the final pathology report (as per convention). Univariate comparisons of categorical variables were analyzed using Fisher's exact test, and continuous variables were assessed by Student's t-test or Wilcoxon's rank-sum test for nonparametric data. Correlations of postsurgical blood BRAF^V600E expression levels according to mutational status and demographic and pathological characteristics were based on linear regression models. A p-value of <0.05 was considered statistically significant. Using tissue results as the gold standard, likelihood ratios (sensitivity/1 – specificity) were calculated, and a receiver operating characteristic curve was produced. An a priori decision was made to maximize specificity for determining the positivity criterion. Blood BRAF^V600E levels before and after surgery were compared, and Wilcoxon's signed rank test was carried out to assess the non-normal blood BRAF^V600E level change before and after surgery for tissue BRAF^V600E -positive and tissue BRAF^wt patients, respectively.

Results

Circulating BRAF^V600E levels correlate with tumor response after treatment with BRAFi in an orthotopic murine model of ATC

The previously described immunocompromised orthotopic mouse model of ATC was utilized to study the correlation between BRAF^V600E tumor growth and BRAF^V600E levels both before and following treatment with the selective BRAFi (PLX4720) (33). This model results in tumor growth with extrathyroidal extension over several weeks and cervical lymph node and pulmonary metastases; control animals have a life expectancy of up to five weeks.

A total of 33 mice had orthotopic injection of 8505c cells (Fig. 1). Three mice were euthanized weekly to evaluate mean tumor volumes, and their blood was pooled to obtain sufficient peripheral blood leukocytes for RNA-based BRAF^V600E analysis. Two days after implantation of tumor, mouse blood BRAF^V600E levels were 16.17 pg and steadily rose such that at two weeks post implantation, mice had a peak BRAF^V600E RNA level of 40.8 pg in the pooled blood and a mean tumor volume of 12.0 ± 0.6 mm³. Subsequently, mice were randomized to either control chow or treatment with BRAFi embedded chow at a standard dose (418 mg/kg BRAFi). Over the next set of measurements, tumor volume rose steadily to a peak of 118.6 ± 26.1 mm³ at four weeks in the control group, consistent with previously reported data. Blood BRAF^V600E levels remained elevated at each weekly time point (34). During the third week post implantation, the BRAF^V600E blood level dipped slightly to 22.01 pg and remained stable at four weeks. The control mice had to be euthanized at the beginning of week 5 post implantation in order to meet humane endpoints. In the BRAFi-treated group, tumor volume declined to 7.11 ± 1.0 mm³ and 2.53 ± 2.7 mm³ at weeks 3 and 4, respectively. Tumors subsequently became and remained undetectable. Mean blood BRAF^V600E RNA declined in tandem with tumor volume to 2.1 pg and 4.0 pg at weeks 3 and 4, respectively, and remained between 1.5 pg and 2.8 pg through week 8 of the study.

FIG. 1.

BRAF^V600E -mutated thyroid tumors grow in the first two weeks after orthotopic tumor implantation. Blood BRAF^V600E levels also increase. Treatment with BRAFi (PLX4720) prevents tumor progression and dramatically reduces blood BRAF^V600E levels.

Patient cohort characteristics

The goal was to analyze this assay in a variety of thyroid cancer patients to understand assay utility fully. The study population included 111 patients who had their blood BRAF^V600E level measured before and after surgery or adjuvant therapy (Fig. 2). Of the 111 patients, 25 were undergoing advanced thyroid cancer therapy, including seven PTC patients who had surgery for recurrent local disease and 18 patients with RAI-resistant differentiated, poorly differentiated, or ATC undergoing active surveillance, or systemic therapy with small molecule inhibitors or, in the case of ATC, cytotoxic chemotherapy and radiotherapy. Fifty-nine patients underwent initial surgical treatment with curative intent for PTC, 51 (94.4%) of whom underwent at least total thyroidectomy. In this group, 36 patients had tumor tissue harboring the BRAF^V600E mutation, whereas 18 patients had tumor tissue with BRAF^wt . In five patients, the assay failed (n = 1) or BRAF^V600E testing was not performed. An additional 27 patients were recruited as controls, and their surgical pathology diagnoses were multinodular goiter (n = 23) and follicular adenoma (n = 4). None of the patients had known melanoma or colorectal adenocarcinoma. Patients with cancer had AJCC TNM stages I–IV (Table 1).

FIG. 2.

Patient cohort and associated therapy.

Table 1.

Characteristics of Cohort Patients Who Underwent Initial Surgery for Curative Treatment for PTC

	All (n = 54)	Tissue BRAF^V600E positive (n = 36)	Tissue BRAF^wt (n = 18)	p-Value
Demographics
Female, n (%)	38 (70)	25 (69)	13 (72)	0.99
Age at surgery, M (±SD)	46.9 (15.1)	44.8 (13.5)	51.0 (17.5)	0.16
Primary tumor characteristics
Tumor maximum diameter (mm), M (±SD)	1.9 (1.3)	1.9 (1.2)	1.8 (1.3)	0.92
Extrathyroidal extension, n (%)	19 (35)	14 (39)	5 (28)	0.55
Lymphovascular invasion, n (%)	27 (51)	21 (58)	6 (35)	0.15
Cervical lymph node status, n (%)
Central lymph node metastases	23 (42.6)	18 (50.0)	5 (27.8)	0.15
Lateral lymph node metastases	11 (20.4)	8 (22.2)	3 (16.7)	0.73
AJCC TNM stage, n (%)				0.35
I	37 (69)	25 (69)	12 (67)
II	4 (7)	1 (3)	3 (7)
III	5 (9)	4 (1)	1 (6)
IV	8 (5)	6 (7)	2 (1)
Blood BRAF^V600E level
Preoperative level (fg/ng RNA), median (IQR)	301.5 (136.3–608.0)	370.0 (203.3–686.5)	136.5 (85.3–354.0)	0.03
Postoperative level (fg/ng RNA), median (IQR)	177.5 (80.0–254.8)	178.5 (75.8–305.5)	158.0 (87.0–223.3)	0.73

PTC, papillary thyroid carcinoma; wt, wild type; SD, standard deviation; AJCC TNM, American Joint Committee of Cancer Tumor, Node, Metastasis; IQR, interquartile range.

Testing characteristics

To compare the blood BRAF^V600E assay results with the conventional tissue testing, the results of the optimized blood assay were compared to conventional tissue mutational testing using the group of patients undergoing initial surgery for curative intent in which tissue genotyping was available. Using the tissue BRAF^V600E result as the gold standard, likelihood ratios were calculated and a receiver operating characteristic curve for the blood assay predicting tissue BRAF^V600E mutational status was constructed (Fig. 3). The area under the curve (AUC) was 0.68, indicating moderate correlation of tests assuming the tissue results are true. Using maximum likelihood ratio for a positive test (LR⁺) as the optimal cutoff, the threshold for blood BRAF^V600E level is 140–145 fg/ng RNA.

FIG. 3.

Receiver operating characteristic curve based on 54 patients receiving initial papillary thyroid carcinoma therapy who have tissue BRAF^V600E status.

Blood BRAF^V600E levels decline following initial surgical treatment for PTC

Preoperative blood BRAF^V600E levels were assessed for association with clinical and pathological characteristics. On multivariable linear regression, adjusting for sex, age, and tumor volume, only extrathyroidal extension was correlated with the preoperative blood BRAF^V600E level (p = 0.03). The blood BRAF^V600E levels were compared before and after initial surgical treatment for PTC patients stratified by their tissue BRAF^V600E status (Fig. 4). For tissue BRAF^V600E -positive patients (n = 36), the median blood BRAF^V600E level dropped from 370.0 fg/ng RNA to 178.5 fg/ng RNA (p = 0.002). For tissue BRAF^wt (n = 18) and for non-PTC controls with tissue BRAF^wt (n = 15), the median blood BRAF^V600E level did not change significantly with surgery (p = 0.70 and p = 0.69, respectively). Three of these patients for whom blood BRAF^V600E levels were available before and after initial surgery for curative intent had a structural recurrence requiring surgery during the study period, all of whom were tissue BRAF^V600E positive. Blood BRAF^V600E levels correlated with clinical disease status in the two patients with high preoperative levels. In one patient, the preoperative BRAF^V600E level of 3567 fg/ng RNA fell to139 fg/ng (Tg 8.8 ng/mL), below the established threshold, at six months postoperatively. With the development of recurrent clinical nodal disease six months later, the BRAF^V600E level had increased to 316 fg/ng RNA and correlated with an increase in the Tg level, indicating recurrence (Tg level 54 ng/mL). To see whether serum thyrotropin (TSH) levels influenced blood BRAF^V600E levels, the length of the time lapse between collection of the blood BRAF^V600E levels, tissue BRAF^V600E levels, and the recorded TSH were adjusted, and no significant association was found between blood BRAF^V600E levels and TSH levels following surgery (data not shown). The effect between postoperational serum BRAF^V600E level and the time between surgery and measurement was also tested (median 17.5 days; IQR 13.0 to 30.3 days), adjusting for preoperative blood BRAF^V600E levels and tissue BRAF status in a linear regression model, and there was no significant association (p = 0.328).

FIG. 4.

Comparison of blood BRAF^V600E level (log₁₀ scale) before and after initial surgical treatment among tissue BRAF^V600E-positive and BRAF^wt patients. The box plots measure 1st quartile −1.5 interquartile range (IQR), 1st quartile, median, 3rd quartile, 3rd quartile +1.5 IQR from bottom to top.

Blood BRAF^V600E levels before and after surgical treatment for locally recurrent PTC

Seven patients in the cohort had remote thyroidectomy with or without cervical lymph node dissection. Five of the patients had tumor tissue positive for BRAF^V600E , one in the index tumor and four in the recurrent tumors. Blood BRAF^V600E was obtained before and after surgery to characterize recurrent local disease. Median blood BRAF^V600E before and after salvage surgery was 319.0 fg/ng RNA (IQR 192.5–562.6 fg/ng) and 260 fg/ng RNA (IQR 109.0–491.0fg/ng). In one patient, clinical recurrence occurred one year following initial total thyroidectomy with central lymph node dissection for a tall-cell variant PTC with a small focus of ATC. The preoperative BRAF^V600E level was 1193 fg/ng. While two weeks following salvage surgery this level failed to decline (2163 fg/ng), after external beam radiation, the level decreased to 598 fg/ng RNA. Six months following this, the level returned to 2104 fg/ng RNA, which was concerning for worsening disease. The patient has a new thyroid bed mass that is being observed (based on the patient's age and choice), which is consistent with the observed elevation in BRAF^V600E levels. Throughout the clinical course, Tg levels have been very low to undetectable (0.1–0.3 ng/mL). Two other patients in this group had elevated TgAb.

Blood BRAF^V600E levels before and after initiation of targeted therapies

Blood BRAF^V600E samples were obtained from 18 patients with metastatic RAI-resistant papillary (n = 11) poorly-differentiated/anaplastic (n = 5), and Hürthle cell (n = 2) thyroid carcinomas undergoing active surveillance, or receiving chemotherapy, radiotherapy, multikinase inhibitors, and/or MAP-kinase pathway-specific inhibitors. Fourteen of the patients had BRAF^V600E -mutant tumors, and all 18 had detectable levels of BRAF^V600E in their blood (median 615 fg/ng; range 41–6552 fg/ng). Six patients (five BRAF^V600E -positive PTC and one with poorly differentiated thyroid carcinoma [BRAF^V600E positive]) did not have an alternative means of biochemical monitoring due to lack of Tg production (Tg <1 ng/mL; n = 4) or because of elevated TgAb (n = 2). Five of these six patients without other means of biochemical monitoring had gross elevations in pretreatment blood BRAF^V600E levels (range 552–6552 fg/ng) that dropped following systemic therapy initiation (range of log₂ [fold change] of 0.76–4.91). Correlation between blood BRAF^V600E and treatment response per RECIST v 1.1 was most notable in patients receiving BRAF^V600E inhibitors alone or in combination with MEK inhibitors (Fig. 5). In this subset of four patients, blood BRAF^V600E levels declined dramatically following initiation of therapy and corresponded with radiographic evidence of partial response or stable disease. In three of these patients, blood BRAF^V600E increased from the nadir, one of whom developed progressive disease 13 months after this increase, while the two other patients continued to have stable disease.

FIG. 5.

Circulating levels of BRAF^V600E in four patients with radioiodine-refractory metastatic BRAF^V600E -positive thyroid cancer undergoing targeted therapy. BRAFi, dabrafenib or vemurafenib; MEKi, trametinib.

Discussion

Thyroid cancer has been increasing in incidence more than any other cancer in the past few decades. While the majority of the increase is attributed to small, seemingly indolent cancers, a recent report also shows an increase in higher-staged tumors and disease-specific mortality (3). With recent changes in guidelines toward less aggressive treatment, improved risk stratification for thyroid cancer patients is essential (5). Additionally, the standard circulating biomarker, Tg, is unreliable in the subset of patients who progress to aggressive disease and whose tumors no longer make Tg, as well as in patients with TgAb that interfere with measurement of Tg. Thus, alternative biomarkers are needed.

Approximately half of patients with PTC harbor a BRAF^V600E mutation, a proportion that may be growing, at least in North America, with the reclassification of RAS-mutant (BRAF^wt ) noninvasive encapsulated follicular-variant PTC to noninvasive follicular thyroid neoplasm with papillary-like nuclear features (36). Large controlled studies have shown a correlation between this mutation and aggressive tumor characteristics, tumor recurrence, and overall survival particularly in the presence of other mutations such as TERT (15,17,18,37). Knowledge of BRAF^V600E status may be helpful in diagnosis (nearly 100% positive predictive value for PTC); determining extent of surgery (lobectomy vs. total thyroidectomy ± level VI cervical lymph node dissection), use of RAI, and frequency and intensity of follow-up; as an alternative to Tg in Tg-negative or TgAb-positive patients; and to assess response to BRAFi therapy in patients with advanced disease. Conventionally, cytology or surgical pathology specimens have been utilized to ascertain BRAF^V600E mutational status. The feasibility of a sensitive RNA-based blood assay to detect and serially monitor BRAF^V600E levels in patients with PTC has been published previously (28).

A key potential advantage of the assay is to serve as an alternative biomarker in patients with anti-TgAb, present in a significant proportion of PTC patients, and in the subset of patients whose tumors stop producing Tg because of disease dedifferentiation (38). Indeed, 12/59 (20%) patients undergoing initial surgery for PTC in this study had TgAb noted postoperatively, making Tg levels useless. Of these 12, nine were positive for BRAF^V600E on tissue testing. Indeed, in 6/18 patients with advanced thyroid cancer, the BRAF^V600E levels were elevated in the setting of very low or absent Tg <1.0 ng/mL and/or anti-TgAb (n = 2). Moreover, in the small but substantial group of patients destined to do poorly, there is an enrichment of BRAF^V600E mutations. Thus, the ability to detect and follow BRAF^V600E levels accurately over time as a biomarker for recurrence and response to BRAFi would be of great clinical value.

This work shows the correlation of blood BRAF^V600E levels in response to treatment both in an established animal model of thyroid cancer and in BRAF^V600E patients with all stages of disease undergoing treatment. In both the orthotopic murine model and in the patients, blood BRAF^V600E levels were not associated with tumor size, TSH level, Tg levels, or time of blood draw. In fact, the only clinical or pathological factor correlating with BRAF^V600E levels in the patient cohort was extrathyroidal extension. It was found in general that blood BRAF^V600E levels were detectable in all stages of disease and responded to both surgical therapy and treatment with systemic targeted therapy.

It was observed that plasma BRAF^V600E RNA levels spontaneously dropped in control mice that did not receive PLX4720 at week 3, albeit to a much lesser extent compared to mice that received treatment. The reasons for this decline (and subsequent rise) are unclear but may be due to the complex dynamic relationship between circulating tumor cells/nucleic acids and the originating tumor volume. In the 8505C orthotopic SCID ATC model, weeks 2–3 coincide with the exponential growth of thyroid tumor volume (in this experiment, mean tumor volume increased from 12.0 mm³ to 68.9 mm³) and the emergence of pulmonary micrometastases. In a review of the primary data, the subsequent rise in BRAF-mutant RNA at week 4 is largely driven by higher levels of the fourth mouse with a small tumor whose blood was analyzed separately. This was included at the four-week time point by taking a mean with a weighted mean of the pooled mice (n = 3). If this mouse is excluded from the analysis, the decline continues to occur. The outlier was included for completeness. Although not specifically shown for circulating tumor RNA, a spontaneous decrease in circulating tumor cells has been reported in the literature, especially during a period of rapid tumor growth following a period of slower growth (39 –41). A spontaneous decline and then subsequent rise has also been reported, especially for larger tumors. There are several postulated mechanisms for this phenomenon that remain unproven. One such mechanism includes the activation of host immunity by increasing single or clustered circulating tumor cells and subsequent enhanced clearance, although this immune activation is not enough to penetrate and/or clear the primary solid tumor or metastases, which are associated with an immunosuppressive microenvironment. While one might expect this phenomenon to be dampened in SCID mice, they do retain functional phagocytes such as neutrophils and monocytes/macrophages, which may be contributory to clearance. Additionally, rapid tumor growth may be associated with changes in tumor vessel morphology and function and tumor cell apoptosis/necroptosis; it is conceivable that these variables might decrease the efflux of circulating tumor cells.

Limitations of our study are acknowledged. There is some baseline signal in both BRAF^wt patients and patients undergoing thyroidectomy for benign disease. Using tissue BRAF^V600E status of the dominant tumor as the reference may be a source of potential error, given that PTC is commonly multifocal, with some carcinomas harboring BRAF^V600E mutations and others that do not. It is possible that the larger, dominant nodule undergoing tissue testing may be BRAF^wt while other, potentially smaller, carcinomas (which may shed BRAF^V600E into the blood) may not have been tested. Another possible explanation is that there is a small volume of BRAF-mutant cells in the thyroid neoplasm that was not identified, since it was below the level of detection of the BRAF tissue testing. The blood test may be more sensitive than tissue testing. However, this is impossible to prove without testing at the tissue level (although testing at the tissue level may be limited by heterogeneity between different lesions, as discussed above). Additionally, the possibility cannot be entirely excluded that detectable circulating levels of BRAF^V600E are from an undiagnosed BRAF^V600E mutant malignancy (e.g., melanoma or colorectal adenocarcinoma), although there was no clinical documentation of such in the cohort. None of these patients has declared themselves with a secondary malignancy thus far, although small PTC can be indolent. Lastly, it is also possible that there is a false-positivity rate or noise with the assay at low or absent BRAF^V600E concentrations that will not be overcome until technical and analytical validation is formally completed, which is the subject of ongoing work. As with other biochemical assays, a functional sensitivity threshold will need to be established. The change from before to after treatment will likely be the most useful metric to follow.

Recently, several commercial BRAF^V600E assays, originally designed for and validated on FFPE samples, have been investigated for use with circulating tumor DNA isolated from the blood of patients with melanoma, including the PrimePCR™ ddPCR™ BRAF^V600E pV600E Mutation Assay (Bio-Rad, Hercules, CA), the therascreen CRGQ PCR Kit (Qiagen, Hilden, Germany), the Idylla™ BRAF^V600E mutation test (Biocartis, Mechelen, Belgium), the PNA Clamp™ BRAF^V600E Mutation Detection Kit (Panagene, Daejeon, Korea), and the ctBRAF^V600E Mutation Detection Kit (Entrogen, Woodland Hills, CA) (42 –48). Kim et al. (45) were the first to adopt the use of the TaqMan^® (castPCR™) BRAF^V600E Mutation Detection Assay (Life Technologies, Carlsbad, CA) in the plasma of patients with PTC. The present assay detects BRAF^V600E amid excess wild-type BRAF with high sensitivity (28,29). The use of RNA with exponentially higher copy numbers of BRAF^V600E mRNA as well as digestion of BRAF^wt enhances the sensitivity of the assay, which is a potential advantage over the DNA-based techniques described above.

Blood-based BRAF^V600E detection has several clinical applications. Unlike tissue mutational testing, in which results are qualitative and binary, this assay allows quantitative, serial measurements of circulating BRAF^V600E , and levels are responsive to treatment. The ability to test circulating BRAF^V600E levels during treatment with BRAFi and other targeted therapies to assess response to treatment and prediction of re-differentiation would be of great value in guiding therapy. Recent work has shown the BRAFi (dabrafenib) treatment in RAI-refractory patients can lead to re-differentiation and subsequent RAI uptake in some tumor lesions (32). Partial response was also seen in a Phase II trial with the BRAFi vemurafenib in 10/26 patients with metastatic or unresectable RAI-refractory PTC (49). More recent work in two other Phase II trials using combinations of BRAFi and MEKi has shown high response rates in BRAF^V600E RAI refractory PTC and BRAF^V600E ATC patients (50,51), and one Phase I trial of dabrafenib and LAP was well tolerated in BRAF^V600E thyroid cancer patients (52). The ability to test circulating BRAF^V600E levels during treatment with BRAFi to assess response to treatment (surgical, RAI, and systemic therapy) and as an early marker of recurrence could be of great value.

In summary, this study reports the correlation of RNA blood BRAF^V600E levels with surgical and medical management of patients with PTC. This builds on prior work showing that the assay has good correlation (AUC 0.71) with tissue BRAF^V600E testing (28). In a murine model of BRAF^V600E -mutant ATC, blood BRAF^V600E levels correlate with tumor volume in animals and correlate with clinical response to BRAFi. The study also reports a significant decline in levels following initial surgery for curative intent. While it is challenging to make conclusions in the heterogeneous population of patients with metastatic or poorly differentiated thyroid carcinomas receiving targeted therapies, a subset of patients was found who showed a decline in blood BRAF^V600E levels following therapy that corresponded with radiographic evidence of partial response or stable disease. It is possible that this blood assay may work best for patients with BRAF^V600E -mutated tumors who have high baseline levels and are undergoing specific targeted therapies that work on reducing MAPK signaling. This assay represents an alternative biomarker in patients with anti-TgAb, and tumors, which do not express Tg. This is important, since no other biomarker exists for this group of patients and standard radiologic means of measuring tumor responses such as RECIST are less reliable in thyroid cancer. Finding a reliable assay that can provide early information into the therapeutic effect at the tumor cell level by measuring the RNA expression of the tumor cells in the blood can be an important tool that the medical oncologists can use to gauge a response to a targeted therapy.

Footnotes

Acknowledgments

This work was supported by the following: National Institutes of Health/National Cancer Institute Grant CA177900, The Claflin Foundation at Massachusetts General Hospital, and American Thyroid Association/ThyCa Research Grant (C.L.); The NIH National Cancer Institute (R01CA149738-01A1), Ruane Fund for Thyroid Cancer Research (S.P.); Conquer Cancer Foundation and the Clinical Investigator Training Program, Harvard Medical School and Massachusetts Institute of Technology (R.S). National Institutes of Health—Training Program in Endocrinology (5T32DK00702842; B.G.).

Author Disclosure Statement

The authors declare no potential conflicts of interest.

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Circulating BRAF V600E Levels Correlate with Treatment in Patients with Thyroid Carcinoma

Abstract

Background:

Methods:

Results:

Conclusions:

Introduction

Materials and Methods

Orthotopic murine model of human ATC

Patient selection

Blood BRAFV600E assay protocol

Tissue-based BRAFV600E analysis

Tg assay

Statistical analysis

Results

Circulating BRAFV600E levels correlate with tumor response after treatment with BRAFi in an orthotopic murine model of ATC

Patient cohort characteristics

Testing characteristics

Blood BRAFV600E levels decline following initial surgical treatment for PTC

Blood BRAFV600E levels before and after surgical treatment for locally recurrent PTC

Blood BRAFV600E levels before and after initiation of targeted therapies

Discussion

Footnotes

Acknowledgments

Author Disclosure Statement

References

Blood BRAF^V600E assay protocol

Tissue-based BRAF^V600E analysis

Circulating BRAF^V600E levels correlate with tumor response after treatment with BRAFi in an orthotopic murine model of ATC

Blood BRAF^V600E levels decline following initial surgical treatment for PTC

Blood BRAF^V600E levels before and after surgical treatment for locally recurrent PTC

Blood BRAF^V600E levels before and after initiation of targeted therapies