KRAS, BRAF genotyping reveals genetic heterogeneity of ovarian borderline tumors and associated implants

In total 15 patients (Table 1), that had undergone surgery at the Department of Obstetrics and Gynecology of the Ludwig-Maximilians-University of Munich due to a suspected ovarian tumor between 2003 and 2009, were included in this study. All patients were diagnosed for either uni (n = 9)- or bilateral (n = 6) s-BOTs and concomitant implants. One up to 19 implants (total number: n = 49) were identified in each patient. Patient age at surgery ranged between 22 and 75 years (median = 46 years). Histological diagnoses according to the FIGO criteria were conducted at the Department of Pathology of the Ludwig-Maximilians-University of Munich by two experienced gynecological pathologists. All tumors were of serous histology and were staged analogically to invasive carcinomas of the ovary. Five patients were classified as FIGO II, while the remaining 10 patients were staged as FIGO III.

All implants were non-invasive according to the WHO criteria and presented with serous histology. In four cases the patient had one implant, in six cases two and in the remaining cases three or more. Differentiation between non-invasive and invasive implants was performed according to criteria of the WHO [10] by two experienced gynecological pathologists at the Department of Pathology of the Ludwig-Maximilians-University of Munich. According to the WHO, the diagnosis of non-invasive implants was performed when they were typically localized on the surface, in submesothelial spaces or with extension into interlobular fibrous septa without infiltration of the underlying tissue. In contrast, diagnosis of invasive implants was made when the lesions disorderly infiltrated the normal tissue with irregular borders and showed nuclei resembling cells of low-grade serous adenocarcinoma.

Follow up data of all patients were available and retrieved from the Munich tumor registry. As of September 2013 three patients from the cohort had already died at the age of 78 years, 75 years and 73 years. Since just one of these deaths was reported as being cancer related, the remaining two cases were excluded from survival analysis. Mean follow up was 4.8 years (95% CI = 3.5 years - 6.2 years) and the only cancer related death was observed in a woman that died at the age of 78 (2.6 years after surgery).

The study was approved by the ethics committee of the LMU of Munich. Patients’ data and samples were anonymized and processed in compliance with the guidelines of the Helsinki Declaration of 1975.

Sections of standard paraffin-embedded tissue were stained for p53 (ThermoScientific, Munich, Germany and p16 (CINtec®Histology, Roche, Mannheim, Germany using Ventana Benchmark® XT (Roche) in an automatic manner. The signal was quantified using a semi quantitative method [27] by two independent observers by consensus. At a glance the immuno-reactive (IR)-score quantifies intensity (1 = low, 2 = moderate, 3 = strong) and percentage of stained cells (0 = no, 1 = less than 10%, 2 = 10%-50%, 3 = 51%-80%, 4 = 81%-100%). Multiplication of these scores results in the IR-score ranging from 0 to 12. In this study the IR-score was subdivided as follows: IRS = 0, IRS = 1, IRS = 2 - negative; IRS = 3, IRS = 4 - weakly positive; IRS = 6, IRS = 8 - moderately positive; IRS = 9, IRS = 12 - strongly positive.

Hot spot mutations in KRAS exon 2 and BRAF exon 15 were analyzed. For each s-BOT/implant sequencing analysis of KRAS and BRAF was done on the same anatomically micro-dissected tumor/implant sample. KRAS/BRAF genotyping was performed by PCR and direct sequencing in a German reference laboratory for KRAS mutation testing (Department of Pathology, LMU of Munich). All tumors/implants underwent micro-dissection, followed by DNA isolation using DNA Micro-Amp-kits (Qiagen, Hilden, Germany) according to the manufacturer’s protocol. Mutation testing in codons 12 and 13 of the KRAS proto-oncogene was done by pyrosequencing employing Qiagen’s PyroMark GoldVR kits together with a Q24 pyrosequencer device (Qiagen). This procedure was used to detect mutations in the KRAS proto-oncogene with a specificity of 0.98 and sensitivity of 0.99 [28, 29].

Following DNA isolation BRAF exon 15 was amplified [PCR buffer, 1.5 mM MgCl₂, 200 nM dNTPs, 400 nM primers, 1 U Hotstar Taq-polymerase (Qiagen)] using the following primers: forward 5’-TGAAGACCTCACAGTAAAAATAGG-3’, reverse 5’- TCCAGACAACTGTTCAAACTGAT-3’. PCR products were processed using Pyro-Gold kits (Qiagen) together with 3 nM of the corresponding sequencing primer employing the PyroMark Q24 device (Qiagen). The PyroMark™-Q24 software (Qiagen) was used for data analysis.

For all statistical calculations Superior Performance Software System 19 was used. Wilcoxon Signed Ranks Test, Mann–Whitney U Test and the Spearman correlation coefficient were employed to analyze data. Values are displayed in terms of mean ± standard error and p-values lower than 0.05 were considered as statistically significant.

None of the s-BOT samples examined was rated as highly (IRS > 8) positive for p53. Less than half of all patients were found to carry at least one s-BOT rated as either weakly (n = 5; 5/15; 33.3%) or moderately (n = 2; 2/15; 13.3%) positive for p53 and in eight (8/15; 53.3%) cases p53 was not detected at all. In contrast, p16 was abundantly expressed with the majority of patients showing up to strong (n = 4; 4/15; 26.7%), up to moderate (n = 5; 5/15; 33.3%) or at least weak (n = 4; 4/15; 26.7%) p16 positivity. Consequently, the overall immunoreactivity level for p16 was significantly higher (mean IRS = 6.0 ± 0.8 vs. mean IRS = 2.5 ± 0.4; p = 0.001) than for p53. Immunoreactivity of p53 and p16 (Figure 1) did not correlate and none of the both was significantly associated with clinical tumor staging.

Immunohistochemical analysis of p53 in implants (Figure 1) revealed strong p53 positivity in one (1/49; 2.0%), moderate in another one (1/49; 2.0%) and weak in nine (9/49; 18.4%) implant samples. In terms of patients, only one patient was identified with an implant strongly expressing p53. This patient (#3 in Table 1, Additional file 1) presented with an implant also strongly expressing p16. Further this implant was found to carry both KRAS p.G12D and BRAF p.V600E at the same time. Moreover another seven patients showed either up to moderate (one patient with moderate p53 expression in one implant) or up to weak (six patients with at least one weakly stained implant in each patient) positivity for p53, respectively. No p53 positive implant at all could be identified in the remaining seven cases. Yet again overall immunoreactivity for p53 was significantly lower than for p16 (mean IRS = 1.7 ± 0.3 vs. mean IRS = 5.4 ± 0.6; p < 0.001), though regarding implants expression of the two correlated (p = 0.032). About one third (15/49; 30.6%) of implants was found to be negative for p16. Twelve implants were weakly positive (12/49; 24.5%) for p16, while 22 (22/49; 44.9%) implant samples were identified as highly or moderately expressing p16, respectively. In respect to patients, nine (9/15; 60.0%) of them were diagnosed with at least one implant overexpressing p16.

KRAS/BRAF genotypes were determined by pyrosequencing in s-BOTs and implants (Figure 2). Regarding the ovarian primary the BRAF variant p.V600E was observed in at least one ovary of about half of all patients (8/15; 53.3%) while KRAS alterations (p.G12V, p.G12D, p.G12A) were detected in six patients (6/15; 40.0%; Table 1). Just one patient with a bilateral s-BOT did not show either KRAS or BRAF mutation. A combined KRAS-BRAF mutation in the same s-BOT was detected in three patients (3/15; 20.0%) while another patient was identified with single KRAS p.G12V in the s-BOT of the left ovary and single BRAF p.V600E in the s-BOT of the right ovary. BRAF or KRAS mutated tumors were not significantly different in respect to their p53, p16 immunophenotype. Moreover, no relation of KRAS or BRAF mutation and clinical tumor stage was observed.

When implants were analyzed, about one third (16/49, 32.7%) of all implant samples presented a single point mutation in codon 12 of the KRAS gene (p.G12V: 13/49, 26.5%, p.G12D: 2/49, 4.1%, p.G12A: 1/49, 2.0%). The BRAF sequence variation p.V600E was detected in 15 (15/49, 30.6%) implant samples. Regarding total implant count (n = 49) a co-existing KRAS and BRAF mutation per sample was detected in 4 (4/49, 8.2%) implants. BRAF mutated implants showed a trend (p = 0,057) of higher overall p16 immunoreactivity though no such relation was observed for p53.

Patient wise five patients (5/15, 33.3%) were found to carry a KRAS mutation in at least one implant while BRAF p.V600E was detected in ten (10/15, 66.7%) patients. A coexisting mutation of KRAS and BRAF was observed in implants of four (4/15, 26.7%) patients and four (4/15, 26.7%) presented only without either KRAS or BRAF aberrations in their implants regarding the gene loci studied.

To address the question whether implants are developing alongside the ovarian primary or whether they directly spread from there, s-BOTs and their corresponding implants were compared regarding p53, p16 expression and KRAS, BRAF genotype. By contrasting s-BOT cases and their implants we found a strong correlation in terms of mean p16 (p16 [s-BOT] - p16 [implant]: p = 0.006; Table 2) but not p53 mean immunoreactivity.

Out of the 15 patients examined within this study four cases were found to show wildtype genotypes regarding both BRAF and KRAS in their s-BOTs as well as in all the implants diagnosed in these particular patients.

Four out of the six cases that had been diagnosed for a KRAS mutation of their s-BOTs presented with a matching KRAS mutation in at least one implant while a KRAS mutation different from the one found in the s-BOT was not detected. A complete match of a mutant KRAS allele in s-BOTs and all implants was just observed in a single patient that notably had only one implant at all and did not match regarding the BRAF allele. One patient in this study carried the KRAS p.G12D allele in an implant though no KRAS mutation at all was detected in the corresponding s-BOTs. Vice versa, two patients presented with a KRAS mutated s-BOT though their implants only carried the KRAS wildtype allele.

In seven out of eight patients diagnosed with a BRAF mutated s-BOT the same BRAF mutation was found in at least one implant. Notably, four of these patients (BRAF mutated s-BOT and the same BRAF mutation in at least one implant) also carried implants that were found to have a BRAF wildtype genotype. In one case BRAF p.V600E was not detected in any implant, though BRAF p.V600E was found in the s-BOT of this patient. The other way round three patients only carried BRAF mutated implant(s) though the ovarian lesion was homozygous for the wildtype allele.

In conclusion, when genotypes of BRAF/KRAS mutated s-BOTs and corresponding implants were compared no patient presented with a fully matching BRAF/KRAS mutation profile of s-BOTs and all implants observed in the particular case (Table 1).

Advanced stage IOCs are supposed to initiate from TP53 mutated ovarian surface [30] or fallopian tube [31] epithelium. As mutation in TP53 may cause its up-regulation, protein over-expression of p53 is frequently assessed [18‐21]. This study performed immunohistochemistry to determine p53 up-regulation and defined p53 overexpression for strongly positive (IRS > 8) cases. Unlike p53, the cell cycle inhibitor p16 is routinely assessed to sub-classify certain neoplastic lesions. Physiologically, p16 acts as tumor suppressor inhibiting cell cycle progression hence attenuating mitogenic effects. Cellular stress factors like for instance oncogenic activation, as mediated by HPV infection or constitutive activation of mitogenic pathways (e.g. KRAS mutation) trigger compensatory p16 up-regulation [13‐15]. This study detected a trend of higher p16 expression in BRAF mutated implants leading to the conclusion that p16 may act to attenuate BRAF induced cell cycle progression signals. When s-BOTs and their corresponding implants were contrasted regarding KRAS and BRAF mutation status. s-BOTs and implants correlated in respect of p16 expression. A significant proportion of s-BOTs and implants investigated here were negative for KRAS and/or BRAF mutation anticipating that in patients without KRAS or BRAF mutations other genetic events are likely to contribute to s-BOT development and implant formation. Regardless the fact that aberrations in KRAS and BRAF had been closely associated with development and progression of s-BOTs [32‐37], other oncogenic routes, e.g. mutation of p53, being capable to initiate malignant transformation, need to be speculated for s-BOTs carrying KRAS/BRAF wildtype alleles. Yet, regarding s-BOTs in this study neither expression of p53 nor of p16 was significantly altered comparing KRAS/BRAF mutated vs. wildtype s-BOTs. These findings lead to the conclusion that even in absence of mutated KRAS/BRAF, initiation of s-BOTs is not reliant on p53 or may necessarily alter p16 expression.

In contrast to BRAF/KRAS, mutations in TP53 are reported to be rare in s-BOTs. Comparable to others [26], this study did not detected strong immunoreactivity for p53 in any s-BOT case, confirming thus the hypothesis that s-BOTs and advanced stage IOCs arise via different genetic pathways. Unexpectedly, herein coexisting BRAF and KRAS mutations were observed. This finding is unlikely to be due to sequencing inconsistencies, as the methods employed to determine BRAF and KRAS mutation status had been intensively validated [28, 38, 39]. KRAS mutation analysis was taken out at a German reference laboratory for KRAS mutation testing at our institute. Though coexistence of mutations occurring in BRAF or KRAS has been assumed to be mutually elusive, such phenomena were recently observed in colorectal adenoma/cancer [40, 41] and ovarian malignancies [42, 43]. Implant formation is a relatively seldom event in s-BOT genesis. However, since just s-BOT patients diagnosed with concomitant implants were included in the current study, it is hard to compare our data to studies mostly reporting on BOTs in general (regardless of the diagnosis of implants). A constitutive activation of two directly coupled downstream signaling partners in the same pathway is unusual. This is why we assume that coexisting KRAS, BRAF mutations in the same s-BOT may be indicative for a secondary genetic event or may reflect a possible polyclonal origin of s-BOTs and implants.

Extraovarian lesions associated with s-BOTs are referred to as implants, which present as small nodules mostly located on the omentum and peritoneal surfaces. For other neoplasias such a spread beyond the tumor is termed metastasis, assuming that cells initiating it have originally settled there from the primary tumor. Indeed, it is widely unknown whether implants actually rise as metastasis of the primary ovarian neoplasm or whether they rather represent in situ lesions of extraovarian tissue. The latter hypothesis would presume different, distinct genetic changes characterizing implants vs. s-BOTs, indicating that they have developed independently. The current study addressed this question by comparing s-BOTs and corresponding implants regarding genetic alterations associated with initiation of ovarian tumors. Since full penetrance of either KRAS or BRAF aberrations was not observed in any patient, our data suggest that s-BOTs and implants develop independently and possibly do not derive from the same precursor lesion. Most studies undertaken so far used hyper-methylation analysis to determine tumor clonality and agree on the finding that s-BOT and corresponding implants show mono- as well as polyclonal descent [44, 45]. In contrast to IOC [46‐48] it has been suggested earlier that s-BOT are of multifocal genesis and that associated extraovarian tumors rise independently [44, 45, 49]. Accordingly, the present study strongly supports multifocal origin of s-BOTs and their associated implants as no fully matching mutation profile among s-BOTs and their corresponding implants were observed. In order to prove this, we employed state of the art mutation analysis and immune profiling. Taking into consideration that clonal descent would imply the presence of a common genetic pattern, our data prove that at least some implants may have risen independently from the ovarian malignancy diagnosed in the same patient. Statistical association of p16 immunoreactivity in implants and the corresponding s-BOT(s) may reflect the fact that p16 is regulated by external triggers like for instance virus mediated oncogenic activation or stimulation of mitogenic pathways [13‐15]. These may similarly affect both s-BOTs and implants hence provoking similar secondary events (e.g. compensatory p16 up-regulation) that not necessarily claim to be linked to s-BOT/implant origin. Since studies on the genetic descent of implants only employed small patient numbers, it is imperative to evaluate this topic on a larger scale in order to validate our conclusions.

Malignant transformation of non-invasive implants and hence worsening of clinical presentation is a process depending on time and requires a minimum 10 year follow up [3, 4] period. Due to the fact that the follow up of the cohort studied herein is relatively short, statistical survival analysis has not been performed. Nevertheless our finding that s-BOTs and associated implants are heterogeneous lesions may explain a different clinical presentation of s-BOTs and implants and might encourage to applying more individualized follow up protocols.