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Distinct Clinicopathological Patterns of Mismatch Repair Status in Colorectal Cancer Stratified by KRAS Mutations

  • Wenbin Li ,

    Contributed equally to this work with: Wenbin Li, Wenxue Zhi

    Affiliation Department of pathology, Cancer Hospital, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing, China

  • Wenxue Zhi ,

    Contributed equally to this work with: Wenbin Li, Wenxue Zhi

    Affiliation Department of pathology, Cancer Hospital, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing, China

  • Shuangmei Zou,

    Affiliation Department of pathology, Cancer Hospital, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing, China

  • Tian Qiu,

    Affiliation Department of pathology, Cancer Hospital, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing, China

  • Yun Ling,

    Affiliation Department of pathology, Cancer Hospital, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing, China

  • Ling Shan,

    Affiliation Department of pathology, Cancer Hospital, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing, China

  • Susheng Shi ,

    jmying@hotmail.com (JY); shishusheng@sina.com (SS)

    ‡ These authors also contributed equally to this work.

    Affiliation Department of pathology, Cancer Hospital, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing, China

  • Jianming Ying

    jmying@hotmail.com (JY); shishusheng@sina.com (SS)

    ‡ These authors also contributed equally to this work.

    Affiliation Department of pathology, Cancer Hospital, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing, China

Distinct Clinicopathological Patterns of Mismatch Repair Status in Colorectal Cancer Stratified by KRAS Mutations

  • Wenbin Li, 
  • Wenxue Zhi, 
  • Shuangmei Zou, 
  • Tian Qiu, 
  • Yun Ling, 
  • Ling Shan, 
  • Susheng Shi, 
  • Jianming Ying
PLOS
x

Abstract

In sporadic colorectal cancer (CRC), the BRAFV600E mutation is associated with deficient mismatch repair (MMR) status and inversely associated with to KRAS mutations. In contrast to deficient MMR (dMMR) CRC, data on the presence of KRAS oncogenic mutations in proficient MMR (pMMR) CRC and their relationship with tumor progression are scarce. We therefore examined the MMR status in combination with KRAS mutations in 913 Chinese patients and correlated the findings obtained with clinical and pathological features. The MMR status was determined based on detection of MLH1, MSH2, MSH6 and PMS2 expression. KRAS mutation and dMMR status were detected in 36.9% and 7.5% of cases, respectively. Four subtypes were determined by MMR and KRAS mutation status: KRAS (+)/pMMR (34.0%), KRAS (+)/dMMR (2.9%), KRAS (-)/pMMR (58.5%) and KRAS (-)/dMMR (4.6%). A higher percentage of pMMR tumors with KRAS mutation were most likely to be female (49.0%), proximal located (45.5%), a mucinous histology (38.4%), and to have increased lymph node metastasis (60.3%), compared with pMMR tumors without BRAFV600E and KRAS mutations (36.0%, 29.3%, 29.4% and 50.7%, respectively; all P < 0.01). To the contrary, compared with those with KRAS(-)/dMMR tumors, patients with KRAS(+)/dMMR tumors demonstrated no statistically significant differences in gender, tumor location, pT depth of invasion, lymph node metastasis, pTNM stage, and histologic grade. This study revealed that specific epidemiologic and clinicopathologic characteristics are associated with MMR status stratified by KRAS mutation. Knowledge of MMR and KRAS mutation status may enhance molecular pathologic staging of CRC patients and metastatic progression in CRC can be estimated based on the combination of these biomarkers.

Introduction

Colorectal cancer (CRC) is a heterogenous disease evolving from diverse genetic pathways and an accurate assessment of cancer based on tumor features would permit personalized cancer treatment [1,2,3]. Currently, anatomic and pathologic staging is still the most accurate predictor of patient outcome [4]. The discovery and validation of genetic markers determining the efficiency of metastatic progression of CRC is therefore an important area of research, with the potential value of defining the subset of patients at highest or lowest risk of relapse. One of the promising molecular markers investigated in CRC is the presence of tumor microsatellite instability (MSI) [5,6,7,8].

CRC is generally divided into two well-known molecular pathways, including the chromosomal instability (CIN) pathway and the microsatellite instability (MSI) pathway. MSI is the result of deficient DNA mismatch repair (dMMR) [9]. A germline mutation in one of the MMR genes, including MLH1, MSH2, MSH6 or PMS2, is the cause of dMMR in patients with Lynch syndrome, which is an inherited disorder that increases the risk of developing CRC [10,11]. Deficient MMR is also observed in 10% to 20% of patients with sporadic CRC, of which the majority of dMMR tumors are due to hypermethylation of MLH1 gene promoter, with MSH2 and MSH6 accounting for a smaller percentage [5]. Sporadic dMMR tumors, but not Lynch syndrome, frequently carry the activating somatic V600E mutation in the exon 15 of the BRAF oncogene [12,13,14]. Both sporadic and Lynch syndrome-associated tumors with dMMR status have distinct clinicopathologic features, such as preferential location in the proximal colon, prominent lymphocytic infiltrate, mucinous or signet ring differentiation, and association with a favorable prognosis. Data from the PETACC-3 trail reported that tumor specimens with dMMR status are more common in stage II disease than in stage III disease (22% vs 12%, P < 0.001) and with a percentage of 3.5% in stage IV tumors. These results indicate that dMMR tumors have a decreased likelihood to metastasize and suggest a more favorable outcome [9,15].

The Ras/Raf/MEK/ERK kinase cascade is involved in the control of cell proliferation, cell survival and invasion in CRC cancer cells [16]. KRAS is mutated in 35%-40% CRC and mutation of the KRAS protooncogene is an early event in development of these cancers, exerting a strong influence on the growth of colonic polyps and early cancers [17,18]. Robust evidence suggests the predictive value of KRAS mutation in metastatic CRC treated with anti-EGFR targeted therapy [19,20]. However, the clinical significance of KRAS mutation as a prognostic marker is controversial. Some studies reported no association with survival, whereas others suggested that patients with KRAS mutated tumors have poorer outcome for any mutation subtype [21,22,23,24].

The association of MMR status, KRAS and BRAF mutations on clinical outcome are frequently documented. However, development of a more accurate prediction on clinical outcome using biomarker combinations remains a worthy area of investigation. Furthermore, in contrast to dMMR CRC, data on the presence of KRAS oncogenic mutations in proficient MMR (pMMR) CRC and their relationship with tumor progression are scarce. The aim of this study was to evaluate the prognostic role of MMR status in combination with KRAS mutations in 913 Chinese patients and characterize the specified subtypes with respect to clinicopathologic features.

Materials and Methods

Study population

Patients with resected, histologically proven CRC were eligible. The clinicopathological records of 913 patients with corresponding paraffin-embedded materials available for molecular analysis were retrospectively collected from the Department of Pathology, Cancer Hospital, Chinese Academy of Medical Sciences, Beijing, China from 2011 to 2013. A central pathology review was performed. Stratification factors included: number of metastatic regional lymph nodes (N1: 1–3 vs N2: ≥4), histologic grade (G1-2: well/moderately differentiated vs G3: poorly differentiated/ undifferentiated), tumor diameter, pT classification, histological subtype, tumor location, tumor size as well as the pTNM stage. The pTNM staging system of the 7th edition AJCC cancer staging was used. Evaluation of M stage was mainly according to confirmed pathological results and/or radiological data. Proximal tumor site included cecum, ascending, hepatic flexure and transverse colon; distal site included splenic flexure, descending and sigmoid colon. Mucinous differentiation in the tumor was defined by the presence of pools of extracellular mucin-containing clusters of carcinomatous cells. When > 50% of analyzed tumor demonstrated mucinous differentiation, the tumor was classified as mucinous carcinoma. The study was approved by the Institute Review Board of the Cancer Hospital, Chinese Academy of Medical Sciences. Each participant signed an Institutional Review Board approved informed consent in accordance with current guidelines.

KRAS and BRAFV600E mutation analysis

Assessment of KRAS and BRAF V600E mutational status was performed in the Molecular Pathology Laboratory of the Department of Pathology, Cancer Hospital, CAMS, using appropriate quality control procedures. Mutation status was determined using genomic DNA extracted from macrodissected formalin-fixed, paraffin-embedded tumor tissue. Both KRAS (codons 12 and 13) and BRAF (p.V600E) mutation tests were performed using a multiplex allele-specific PCR-based assay (ACCB, Beijing, China), together with the Stratagene Mx3000P (Agilent Technologies Inc, Santa Clara, CA), which assesses seven different potential mutations in KRAS codons 12 and 13 (Gly12Ala, Gly12Asp, Gly12Arg, Gly12Cys, Gly12Ser, Gly12Val, and Gly13Asp). Neither KRAS nor BRAFV600E mutated tumors were designated as wild-type KRAS subtype.

DNA mismatch repair proteins expression

MMR protein (MLH1, PMS2, MSH2 and MSH6) expression was performed as a routine practice in our pathological department. All samples were stained in an autostainer (Autostainer Link 48, Dako, Denmark). Four μm thick tissue sections were deparaffinized in xylene, rehydrated in graded alcohol and washed in distilled water. Ready-to-use primary mouse monoclonal antibodies included MLH1 antibody (ES05, Dako) and MSH2 antibody (FE11, Dako). Ready-to-use primary rabbit monoclonal antibodies included MSH6 antibody (EP49, Dako) and PMS2 antibody (EP51, Dako). MMR protein loss was defined as absence of nuclear staining in tumor cells but positive nuclear staining in normal colonic epithelial cells and lymphocytes. Tumors were designated as dMMR status if loss of at least one MMR protein was detected and pMMR if all proteins were intact.

MLH1 promoter methylation analysis

All DNA specimens were subjected to bisulfite modification using the EZ DNA Methylation Kit (Zymo Research, CA, USA) according to the manufacturer instructions. One μg of genomic DNA from each sample was bisulfite converted and eluted in 18μl elution buffer. Methylation-specific PCR (MSP) was conducted as previously described [25]. The primers used for this analysis were: 5’-AAT TAA TAG GAA GAG CGG ATA GC-3’ and 5’-CCT CCC TAA AAC GAC TAC TAC CCG-3’ for methylated MLH1 promoter and 5’-TGA ATT AAT AGG AAG AGT GGA TAG T-3’ and 5’-TCC CTC CCT AAA ACA ACT ACT ACC CA-3’ for unmethylated MLH1 promoter. MSP PCR primer specificity was confirmed as they did not amplify non-bisulphite-treated genomic DNA templates, and the MSP products of several primary tumors have been confirmed by direct sequencing with BigDye v3.1 (Applied Biosystems), indicating that our MSP system is specific.

Statistical analysis

The primary objective of this study was to identify distinct clinicopathologic features associated with MMR status and KRAS mutation. Logistic regression models were used to detect associations of these characteristics with each of the KRAS mutations and MMR status. Kruskal-Wallis and χ2 (or Fisher’s exact) tests were used to compare continuous and categorical variables, respectively. Univariate logistic regression models were used to further categorize and define the final covariables used for multivariable analysis. Statistical tests were two-sided, and P values of 0.05 were considered significant. For multiple comparisons, Bonferroni-adjusted P values were reported for the differences between KRAS mutation and MMR status (α = 0.05/6). Statistically significant characteristics based on univariate models were then included in multivariable models using stepwise and backwards model selection procedures. Odds ratios and their 95% confidence intervals were calculated. Statistics were carried out using SPSS software (version 16.0 of SPSS, Chicago, IL, USA).

Results

A total of the 913 cases were evaluated by immunohistochemistry (IHC) for the presence or absence of MLH1, MSH2, MSH6 and PMS2 protein expression. Of the 69 cases (69/913, 7.5%) with dMMR, 49 had an absence of protein expression for MLH1/PMS2, 9 for MSH2/MSH6, 5 for MSH6 and 6 for PMS2 alone. In order to distinct Lynch syndrome-related CRC from sporadic MSI cancers, we performed the MLH1 promoter methylation study. Among 49 cases with an absence of protein expression for MLH1/PMS2, 32.6% (16/49) cases had MLH1 promoter methylation. Of them, KRAS mutations in MLH1 methylated sporadic MSI tumors were 25% (4/16) and the mutation frequency was much lower than that of overall mutations, 36.9% (337/913) (Fig 1).

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Fig 1. Representive MSP (Methylation-specific PCR) results of MLH1 methylation in colorectal cancer with loss of MLH1/PMS2 protein expression.

https://doi.org/10.1371/journal.pone.0128202.g001

Patient and tumor characteristics with respect to the MMR status were shown in Table 1. The mean age at presentation for dMMR tumors was 53.3±12.7 years, which was younger than that of pMMR tumors (P = 0.003). Overall, tumors with dMMR were more frequently located on the proximal side of the colon (72.4% vs 18.9%, P < 0.0001) and were more likely to be poorly differentiated (34.8% vs 18.0%, P < 0.001), compared with pMMR tumors. In addition, tumors with dMMR were also significantly associated with mucinous histological subtype (63.8% vs 32.7%, P < 0.0001) and reduced lymph node metastasis (39.1% vs 54.6%, P = 0.01). There were no statistically significant differences in gender and pT stage.

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Table 1. Distributions of clinicopathologic characteristics by MMR status.

https://doi.org/10.1371/journal.pone.0128202.t001

Mutations in KRAS and BRAFV600E were mutually exclusive. There were 6 cases with dMMR tumors that harbored BRAFV600E mutations and these cases were excluded from the analysis. KRAS mutations in codons 12 and 13 were observed in 36.9% (337/913) of all tumors. A higher frequency of KRAS mutations were detected in dMMR tumors (27/69, 39.1%) compared with pMMR tumors (310/844, 36.7%), although this difference did not reach statistical significance. Of the 27 dMMR and KRAS-mutated tumors, 16 cases were defined with loss of MLH1/PMS2, 7 with MSH2/MSH6 and 4 with PMS2 alone.

Patient and tumor characteristics with respect to both the MMR and KRAS mutation status were summarized in Table 2. Of the 913 cases where both the MMR and KRAS mutation status were defined, 27 (2.9%) cases with dMMR were KRAS (+) and 42 (4.6%) were KRAS (-), whereas 310 (34.0%) cases with pMMR were KRAS (+) and 534 (58.5%) were KRAS (-). Among these four groups, significant differences were observed for gender {KRAS (+)/dMMR cases more likely to be male, P < 0.0001}, age {KRAS (+)/dMMR more likely to have a younger age at diagnosis of disease, P = 0.0001}, grade {KRAS (-)/dMMR more likely to have lower grade disease, P = 0.002}, tumor location {KRAS (+) and KRAS (-)/dMMR cases more likely to be located in the proximal colon, P < 0.0001}and lymph node metastasis {KRAS (+)/pMMR cases more likely to have higher pN stage, P = 0.004}. However, no differences were noted in the pT stage among these four groups.

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Table 2. Clinicopathological characteristics by KRAS mutation status and MMR status.

https://doi.org/10.1371/journal.pone.0128202.t002

When compared with those with KRAS(-)/pMMR tumors, patients with KRAS(+)/pMMR tumors were most likely to be female (49.0% vs 36.0%; OR = 1.85; 95% CI = 1.39 to 2.46; P < 0.0001), to be proximal located (45.5% vs 29.3%; OR = 2.00; 95% CI = 1.30 to 3.08; P = 0.002), to have a mucinous histology (38.4% vs 29.4%; OR = 1.50; 95% CI = 1.11 to 2.01; P = 0.007), and to have increased lymph node metastasis (60.3% vs 50.7%; OR = 1.48; 95% CI = 1.11 to 1.96; P = 0.007) (Table 3). To the contrary, compared with those with KRAS(-)/dMMR tumors, patients with KRAS(+)/dMMR tumors demonstrated no statistically significant differences in gender, tumor location, pT depth of invasion, lymph node metastasis, pTNM stage, and histologic grade. However, the mean age at presentation for KRAS(+)/dMMR tumors was 51.051.051.0 presentation for s,n, than that of KRAS(-)/dMMR tumors (P = 0.001).

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Table 3. Univariate logistic regression model associations between KRAS mutation status and MMR status.

https://doi.org/10.1371/journal.pone.0128202.t003

In the analysis using multivariable logistic regression models, we reviewed clinicopathologic characteristics in Table 4. As shown multivariably, tumors with KRAS(+)/pMMR were statistically associated with proximal location, mucinous histology and increased lymph node metastasis.

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Table 4. Multivariate logistic regression model associations between patient, tumor and KRAS or BRAFV600E mutation status.

https://doi.org/10.1371/journal.pone.0128202.t004

Discussion

Defining tumor subtypes of CRC based on pathway-driven alterations has the potential to improve prognostication and guide targeted therapy. Distinct clinical and pathological features of CRC with different MMR status have long been identified [6,26,27,28]. In this study, we demonstrated molecular and clinicopathological features of pMMR and dMMR tumors stratified by KRAS mutation status in a large cohort of consecutive Chinese CRC patients. Proficient MMR tumors that were nonmutated for KRAS and BRAFV600E were the most prevalent subtype and represented 58.5% (534/913) of our study cohort. Compared with this subtype, patients with KRAS(+)/pMMR tumors were more common in the proximal colon and to have a mucinous histology. Most importantly, patients with KRAS(+)/pMMR tumors showed increased lymph node metastasis among four subtypes and may have worse survival rate.

Consistent with the previous findings, our data suggest that tumors with dMMR status often exhibit poor differentiation, mucinous cell type, proximal location and reduced lymph node metastasis. In addition to its role in identifying unique pathological features of CRC, dMMR status has also been used as a prognostic marker and the guidance for Fluorouracil-based adjuvant chemotherapy [8]. Recent evidence indicated that CRC could be further classified into five prespecified subtypes using a biomarker combination of KRAS and BRAFV600E mutations, MMR status and MLH1 methylation with statistically significant differences in clinicopathologic features and patient survival rates [29]. Thus, a biomarker-based classifier provides important prognostic information in CRC with implications for patient management. Evidence from other reports supported the idea that KRAS mutation and MMR status are genetic markers that arise early and remain biologically relevant throughout all stages of tumor progression [30,31]. In addition, KRAS mutations found in primary tumors are preserved in recurrences and metastases. Consequently, we evaluated the prespecified tumor subtypes with respect to clinicopathologic features in biomarker combinations of KRAS mutations and MMR status.

Deficient MMR cancers typically originate in the proximal colon [15]. As expected, the vast majority of dMMR tumors in this study (72.4%) were from the proximal colon and this distribution was not influenced by KRAS mutations. Although most of the pMMR tumors were not likely to be proximal located, it is interesting that when pMMR tumors stratified by KRAS mutations, KRAS mutant tumors (20.9% proximal) were more likely to be proximal compared to KRAS(-)/pMMR tumors (14.7% proximal). Traditionally, colon cancers developed in the proximal bowel often created an environment in which CIMP (CpG Island Methylator Phenotype) is more likely to arise, and this synergizes with BRAF mutation to allow progression of serrated polyps [32]. However, recent evidence suggested that KRAS mutations could also be found in CIMP high and CIMP low tumors which were often located in the proximal colon [33]. This indicated that there were more comprehensive mechanisms underlying the location of colon cancer and the mutational profiles. Mucinous carcinoma is diagnosed when at least 50% of the tumor comprises secretory mucin and is often associated with dMMR status and serrated adenocarcinoma [34]. This is consistent with our finding that dMMR tumors demonstrated more mucinous differentiation than pMMR tumors (63.8% vs 32.7%). However, when stratified by KRAS mutation status, we observed that pMMR tumors with mutant KRAS phenotype exhibited more mucinous differentiation than wild type KRAS subtype (38.4% vs 29.4%). This is largely because KRAS mutation is not only linked to conventional adenomas but also associated with serrated adenomas in the development of colorectal cancer [35].

A significant association was found between the presence of lymph node metastases and pMMR tumors stratified by KRAS mutation status. Our findings revealed that pMMR tumors with KRAS mutation demonstrated more positive lymph nodes and pTNM III-IV stage of disease than tumors with KRAS(-)/pMMR status. This is consistent with findings from a smaller report, which demonstrated that the frequency of KRAS mutations was higher in pMMR lymph node positive tumors as compared to pMMR lymph node negative tumors [36,37]. Our results indicate that the majority of pMMR tumors needed KRAS mutation to be able to metastasize and this activation was crucial for neoplastic cells to acquire invasive potential. Mutations in KRAS oncogene lead to alterations in encoded amino acids adjacent to the GTP binding pocket and reduced the GTPase activity of KRAS protein after guanine nucleotide activating protein (GAP) binding [38]. Both in vitro and in vivo experimental models, transfection of mutated, constitutively active forms of KRAS oncogene into previously noncancerous cells can lead to invasive and metastatic phenotypes. Ectopic expression of active KRAS in the murine NIH 3T3 fibroblast cell line resulted in increased invasion and acquisition of metastatic properties [39]. Using tail vein injection of transformed cells, in vivo models were observed by liver and lung metastasis [40]. In addition to the evidence obtained from cell and animal experiments, clinical studies have also displayed significant lymph node metastasis in KRAS(+)/pMMR tumors [36,41]. Gene expression profiling reveals that genes involoving epithelial mesenchymal transition and matrix remodeling that can facilitate tumor invasion and metastasis are up-regulated in mutant KRAS-pMMR tumors [42]. Consequently, KRAS oncogenic activation was shown to be an important mediator of tumor cell invasion and metastasis in pMMR tumors.

The frequency of KRAS mutations in Lynch syndrome-related CRC and sporadic CRC is almost the same. However, KRAS mutations are significantly more frequent in Lynch syndrome-related CRC than that in sporadic MSI-H CRCs [37,43]. Lynch syndrome-related CRC tend to be early-onset and proximal location. So this may explain the younger age and proximal location observed in KRAS+/MSI tumors. Despite these positive findings, our study has some limitations. First, because this is a retrospectively study, it is hard to collect the blood or saliva sample from patients to detect germline mutations to further distinguish the Lynch syndrome-related CRC from sporadic cancer. So we could not calculate the precise frequency of KRAS mutations in hereditary CRCs, however, it is sure that the Lynch syndrome-related CRC in our study showed preferentially KRAS mutations. Second, we did not examine other less common mutations in KRAS codons 61, 117 and 146, which also contributed to the oncogenic transformation of tumor cells.

This study suggests that specific epidemiologic and clinicopathologic characteristics are associated with MMR status stratified by KRAS mutation in CRC. Knowledge of MMR and KRAS mutation status may enhance molecular pathologic staging of CRC patients and metastatic progression can also be estimated based on the combination of these biomarkers. Validation of additional genetic biomarkers will help to refine management decisions for individual patients based on tumor biology. Importantly, this may also aid the development of novel therapeutic targets to aid treatment of these aggressive cancers.

Acknowledgments

We thank all study participants of the Department of Pathology for their contributions to this project. This work was supported by a grant from Youth Backbone Program (to Jianming Ying) of Cancer Hospital, CAMS, Beijing, China, the Natural Basic Research Program of China (973 program 2014CB542002) and the National Natural Science Foundation of China (81401984).

Author Contributions

Conceived and designed the experiments: JMY SSS. Performed the experiments: WBL WXZ YL LS SMZ. Analyzed the data: WBL SMZ. Contributed reagents/materials/analysis tools: QT WXZ. Wrote the paper: WBL JMY.

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