Introduction
Lung cancer is the most common cause of cancer death worldwide, estimated to be responsible for nearly 1.38 million cancer deaths per year [
1]. Despite improvements in the prevention and treatment of lung cancer, the overall 5-year survival rate remains at 15% [
2]. Efforts have been made to develop new treatment strategies. In recent years, rearrangements of the anaplastic large cell kinase (
ALK) gene have been discovered in approximately 5% of lung adenocarcinomas, resulting in the constitutive expression of a fusion protein - most commonly
EML4-ALK - with oncogenic activity [
3‐
7]. Crizotinib, a potent and specific small molecule inhibitor of both ALK and c-MET tyrosine kinases [
8‐
10], was approved by the Food and Drug Administration (FDA) for the treatment of non-small-cell lung cancer (NSCLC) patients with
ALK gene rearrangement (
ALK+).
The FDA-approved Vysis ALK Break Apart FISH Probe Kit (Abbott Molecular) was mandated for ALK+ testing in crizotinib trials, which in a sense indicates that FISH analysis has been clinically validated. However, the FISH detection of ALK gene rearrangement in routine surgical pathology practice remains impractical due to financial and technical problems. Theoretically, reverse transcriptase-polymerase chain reaction (RT-PCR) is a standard method for determining the fusion genes, but the requirement of fresh frozen tissue samples for extracting RNA has limited its application in clinical practice.
IHC is relatively inexpensive and faster and is performed routinely in most surgical pathology practices. Mutation-specific IHC has been demonstrated as a reliable prescreening test for detecting EGFR mutations in lung adenocarcinoma [
11]. Recently, a fully automated VENTANA ALK (D5F3) assay was developed using D5F3 primary antibody (commercialized by Cell Signaling Technology or CST) and VENTANA OptiView DAB detection for use with VENTANA automated platforms. Our group demonstrated that the sensitivity and specificity of the VENTANA ALK assay were 100% and 98%, respectively [
12]. The VENTANA ALK (D5F3) IHC assay was approved to detect
ALK rearrangement in pathology practice in the EU and some Asian countries, including China and Japan. However, the application of the VENTAMA ALK IHC assay requires a VENTANA automated platform, which is not available in most pathology labs. In this study, we applied IHC analysis using CST’s D5F3 antibody to detect
ALK rearrangement in a Chinese lung adenocarcinoma patient cohort to assess the sensitivity and specificity of IHC analysis. In the third detection method, a qRT-PCR assay (Amoy Diagnostics, Xiamen, China) approved by European Conformity (CE marking) and the China Food and Drug Administration (CFDA), was applied on formalin-fixed paraffin embedded (FFPE) samples to analyze the discordant cases of IHC and FISH.
Materials and method
Clinical materials and tissue microarray (TMA) construction
This study included 297 FFPE samples with lung adenocarcinoma diagnosed at the Cancer Institute and Hospital, Chinese Academy of Medical Sciences (CICAMS) in Beijing, between January 2009 and March 2012. Among the 297 cases, 218 were unselected and 79 cases were not effectively treated using conventional treatment.
Among the 218 unselected cases, 178 (with enough tissue) were constructed onto seven TMAs to represent biopsies. A 1.5 mm diameter core was taken from the cancer area based on hematoxylin and eosin (H&E)-stained sections of each sample. The remaining 39 unselected cases (without enough tissue) and 79 selected cases were cut into tissue sections. In the cases where tissue sections/cores fell off the slides during FISH or IHC analysis, tissue sections were re-cut. The collection of these specimens was approved by the National Cancer Center Ethics Committee.
The patients’ medical records were reviewed to obtain their clinicopathological parameters including age at diagnosis, sex, smoking history, tumor size, histological classification and pathological TNM stage.
IHC
Immunohistochemical staining was performed on 4 μm-thick FFPE tissue sections or TMAs. Briefly, the slides were deparaffinized and antigen retrieval was then performed in a steam cooker for 1.5 minutes in 1 mM EDTA, pH 9.0 (Maixin Biological Techology Co. Ltd., Fuzhou, China). ALK (D5F3) rabbit monoclonal (Cell Signaling Technology, Danvers, MA, USA) was applied at 1:150 in SigalStain antibody diluent (Cell Signaling Technology, Danvers, MA, USA) for 1 h. Universal secondary antibody (DAKO) was applied for 15 min. Diaminobenzidine or 3-amino-9-ethylcarbazole was used as chromogens and slides were counterstained with haematoxylin before mounting.
The criteria for scoring ALK were as follows. First, the intensity was graded as 0, negative; 1, weak (light brown); 2, moderate (brown); and 3, strong (dark brown). Second, the proportion of positive tumor cells was graded: 0, no positive cells; 1, <10%; 2, 11%-30%; 3, 31%-50%; 4, 51-70%; and 5, >70%. A final score was derived by adding the two primary scores. Final scores of 0 were defined as “negative expression” (−); scores of 2–5 as “weakly positive expression” (+); and scores of 6–8 as “strongly positive expression” (++).
Fully automated VENTANA ALK (D5F3) IHC analysis was performed as previously described [
12]. According to the manufacture’s scoring algorithm, a binary scoring system (positive or negative for ALK status) was adopted to evaluate the staining results. The presence of strong granular cytoplasmic staining in tumor cells (any percentage of positive tumor cells) was considered to be ALK positive while the absence of strong granular cytoplasmic staining in tumor cells was deemed to be ALK negative.
FISH
FISH was performed on 3 μm-thick FFPE tumor tissues using a break-apart probe specific to the ALK locus (Vysis LSI ALK Dual Color, Break Apart Rearrangement Probe; Abbott Molecular, Abbott Park, Illinois, USA) according to the manufacturer’s instructions. Tumor cells, the nuclei of which had one or more FISH signals of each color, were enumerated. A positive cell was defined as one in which the nucleus had split signals (two or more signal diameters apart) or a single orange signal (deleted green signal) in addition to fused and/or split signals. A sample was considered positive if >25 cells out of 50 were positive. If a sample had 5 to 25 positive cells (10 to 50%), another 50 tumor cells were counted. If the average percentage of positive cells in 100 tumor cells was <15% (<15/100), the sample was considered negative. If the average percentage of positive cells was ≥15% (≥15/100), the sample was considered positive. TMA cores with high backgrounds or very weak signals that affected the signal assessment were excluded from the analysis.
Real-time quantitative reverse transcription PCR (qRT-PCR)
The EML4-ALK fusion mRNA was detected by qRT-PCR using an AmoyDx EML4-ALK Fusion Gene Detection Kit (Amoy Diagnostics, Xiamen, China). Briefly, total RNA was extracted with an AmoyDx FFPE RNA Kit (Spin Column) from 5–10 μm-thick FFPE sections with over 70% tumor cells. For each sample, 100–500 ng of extracted RNA was used for reverse transcription into cDNA at 42°C for 1 h. Real-time PCR was then carried out in each of the four reactions of the EML4-ALK Fusion Gene Detection Kit according to the manufacturer’s protocol. Reaction 1 amplifies EML4-ALK variants 1, 2, 3a and 3b (variants 1/2/3a/3b); reaction 2 amplifies EML4-ALK variants 4 and 4′; reaction 3 amplifies EML4-ALK variants 5a, 5b, 5′ and 8 (variants 5a/5b/5′/8); and reaction 4 amplifies the reference gene beta-actin. All of the assays were performed on an Agilent Mx3000P QPCR instrument (Agilent Technologies, Santa Clara, CA). The following PCR procedure was used: an initial denaturation at 95°C for 5 min followed by 95°C for 25 s, 64°C for 20 s and 72°C for 20 s to ensure the specificity and 31 cycles of 93°C for 25 s, 60°C for 35 s and 72°C for 20 s to perform the data collection. The quantitative judgment was according to the fusion fluorescence signal. Assay reactions achieving Ct values of ≤30 cycles were considered positive for one of the variants detected by that reaction mixture. A housekeeping gene (beta-actin) was used to control the integrity of the RNA.
Statistical analysis
The statistical analysis of the tumors’ size and age was carried out using Student’s t tests. The values are shown as mean ± SD. The relationship between ALK+ and clinicopathological variables was analyzed with the chi-square test. Statistical significance was defined as p < 0.05.
Discussion
In this study, we applied IHC and FISH analyses using CST’s D5F3 antibody in a Chinese lung adenocarcinoma sample cohort. An accurate FISH analysis depends on multiple factors including fine equipment, skilled personnel, well-preserved FFPE samples, enough cancer cells, etc. In this study, two cores in TMAs were not identified with
ALK+ in initial FISH analysis due to a lack of cancer cells. Similarly, in biopsies, the numbers of cancer cells is often very limited, making an accurate FISH analysis difficult. With the IHC analysis in this study, almost all of the cancer cells in the two cores showed ALK expression, despite the fact that only a few
ALK+ cells were revealed by FISH analysis. A <100% rate of cellular positivity in
ALK+ tumors has been demonstrated to be due to the technical limitations of FISH analysis [
13]. Therefore, combining IHC and FISH analyses results in ALK status being more accurately evaluated in biopsies.
IHC analysis using CST’s D5F3 antibody has been demonstrated with 100% sensitivity [
12,
14‐
16], suggesting that IHC analysis is an effective way to prescreen patients for FISH analysis in the clinical diagnosis process [
14,
15,
17]. For IHC negative cases, FISH analysis is not necessary. In strongly positive IHC cases, FISH analysis also may not be necessary. Although there was one strongly positive IHC case, which was shown with
ALK- by FISH analysis, the VENTANA ALK assay and qRT-PCR analysis revealed ALK expression and
ALK fusion, respectively. In addition, it has been reported that the lung cancer patient with IHC-positive and FISH-negative ALK had a dramatic response to crizotinib [
18]. Therefore, the patient in our case may benefit from crizotinib.
Weakly positive IHC cases must be carefully examined. In this study, 7 out of 12 (58.3%) weakly positive cases were discordant with FISH analysis. Using the VENTANA ALK IHC assay, three out of the seven weakly positive cases showed ALK expression and could be treated with crizotinib. Using qRT-PCR analysis, five out of the seven weakly positive cases showed
ALK fusion at the RNA level. Therefore, there were two cases in which the qRT-PCR analysis result was discordant with the VENTANA ALK IHC assay. Compared to negatively expressed ALK cases without any staining (Figure
1I), these two cases were indeed weakly stained in cancer cells using the VENTANA ALK IHC analysis (Figure
1H). However, according to the VENTANA ALK IHC assay scoring algorithm, the weak staining in these two cases was regarded as unspecific and thus considered negative. Although qRT-PCR analysis demonstrated
ALK fusion in these two cases, it was detected in a very late stage of the qRT-PCR process. We speculated that the percentage of tumor cells with
ALK fusion might be very low in these two cases. However, with very high sensitivity (1 in 100 DNA), they would still be detected by qRT-PCR analysis. Whether these two patients would benefit from crizotinib was difficult to predict, as no relevant study has been reported. Further study is required.
Previous reports have shown that
ALK+ lung cancers are characterized by younger patients, non-smokers or light smokers when compared with
ALK- patients [
6,
7,
19‐
23]. In this study, the
ALK+ patients were significantly younger and more likely to have lymph node metastasis compared to
ALK- patients. However,
ALK+ and
ALK- lung adenocarcinomas showed no difference in sex, smoking habit, tumor size, pT, M factors or pathologic TNM stage. The screening was limited in this study to the lung adenocarcinomas of Chinese patients. There may be an underlying difference in the subject population by race and clinical characteristics.
In conclusion, with advantages such as a low cost and 100% sensitivity, IHC with CST’s D5F3 antibody can serve as a robust diagnostic tool with which to routinely screen lung adenocarcinoma patients with ALK+ in pathology labs that do not have access to VENTANA automated IHC platforms. For weakly expressed ALK cases, qRT-PCR analysis, especially when applied on FFPE samples, is suggested as a diagnostic test for ALK fusion detection.
Competing interest
The author’s declared that they have no competing interest.
Authors’ contributions
Study concept and design: DL, LS, JY. Analysis and interpretation of data: LS, FL, LG, XY. Drafting of the manuscript: LS, FL, DL. All authors have read and approved the final manuscript.