Novel intergenic KIF5B-MET fusion variant in a patient with gastric cancer: A case report

Zhi-Wei Wu, Yu Sha, Qing Chen, Juan Hou, Yan Sun, Wang-Kun Lu, Jing Chen, Li-Jiang Yu

Zhi-Wei Wu, Qing Chen, Juan Hou, Yan Sun, Wang-Kun Lu, Li-Jiang Yu, Department of Oncology,The Seventh Affiliated Hospital of Yangzhou University, Jingjiang People's Hospital, Jingjiang 214500, Jiangsu Province, China

Yu Sha, Jing Chen, Department of Pathology, The Seventh Affiliated Hospital of Yangzhou University, Jingjiang People's Hospital, Jingjiang 214500, Jiangsu Province, China

Abstract BACKGROUND MET fusion is a key driver mutation, but it is rare in gastric cancer (GC). Several MET (hepatocyte growth factor receptor) inhibitors have been approved for the treatment of MET-positive patients, but the tumor response is heterogeneous.With the development of next-generation sequencing, diverse MET fusion partner genes have been identified. We herein report a fusion variant involving KIF5BMET in GC.CASE SUMMARY After thoracoscopic inferior lobectomy plus lymph node dissection under general anesthesia, a “tumor within a tumor” was found in the lung tumor tissue of a 64-year-old non-smoking male patient. Combining the medical history and the results of enzyme labeling, the focal area was considered to be GC. To seek potential therapeutic regimens, an intergenic region between KIF5B and MET fusion was identified. This fusion contains a MET kinase domain and coil-coiled domains encoded by KIF5B exons 1-25, which might drive the oncogenesis.CONCLUSION Our finding could extend the spectrum and genomic landscape of MET fusions in GC and favor the development of personalized therapy.

Key Words: KIF5B; MET; Gastric cancer; Non-small cell lung cancer; Tumor within a tumor; Case report

INTRODUCTION

Gastric cancer (GC) is one of the most common malignancies[1]. The incidence and mortality of GC vary by region, but more than 50% of cases occur in East Asia[2]. GC is responsible for 10.6% of new cases and 13.6% of cancer-related deaths in China[3].Targeted therapies designed to disrupt the activity of specific oncogenic signaling pathways have recently emerged as a promising therapeutic strategy in GC, such as the ToGA trial. Trastuzumab and ramucirumab improved the overall survival of patients by targeting theHER-2andVEGFRgenes[4,5].

METproto-oncogene receptor tyrosine kinase is a high-affinity proto-oncogene receptor tyrosine kinase that, upon activation, drives oncogenic pathways involved in cell proliferation, survival, and metastasis. As one of the majorMETvariants,METfusion is a key driver mutation. The common fusion proteins are derived from chromosomal translocations, which are usually composed of N-terminal dimerization domains provided by the kinase domains to which fusion partner proteins fuse to tyrosine kinases. These fusion mutations often lead to the activation of the kinase domain and provide ideal targets for the development of anticancer therapies[6]. With the development of next-generation sequencing (NGS), diverseMETfusion partner genes, such asETV6-MET[7],PTPRZ1-MET[8], andCD74-MET, have been identified[9].METgene fusion is a relatively rare but promising molecular target for individualized targeted therapies. Herein, we report a novel intergenic region betweenKIF5BandMETfusion in a patient with GC.

CASE PRESENTATION

Chief complaints

A 64-year-old male patient was admitted to Jingjiang Peoples’ hospital due to nodules in his right lower lung.

History of present illness

The patient underwent chest computed tomography (CT) 2 years ago, which revealed nodules in the right lower lung.

History of past illness

The patient underwent subtotal gastrectomy for GC 15 years ago, and was diagnosed with gastric adenocarcinoma by postoperative pathology. Adjuvant chemotherapy was given after operation (details are not available). During this period, the condition has been stable.

Personal and family history

None special.

Physical examination

There was no abnormality in cardiopulmonary and abdominal examinations.

Laboratory examinations

Blood analysis did not reveal raised levels of tumor markers.

Imaging examinations

After admission, chest CT (April 18, 2019) showed irregular patchy shadows in the lower lobe of the right lung, local thickening of the bronchial wall, and narrowing of the lumen, which was slightly denser than that 2 years ago (Figure 1A).

Further diagnostic work-up

The patient underwent thoracoscopic inferior lobectomy plus lymph node dissection under general anesthesia on April 26, 2019. Postoperative pathology revealed that the heterotype glands in the focal area were significantly different from the main tumor body, the cytoplasm was rich in mucus, and most of the tumor cells were located in lymphatics (Figure 1B). Combining the medical history and the results of immunohistochemical staining [Ki67 (+), D2-40 (+), MUC5AC (+), and Villin (+)] (Figure 1C-F),it was considered that the focal area was GC. This lesion collided with the main tumor body, which was described as a "tumor within a tumor". The tumor size was 2.2 cm ×1.5 cm × 1.0 cm. Metastasis was found in 14/15 lymph nodes, including 3/3 parabronchial lymph nodes, 7/7 group 7 lymph nodes, and 4/5 group 11 lymph nodes. All lymph node metastases were morphologically consistent with the origin of gastric adenocarcinoma.

To probe the genomic profile of the tumor for targeted therapy, the tissue specimens were subjected to NGS analysis, and an intergenic region betweenKIF5BandMETfusion was identified (Figure 2A). The fusion ofKIF5B-METincluded exons 1-25 ofKIF5Band exons 15-21 ofMET, and the complete kinase structure of the MET(hepatocyte growth factor receptor) protein was retained (Figure 2B). The mutant allele frequency was 15.24%. No other driver gene variants were found.

MULTIDISCIPLINARY EXPERT CONSULTATION

Pathology of the Cancer Hospital of Fudan University: (right lower lung) adenocarcinoma (moderately differentiated), mainly lung adenocarcinoma (acinar subtype),a few adenocarcinoma cells in the vascular, immunohistochemistry suggested that gastrointestinal origin may be. Lymph nodes (14/15) showed cancer metastasis, and immunohistochemistry showed the origin of gastrointestinal tract. Immunohistochemistry: lung adenocarcinoma: TTF-1 (+), CK7 (+), CK20 (+), Villin (-), P40 (-), syn (-), Ki67 (+), ALK Ventana (-); adenocarcinoma of gastrointestinal origin: TTF-1 (-), Villin(+), CK7 (+), cdx2-88 (+), CK20 (partial +).

FINAL DIAGNOSIS

Lung metastasis after resection of GC and right lung lower lobe adenocarcinoma(pT1N0M0 IA stage).

TREATMENT

The patient took three courses of tegafur monotherapy on July 2, July 23, and August 13, 2019, with grade II gastrointestinal reaction. Then he developed right pleural effusion and were treated by thoracic catheter drainage on November 4, 2019. The carcinoembryonic antigen (CEA) level of pleural effusion was 423.4 ng/mL, which was significantly increased, suggesting it was tumor related, but no cancer cells were found in the pleural effusion exfoliative cell examination. In January 2020, the patient developed cough, expectoration, and shortness of breath. He went to Shanghai for positron emission tomography/CT examination, which revealed that there was dense shadow in right lower hilar with fluorodeoxyglucose (FDG) metabolism increased; the right pleural and peritoneal thickening with FDG metabolism increased, metastasis possible; the left lower abdominal wall metastasis possible; pleural, abdominal and pelvic effusion on both sides. The epithelioid cells in pleural effusion had a larger nucleocytoplasmic ratio and obvious nucleoli. The cells in paraffin section were arranged in an adenoid pattern and considered as adenocarcinoma according to the hematoxylin-eosin staining.

Figure 1 Patient disease diagnosis. A: Computed tomography image of lung tissue; B: Typical image of postoperative pathology; C-F: Immunohistochemical staining images of Ki67 (+) (C), D2-40 (+) (D), MUC5AC (+) (E), and Villin (+) (F).

Figure 2 Next-generation sequencing findings for tumor tissue samples. A: A novel intergenic region between KIF5B exons 1-25 and the MET exon 15-21 fusion variant was identified; B: Next-generation sequencing results showing the breakpoint of the KIF5B-MET fusion.

OUTCOME AND FOLLOW-UP

Unfortunately, the patient's cough and shortness of breath gradually worsened and he died of respiratory failure in February 2020.

DISCUSSION

METfusions are rare in GC, and this is the first documented case of a patient with anMETfusion-positive tumor. We identified a fusion variant involvingKIF5B-MET, and the variant was the same as the most recently reportedKIF5B-METfusion variant in non-small cell lung cancer[10]. This fusion gene was initially reported in one of 513 lung adenocarcinoma samples[11]. Although severalMETinhibitors have been approved for the treatment ofMET-positive patients, the tumor response is heterogeneous, and the overall survival ranges from 1 mo to 36 mo[10,12,13]. One explanation is that the response of differentMETfusion types toMETinhibitors differs. Other possible reasons include the existence of other driver mutations or primary resistance mutations in the kinase structure of the MET protein. Therefore, it seems necessary to comprehensively understandMETfusion information, and NGS could serve as a supplementary approach forMETstatus detection because of its highthroughput molecular analysis that can detect gene copy number alterations,deletions, insertions, and fusions simultaneously.

CONCLUSION

To the best of our knowledge, this is the first report of breakpoints coexisting simultaneously in the intergenic region between theKIF5Bgene and theMETgene, as well as a novelMETrearrangement in GC. This fusion contains aMETkinase domain and coil-coiled domains encoded byKIF5Bexons 1-25, which might drive the oncogenesis. Given the recent development of severalMETinhibitors and their potential therapeutic efficacy for tumors expressing theKIF5B-METfusion protein, we expect that further investigation ofKIF5B-METfusions will enable us to identify GC patients suitable for this targeted therapy.