Whole genome and transcriptome sequencing of matched primary and peritoneal metastatic gastric carcinoma

J Zhang; J Y Huang; Y N Chen; F Yuan; H Zhang; F H Yan; M J Wang; G Wang; M Su; G Lu; Y Huang; H Dai; J Ji; J Zhang; J N Zhang; Y N Jiang; S J Chen; Z G Zhu; Y Y Yu

doi:10.1038/srep13750

Whole genome and transcriptome sequencing of matched primary and peritoneal metastatic gastric carcinoma

Sci Rep. 2015 Sep 2:5:13750. doi: 10.1038/srep13750.

Authors

J Zhang^{1

2}, J Y Huang^{2

3}, Y N Chen^{1

2}, F Yuan⁴, H Zhang⁵, F H Yan⁵, M J Wang³, G Wang⁶, M Su⁶, G Lu⁶, Y Huang⁶, H Dai⁶, J Ji^{1

2}, J Zhang^{1

2}, J N Zhang^{1

2}, Y N Jiang^{1

2}, S J Chen^{2

3}, Z G Zhu^{1

2}, Y Y Yu^{1

2}

Affiliations

¹ Shanghai Institute of Digestive Surgery and Biobank of Gastrointestinal carcinoma, Lu Wan Qu, Shanghai, China.
² Collaborative Innovation Center of Systems Biomedicine, China.
³ State Key Laboratory of Medical Genomics, Changsha City, Hunan Prov, China.
⁴ Department of Pathology of Shanghai Ruijin Hospital, Shanghai Jiao Tong University School of Medicine, 200025, Shanghai, China.
⁵ Department of Radiology of Shanghai Ruijin Hospital, Shanghai Jiao Tong University School of Medicine, 200025, Shanghai, China.
⁶ Genome Center of WuXiAppTec (Shanghai) Co., Ltd. Shanghai, 200131, China.

Abstract

Gastric cancer is one of the most aggressive cancers and is the second leading cause of cancer death worldwide. Approximately 40% of global gastric cancer cases occur in China, with peritoneal metastasis being the prevalent form of recurrence and metastasis in advanced disease. Currently, there are limited clinical approaches for predicting and treatment of peritoneal metastasis, resulting in a 6-month average survival time. By comprehensive genome analysis will uncover the pathogenesis of peritoneal metastasis. Here we describe a comprehensive whole-genome and transcriptome sequencing analysis of one advanced gastric cancer case, including non-cancerous mucosa, primary cancer and matched peritoneal metastatic cancer. The peripheral blood is used as normal control. We identified 27 mutated genes, of which 19 genes are reported in COSMIC database (ZNF208, CRNN, ATXN3, DCTN1, RP1L1, PRB4, PRB1, MUC4, HS6ST3, MUC17, JAM2, ITGAD, IREB2, IQUB, CORO1B, CCDC121, AKAP2, ACAN and ACADL), and eight genes have not previously been described in gastric cancer (CCDC178, ARMC4, TUBB6, PLIN4, PKLR, PDZD2, DMBT1and DAB1).Additionally,GPX4 and MPND in 19q13.3-13.4 region, is characterized as a novel fusion-gene. This study disclosed novel biological markers and tumorigenic pathways that would predict gastric cancer occurring peritoneal metastasis.

Publication types

Research Support, Non-U.S. Gov't

MeSH terms

Aged
Female
Gene Expression Profiling
Gene Expression Regulation, Neoplastic
Genome, Human*
Humans
Mutation / genetics
Oncogene Proteins, Fusion / genetics
Oncogene Proteins, Fusion / metabolism
Peritoneal Neoplasms / genetics*
Peritoneal Neoplasms / secondary*
Polymorphism, Single Nucleotide / genetics
Sequence Analysis, DNA*
Sequence Analysis, RNA*
Signal Transduction / genetics
Stomach Neoplasms / genetics*
Stomach Neoplasms / pathology*
Transcriptome

Substances

Oncogene Proteins, Fusion