Characterization and validation of somatic mutation spectrum to reveal heterogeneity in gastric cancer by single cell sequencing
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AbstractGastric cancer (GC) is a highly heterogeneous disease with multiple cellular types and poor prognosis. However, the cellular evolution and molecular basis of GC at the individual intra-tumor level has not been well demonstrated. We performed single-cell whole exome sequencing to detect somatic single-nucleotide variants (SNVs) and significantly mutated genes (SMGs) among 34 tumor cells and 9 normal cells from a patient with GC. The Complete Prediction for Protein Conformation (CPPC) approach directly predicting the folding conformation of the protein 3D structure with Protein Folding Shape Code, combined with functional experiments were used to confirm the characterization of mutated SMGs in GC cells. We identified 201 somatic SNVs, including 117 non-synonymous mutations in GC cells. Further analysis identified 24 significant mutated genes (SMGs) in single cells, for which a single amino acid change might affect protein conformation. Among them, two genes (CDC27 and FLG) that were mutated only in single cells but not in the corresponding tumor tissue, were recurrently present in another GC tissue cohort, and may play a potential role to promote carcinogenesis, as confirmed by functional characterization. Our findings showed a mutational landscape of GC at intra-tumor level for the first time and provided opportunities for understanding the heterogeneity and individualized target therapy for this disease. (C) 2019 Science China Press. Published by Elsevier B.V. and Science China Press. All rights reserved.
All Author(s) ListPeng LH, Xing R, Liu DB, Bao L, Cheng WX, Wang HY, Yu Y, Liu XF, Jiang L, Wu Y, An ZX, Liang QY, Kim RN, Shin YK, Yang HM, Wang J, Yu J, Zhang XQ, Xu X, Yang J, Wu K, Zhu SD, Lu YY
Journal nameScience Bulletin
Volume Number64
Issue Number4
Pages236 - 244
LanguagesEnglish-United Kingdom
KeywordsGastric cancer, Single-cell whole exome sequencing, SNV, Significant mutated gene, Heterogeneity
Web of Science Subject CategoriesMultidisciplinary Sciences;Science & Technology - Other Topics

Last updated on 2020-04-07 at 03:38