| Literature DB >> 27175599 |
Chul-Hyun Lim1, Yu Kyung Cho1, Sang Woo Kim1, Myung-Gyu Choi1, Je-Keun Rhee2, Yeun-Jun Chung3,4,5, Sug-Hyung Lee3,6, Tae-Min Kim2,7.
Abstract
Mutation profiles and intratumoral heterogeneity are not well understood for benign gastric adenomas, some of which progress into malignant gastric adenocarcinomas. In this study, we performed whole-exome sequencing of three microsatellite stable (MSS) and two microsatellite instability-high (MSI-H) gastric adenomas with three regional tumor biopsies per case. We observed that the mutation abundance of benign gastric adenomas was comparable to those of gastric adenocarcinomas, suggesting that the mutational makeup for gastric carcinogenesis may already be achieved in benign adenomas. The extent of intratumoral heterogeneity was more substantial for MSS genomes in that only 1% - 14% of somatic mutations were common across the regional biopsies or 'public', while 50% - 94% of mutations were public in MSI-H gastric adenomas. We observed biallelic, loss-of-functional events of APC with truncating mutations and/or 5q losses for all cases, mostly as public events. All MSS gastric adenomas also harbored ARID2 truncating mutations, often as multiple, region-specific ones indicative of convergent evolution. Hotspot missense mutations on known cancer genes such as ERBB2 and KRAS were largely observed as region-specific aberrations. These findings suggest that biallelic functional APC inactivation initiates the gastric carcinogenesis and is followed by mutations of histone modifiers and then activation of known cancer-related genes. As the first exome-wide multi-region mutational profiling of gastric adenomas, our study provides clues on the chronological sequence of somatic mutations and their clonal architectures in early gastric carcinogenesis.Entities:
Keywords: exome sequencing; gastric adenoma; gastric dysplasia; multiregion sequencing; mutation
Mesh:
Substances:
Year: 2016 PMID: 27175599 PMCID: PMC5129968 DOI: 10.18632/oncotarget.9250
Source DB: PubMed Journal: Oncotarget ISSN: 1949-2553
Clinicopathologic information of five gastric adenoma patients
| Case | Age | Gender | Location | Stage | Pathology | Size (cm) | |
|---|---|---|---|---|---|---|---|
| MSS1 | 75 | M | Antrum | IIb | Low grade dysplasia | 2.6 × 1.7 | + |
| MSS2 | 72 | M | Body | IIb | Low grade dysplasia | 3.2 × 1.8 | - |
| MSS3 | 70 | M | Angle | IIb | High grade dysplasia | 4.4 × 1.6 | + |
| MSI-H1 | 71 | M | Antrum | IIa | High grade dysplasia | 2.4 × 1.2 | - |
| MSI-H2 | 75 | M | Body | IIb | High grade dysplasia | 4.2 × 2.7 | - |
Figure 1Mutation abundance of MSS and MSI-H gastric adenomas
A. For three MSS gastric adenomas (MSS1-MSS3), the number of exonic mutations (mutation abundance) are shown for three regional biopsies per case. B. The number of exonic mutations is shown for the eight MSS gastric adenocarcinomas analyzed by the same sequencing platforms and analysis pipeline for this study (Left) and 218 MSS gastric adenocarcinomas from the TCGA consortium (Right). C. Exonic mutation abundance of two MSI-H gastric adenomas (MSI-H1 and MSI-H2). D. Mutation abundance of 9 and 70 MSI-H gastric adenocarcinomas from the previous study and the TCGA consortiums, respectively, are shown.
Figure 2Landscape of somatic mutations and copy number alterations of gastric adenomas
For each of the five gastric adenomas (MSS1-3 and MSI-H1-2; from top to bottom), somatic mutations and genome-wide copy number profiles are shown in left and right panels, respectively. Per case, three lanes (T1-3) represent the three regional tumor biopsies. For mutations, public (black), shared (dark grey) and private mutations (light grey) are shown with their regional distribution. Among the mutations occurring on known cancer-related genes, the loss-of-function events (i.e., nonsense or splicing mutations and out-of-frame indels; red) and missense mutations (blue) are annotated. The missense mutations at hotspots (>= 5 occurrences in COSMIC database; blue underbar) are also shown. In the case of MSI-H adenomas, only the missense mutations at hotspots along with loss-of-function mutations are shown. For copy number alterations, the copy number gains and losses are shown as red and blue, respectively. The known cancer genes that belong to the copy number gains and losses are shown as gene symbols in red and green, respectively. The arm-level alterations are also annotated as such. The chromothripsis-like event observed in MSI-H2 genomes is also indicated.
Figure 3Schematics of regional evolution of gastric adenomas
Mutations on cancer-related genes are shown according to the regional distribution. Mutations on the trunk (public) and branches (shared) are distinguished from private mutations. Red and blue represent the loss-of-function and hotspot missense mutations, respectively. Orange and green represent genes with copy number gains and losses, respectively.