TY - JOUR
T1 - The landscape of 142 Epstein–Barr viral whole genomes in gastric cancer
AU - Kojima, Yuki
AU - Hamada, Motoharu
AU - Naruse, Azumi
AU - Goto, Kimitoshi
AU - Khine, Htet Thiri
AU - Arai, Haruto
AU - Akutsu, Yuta
AU - Satou, Akira
AU - Nakaguro, Masato
AU - Kato, Seiichi
AU - Kodera, Yasuhiro
AU - Yatabe, Yasushi
AU - Torii, Yuka
AU - Kawada, Jun Ichi
AU - Murata, Takayuki
AU - Kimura, Hiroshi
AU - Takiguchi, Shuji
AU - Inagaki, Hiroshi
AU - Kataoka, Hiromi
AU - Okuno, Yusuke
N1 - Publisher Copyright:
© Japanese Society of Gastroenterology 2024.
PY - 2024
Y1 - 2024
N2 - Background: A substantial portion of gastric cancer (GC) is linked to Epstein–Barr virus (EBV) infection. The characteristics of this viral genome, such as specific viral strains and large structural variations, influence the progression of diseases like nasopharyngeal carcinoma and hematological malignancy. However, the EBV genomes from GC have not been thoroughly characterized. Methods: Our study involved 849 consecutive GC patients diagnosed at Nagoya City University Hospital, Japan (NCU cohort). We detected EBV from formalin-fixed, paraffin-embedded sections using a novel direct PCR-based rapid detection method. Additionally, we analyzed 142 EBV whole genomes (125 newly sequenced) from GC, comparing them with 205 genomes from other EBV-associated diseases. Results: We identified 32 (3.8%) patients associated with EBVaGC in the NCU cohort. Moreover, the direct PCR identified several GC specimens containing EBV-infected lymphocytes or their follicles. The dominant viral strain in GC was type 1 EBV, prevalent in most parts of the world, and no GC-specific strain was identified. We found no significant associations between single-nucleotide variants in the viral genome and GC. Structural variations of the EBV genome were infrequent in GC (4 cases, 2.1%), contrasting with EBV-associated hematological malignancy, which frequently carries large deletions. Conclusions: This study is the first to uncover the genomic variations of EBV in GC. While EBV is definitively linked to GC, the characteristics of its genomes do not strongly correlate with disease development or progression. Our findings on viral genomes supplement the current understanding of human genomes in EBVaGC.
AB - Background: A substantial portion of gastric cancer (GC) is linked to Epstein–Barr virus (EBV) infection. The characteristics of this viral genome, such as specific viral strains and large structural variations, influence the progression of diseases like nasopharyngeal carcinoma and hematological malignancy. However, the EBV genomes from GC have not been thoroughly characterized. Methods: Our study involved 849 consecutive GC patients diagnosed at Nagoya City University Hospital, Japan (NCU cohort). We detected EBV from formalin-fixed, paraffin-embedded sections using a novel direct PCR-based rapid detection method. Additionally, we analyzed 142 EBV whole genomes (125 newly sequenced) from GC, comparing them with 205 genomes from other EBV-associated diseases. Results: We identified 32 (3.8%) patients associated with EBVaGC in the NCU cohort. Moreover, the direct PCR identified several GC specimens containing EBV-infected lymphocytes or their follicles. The dominant viral strain in GC was type 1 EBV, prevalent in most parts of the world, and no GC-specific strain was identified. We found no significant associations between single-nucleotide variants in the viral genome and GC. Structural variations of the EBV genome were infrequent in GC (4 cases, 2.1%), contrasting with EBV-associated hematological malignancy, which frequently carries large deletions. Conclusions: This study is the first to uncover the genomic variations of EBV in GC. While EBV is definitively linked to GC, the characteristics of its genomes do not strongly correlate with disease development or progression. Our findings on viral genomes supplement the current understanding of human genomes in EBVaGC.
KW - Epstein–Barr virus
KW - Epstein–Barr virus-associated gastric cancer
KW - Gastric cancer
KW - Viral genome
KW - Whole-genome sequencing
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U2 - 10.1007/s00535-024-02170-3
DO - 10.1007/s00535-024-02170-3
M3 - Article
C2 - 39572460
AN - SCOPUS:85209750627
SN - 0944-1174
JO - Journal of Gastroenterology
JF - Journal of Gastroenterology
ER -