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Accumulating researches suggest a potential role of microorganisms in tumorigenesis. However, the composition of microbiota in GC tissues is not clear and it changes throughout the different stages of GC remain mostly elusive. Our study integrated RNA-Seq data of 727 samples derived from gastric tissues across four datasets and revealed its microbial composition. In order to remove the false positive results, core taxa were defined and characterized. Based on it, we analyzed the influence of biological factors on its composition. The pan-microbiome of gastric tissues was estimated to be over than 1400 genera. Seventeen core genera were identified. Among them, <jats:italic>Helicobacter<\/jats:italic>, <jats:italic>Lysobacter<\/jats:italic> were significantly enriched in normal tissues, while <jats:italic>Pseudomonas<\/jats:italic> was enriched in tumor tissues. Interestingly, <jats:italic>Acinetobacter<\/jats:italic>, <jats:italic>Pasteurella<\/jats:italic>, <jats:italic>Streptomyces<\/jats:italic>, <jats:italic>Chlamydia<\/jats:italic>, and <jats:italic>Lysobacter<\/jats:italic>, showed a significant increase trend during tumor development and formed strong intra\/inter-correlations among them or with other genera. Furthermore, we found that tumor stage played an important role in altering the microbial composition of GC tissues. This study provides support for the in-depth study of tumor microbiome, and the specific microbiome excavated provides a possibility for the subsequent identification of potential biomarkers for GC. <\/jats:p>","DOI":"10.1038\/s41598-023-32809-9","type":"journal-article","created":{"date-parts":[[2023,4,7]],"date-time":"2023-04-07T14:02:45Z","timestamp":1680876165000},"update-policy":"https:\/\/doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":23,"title":["Uncovering the special microbiota associated with occurrence and progression of gastric cancer by using RNA-sequencing"],"prefix":"10.1038","volume":"13","author":[{"given":"Bin","family":"Ai","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Yue","family":"Mei","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Dong","family":"Liang","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Tengjiao","family":"Wang","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Hui","family":"Cai","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Dong","family":"Yu","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"297","published-online":{"date-parts":[[2023,4,7]]},"reference":[{"key":"32809_CR1","doi-asserted-by":"publisher","DOI":"10.3389\/fonc.2022.862462","volume":"12","author":"Z Li","year":"2022","unstructured":"Li, Z., Zhang, W., Bai, J., Li, J. & Li, H. 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