Integrated analysis of microbiome and metabolome reveals signatures in PDAC tumorigenesis and prognosis
ABSTRACT Pancreatic cancer, predominantly pancreatic ductal adenocarcinoma (PDAC), is one of the most malignant tumors of the digestive system. Emerging evidence suggests the involvement of the microbiome and metabolic substances in the development of PDAC, yet the results remain contradictory. This...
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| Language: | English |
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American Society for Microbiology
2024-11-01
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| Series: | Microbiology Spectrum |
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| Online Access: | https://journals.asm.org/doi/10.1128/spectrum.00962-24 |
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| author | Yuan Fang Xiaohong Liu Jie Ren Xing Wang Feihan Zhou Shi Huang Lei You Yupei Zhao |
| author_facet | Yuan Fang Xiaohong Liu Jie Ren Xing Wang Feihan Zhou Shi Huang Lei You Yupei Zhao |
| author_sort | Yuan Fang |
| collection | DOAJ |
| description | ABSTRACT Pancreatic cancer, predominantly pancreatic ductal adenocarcinoma (PDAC), is one of the most malignant tumors of the digestive system. Emerging evidence suggests the involvement of the microbiome and metabolic substances in the development of PDAC, yet the results remain contradictory. This study aims to identify the alterations and relationships in intratumoral microbiome and metabolites in PDAC. We collected matched tumor and normal adjacent tissue (NAT) samples from 105 PDAC patients and performed a 6-year follow-up. 2bRAD-M sequencing, untargeted liquid chromatography-tandem mass spectrometry, and untargeted gas chromatography-mass spectrometry were performed. Compared with NATs, microbial α-diversity decreased in PDAC tumors. The relative abundance of Staphylococcus aureus, Cutibacterium acnes, and Cutibacterium granulosum was higher in PDAC tumor after adjusting for confounding factors body mass index and M stage, and the presence of Ralstonia pickettii_B was found associated with a worse overall survival. Metabolomic analysis revealed distinctive differences in composition between PDAC and NAT, with 553 discriminative metabolites identified. Differential metabolites were revealed to originate from the microbiota and showed significant interactions with shifted bacterial species through KO (KEGG Orthology) genes. These findings suggest that the PDAC microenvironment harbors unique microbial-derived enzymatic reactions, potentially influencing the occurrence and development of PDAC by modulating the levels of glycerol-3-phosphate, succinate, carbonate, and beta-alanine.IMPORTANCEWe conducted a large sample-size pancreatic adenocarcinoma microbiome study using a novel microbiome sequencing method and two metabolomic assays. Two significant outcomes of our analysis are: (i) commensal opportunistic pathogens Staphylococcus aureus, Cutibacterium acnes, and Cutibacterium granulosum were enriched in pancreatic ductal adenocarcinoma (PDAC) tumors compared with normal adjacent tissues, and (ii) worse overall survival was found related to the presence of Ralstonia pickettii_B. Microbial species affect the tumorigenesis, metastasis, and prognosis of PDAC via unique microbe-enzyme-metabolite interaction. Thus, our study highlights the need for further investigation of the potential associations between pancreatic microbiota-derived omics signatures, which may drive the clinical transformation of microbiome-derived strategies toward therapy-targeted bacteria. |
| format | Article |
| id | doaj-art-778c71c31ea146c2904708e7dd471da3 |
| institution | OA Journals |
| issn | 2165-0497 |
| language | English |
| publishDate | 2024-11-01 |
| publisher | American Society for Microbiology |
| record_format | Article |
| series | Microbiology Spectrum |
| spelling | doaj-art-778c71c31ea146c2904708e7dd471da32025-08-20T02:26:20ZengAmerican Society for MicrobiologyMicrobiology Spectrum2165-04972024-11-01121110.1128/spectrum.00962-24Integrated analysis of microbiome and metabolome reveals signatures in PDAC tumorigenesis and prognosisYuan Fang0Xiaohong Liu1Jie Ren2Xing Wang3Feihan Zhou4Shi Huang5Lei You6Yupei Zhao7Department of General Surgery, Peking Union Medical College Hospital, Peking Union Medical College, Chinese Academy of Medical Sciences, Beijing, ChinaDepartment of General Surgery, Peking Union Medical College Hospital, Peking Union Medical College, Chinese Academy of Medical Sciences, Beijing, ChinaDepartment of General Surgery, Peking Union Medical College Hospital, Peking Union Medical College, Chinese Academy of Medical Sciences, Beijing, ChinaDepartment of General Surgery, Peking Union Medical College Hospital, Peking Union Medical College, Chinese Academy of Medical Sciences, Beijing, ChinaDepartment of General Surgery, Peking Union Medical College Hospital, Peking Union Medical College, Chinese Academy of Medical Sciences, Beijing, ChinaFaculty of Dentistry, The University of Hong Kong, Hong Kong SAR, ChinaDepartment of General Surgery, Peking Union Medical College Hospital, Peking Union Medical College, Chinese Academy of Medical Sciences, Beijing, ChinaDepartment of General Surgery, Peking Union Medical College Hospital, Peking Union Medical College, Chinese Academy of Medical Sciences, Beijing, ChinaABSTRACT Pancreatic cancer, predominantly pancreatic ductal adenocarcinoma (PDAC), is one of the most malignant tumors of the digestive system. Emerging evidence suggests the involvement of the microbiome and metabolic substances in the development of PDAC, yet the results remain contradictory. This study aims to identify the alterations and relationships in intratumoral microbiome and metabolites in PDAC. We collected matched tumor and normal adjacent tissue (NAT) samples from 105 PDAC patients and performed a 6-year follow-up. 2bRAD-M sequencing, untargeted liquid chromatography-tandem mass spectrometry, and untargeted gas chromatography-mass spectrometry were performed. Compared with NATs, microbial α-diversity decreased in PDAC tumors. The relative abundance of Staphylococcus aureus, Cutibacterium acnes, and Cutibacterium granulosum was higher in PDAC tumor after adjusting for confounding factors body mass index and M stage, and the presence of Ralstonia pickettii_B was found associated with a worse overall survival. Metabolomic analysis revealed distinctive differences in composition between PDAC and NAT, with 553 discriminative metabolites identified. Differential metabolites were revealed to originate from the microbiota and showed significant interactions with shifted bacterial species through KO (KEGG Orthology) genes. These findings suggest that the PDAC microenvironment harbors unique microbial-derived enzymatic reactions, potentially influencing the occurrence and development of PDAC by modulating the levels of glycerol-3-phosphate, succinate, carbonate, and beta-alanine.IMPORTANCEWe conducted a large sample-size pancreatic adenocarcinoma microbiome study using a novel microbiome sequencing method and two metabolomic assays. Two significant outcomes of our analysis are: (i) commensal opportunistic pathogens Staphylococcus aureus, Cutibacterium acnes, and Cutibacterium granulosum were enriched in pancreatic ductal adenocarcinoma (PDAC) tumors compared with normal adjacent tissues, and (ii) worse overall survival was found related to the presence of Ralstonia pickettii_B. Microbial species affect the tumorigenesis, metastasis, and prognosis of PDAC via unique microbe-enzyme-metabolite interaction. Thus, our study highlights the need for further investigation of the potential associations between pancreatic microbiota-derived omics signatures, which may drive the clinical transformation of microbiome-derived strategies toward therapy-targeted bacteria.https://journals.asm.org/doi/10.1128/spectrum.00962-24PDACpancreatic ductal adenocarcinomamicrobial metabolismmicrobiotametabolomecarcinogenesis |
| spellingShingle | Yuan Fang Xiaohong Liu Jie Ren Xing Wang Feihan Zhou Shi Huang Lei You Yupei Zhao Integrated analysis of microbiome and metabolome reveals signatures in PDAC tumorigenesis and prognosis Microbiology Spectrum PDAC pancreatic ductal adenocarcinoma microbial metabolism microbiota metabolome carcinogenesis |
| title | Integrated analysis of microbiome and metabolome reveals signatures in PDAC tumorigenesis and prognosis |
| title_full | Integrated analysis of microbiome and metabolome reveals signatures in PDAC tumorigenesis and prognosis |
| title_fullStr | Integrated analysis of microbiome and metabolome reveals signatures in PDAC tumorigenesis and prognosis |
| title_full_unstemmed | Integrated analysis of microbiome and metabolome reveals signatures in PDAC tumorigenesis and prognosis |
| title_short | Integrated analysis of microbiome and metabolome reveals signatures in PDAC tumorigenesis and prognosis |
| title_sort | integrated analysis of microbiome and metabolome reveals signatures in pdac tumorigenesis and prognosis |
| topic | PDAC pancreatic ductal adenocarcinoma microbial metabolism microbiota metabolome carcinogenesis |
| url | https://journals.asm.org/doi/10.1128/spectrum.00962-24 |
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