Detection of colorectal‐cancer‐associated bacterial taxa in fecal samples using next‐generation sequencing and 19 newly established qPCR assays
We have previously identified increased levels of distinct bacterial taxa within mucosal biopsies from colorectal cancer (CRC) patients. Following prior research, the aim of this study was to investigate the detection of the same CRC‐associated bacteria in fecal samples and to evaluate the suitabili...
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| Format: | Article |
| Language: | English |
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Wiley
2025-02-01
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| Series: | Molecular Oncology |
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| Online Access: | https://doi.org/10.1002/1878-0261.13700 |
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| author | Thulasika Senthakumaran Tone M. Tannæs Aina E. F. Moen Stephan A. Brackmann David Jahanlu Trine B. Rounge Vahid Bemanian Hege S. Tunsjø |
| author_facet | Thulasika Senthakumaran Tone M. Tannæs Aina E. F. Moen Stephan A. Brackmann David Jahanlu Trine B. Rounge Vahid Bemanian Hege S. Tunsjø |
| author_sort | Thulasika Senthakumaran |
| collection | DOAJ |
| description | We have previously identified increased levels of distinct bacterial taxa within mucosal biopsies from colorectal cancer (CRC) patients. Following prior research, the aim of this study was to investigate the detection of the same CRC‐associated bacteria in fecal samples and to evaluate the suitability of fecal samples as a non‐invasive material for the detection of CRC‐associated bacteria. Next‐generation sequencing (NGS) of the 16S ribosomal RNA (rRNA) V4 region was performed to evaluate the detection of the CRC‐associated bacteria in the fecal microbiota of cancer patients, patients with adenomatous polyp and healthy controls. Furthermore, 19 novel species‐specific quantitative PCR (qPCR) assays were established to detect the CRC‐associated bacteria. Approximately, 75% of the bacterial taxa identified in biopsies were reflected in fecal samples. NGS failed to detect low‐abundance CRC‐associated taxa in fecal samples, whereas qPCR exhibited high sensitivity and specificity in identifying all targeted taxa. Comparison of fecal microbial composition between the different patient groups showed enrichment of Fusobacterium nucleatum, Parvimonas micra, and Gemella morbillorum in cancer patients. Our findings suggest that low‐abundance mucosa‐associated bacteria can be detected in fecal samples using sensitive qPCR assays. |
| format | Article |
| id | doaj-art-dd59d246f9fb4f9b8c88835744040640 |
| institution | Kabale University |
| issn | 1574-7891 1878-0261 |
| language | English |
| publishDate | 2025-02-01 |
| publisher | Wiley |
| record_format | Article |
| series | Molecular Oncology |
| spelling | doaj-art-dd59d246f9fb4f9b8c888357440406402025-02-04T17:30:20ZengWileyMolecular Oncology1574-78911878-02612025-02-0119241242910.1002/1878-0261.13700Detection of colorectal‐cancer‐associated bacterial taxa in fecal samples using next‐generation sequencing and 19 newly established qPCR assaysThulasika Senthakumaran0Tone M. Tannæs1Aina E. F. Moen2Stephan A. Brackmann3David Jahanlu4Trine B. Rounge5Vahid Bemanian6Hege S. Tunsjø7Department of Life Sciences and Health Oslo Metropolitan University NorwaySection for Clinical Molecular Biology (EpiGen) Akershus University Hospital Lørenskog NorwaySection for Clinical Molecular Biology (EpiGen) Akershus University Hospital Lørenskog NorwayDepartment of Gastroenterology, Division of Medicine Akershus University Hospital Lørenskog NorwayDepartment of Life Sciences and Health Oslo Metropolitan University NorwayDepartment of Pharmacy, Centre for Bioinformatics University of Oslo NorwayDepartment of Pathology Akershus University Hospital Lørenskog NorwayDepartment of Life Sciences and Health Oslo Metropolitan University NorwayWe have previously identified increased levels of distinct bacterial taxa within mucosal biopsies from colorectal cancer (CRC) patients. Following prior research, the aim of this study was to investigate the detection of the same CRC‐associated bacteria in fecal samples and to evaluate the suitability of fecal samples as a non‐invasive material for the detection of CRC‐associated bacteria. Next‐generation sequencing (NGS) of the 16S ribosomal RNA (rRNA) V4 region was performed to evaluate the detection of the CRC‐associated bacteria in the fecal microbiota of cancer patients, patients with adenomatous polyp and healthy controls. Furthermore, 19 novel species‐specific quantitative PCR (qPCR) assays were established to detect the CRC‐associated bacteria. Approximately, 75% of the bacterial taxa identified in biopsies were reflected in fecal samples. NGS failed to detect low‐abundance CRC‐associated taxa in fecal samples, whereas qPCR exhibited high sensitivity and specificity in identifying all targeted taxa. Comparison of fecal microbial composition between the different patient groups showed enrichment of Fusobacterium nucleatum, Parvimonas micra, and Gemella morbillorum in cancer patients. Our findings suggest that low‐abundance mucosa‐associated bacteria can be detected in fecal samples using sensitive qPCR assays.https://doi.org/10.1002/1878-0261.1370016S rRNA amplicon sequencingcolorectal cancercontaminant speciesfecal microbiotamucosal microbiotaqPCR |
| spellingShingle | Thulasika Senthakumaran Tone M. Tannæs Aina E. F. Moen Stephan A. Brackmann David Jahanlu Trine B. Rounge Vahid Bemanian Hege S. Tunsjø Detection of colorectal‐cancer‐associated bacterial taxa in fecal samples using next‐generation sequencing and 19 newly established qPCR assays Molecular Oncology 16S rRNA amplicon sequencing colorectal cancer contaminant species fecal microbiota mucosal microbiota qPCR |
| title | Detection of colorectal‐cancer‐associated bacterial taxa in fecal samples using next‐generation sequencing and 19 newly established qPCR assays |
| title_full | Detection of colorectal‐cancer‐associated bacterial taxa in fecal samples using next‐generation sequencing and 19 newly established qPCR assays |
| title_fullStr | Detection of colorectal‐cancer‐associated bacterial taxa in fecal samples using next‐generation sequencing and 19 newly established qPCR assays |
| title_full_unstemmed | Detection of colorectal‐cancer‐associated bacterial taxa in fecal samples using next‐generation sequencing and 19 newly established qPCR assays |
| title_short | Detection of colorectal‐cancer‐associated bacterial taxa in fecal samples using next‐generation sequencing and 19 newly established qPCR assays |
| title_sort | detection of colorectal cancer associated bacterial taxa in fecal samples using next generation sequencing and 19 newly established qpcr assays |
| topic | 16S rRNA amplicon sequencing colorectal cancer contaminant species fecal microbiota mucosal microbiota qPCR |
| url | https://doi.org/10.1002/1878-0261.13700 |
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