Virome Sequencing of the Human Intestinal Mucosal–Luminal Interface
While the human gut virome has been increasingly explored in recent years, nearly all studies have been limited to fecal sampling. The mucosal–luminal interface has been established as a viable sample type for profiling the microbial biogeography of the gastrointestinal tract. We have developed a pr...
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| Format: | Article |
| Language: | English |
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Frontiers Media S.A.
2020-10-01
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| Series: | Frontiers in Cellular and Infection Microbiology |
| Subjects: | |
| Online Access: | https://www.frontiersin.org/articles/10.3389/fcimb.2020.582187/full |
| _version_ | 1818130490932068352 |
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| author | Austin Yan James Butcher David Mack David Mack Alain Stintzi |
| author_facet | Austin Yan James Butcher David Mack David Mack Alain Stintzi |
| author_sort | Austin Yan |
| collection | DOAJ |
| description | While the human gut virome has been increasingly explored in recent years, nearly all studies have been limited to fecal sampling. The mucosal–luminal interface has been established as a viable sample type for profiling the microbial biogeography of the gastrointestinal tract. We have developed a protocol to extract nucleic acids from viruses at the mucosal–luminal interface of the proximal and distal colon. Colonic viromes from pediatric patients with Crohn's disease demonstrated high interpatient diversity and low but significant intrapatient variation between sites. Whole metagenomics was also performed to explore virome–bacteriome interactions and to compare the viral communities observed in virome and whole metagenomic sequencing. A site-specific study of the human gut virome is a necessary step to advance our understanding of virome–bacteriome–host interactions in human diseases. |
| first_indexed | 2024-12-11T08:05:53Z |
| format | Article |
| id | doaj.art-de2f5aabdbbf479d8a33e9527748601b |
| institution | Directory Open Access Journal |
| issn | 2235-2988 |
| language | English |
| last_indexed | 2024-12-11T08:05:53Z |
| publishDate | 2020-10-01 |
| publisher | Frontiers Media S.A. |
| record_format | Article |
| series | Frontiers in Cellular and Infection Microbiology |
| spelling | doaj.art-de2f5aabdbbf479d8a33e9527748601b2022-12-22T01:15:00ZengFrontiers Media S.A.Frontiers in Cellular and Infection Microbiology2235-29882020-10-011010.3389/fcimb.2020.582187582187Virome Sequencing of the Human Intestinal Mucosal–Luminal InterfaceAustin Yan0James Butcher1David Mack2David Mack3Alain Stintzi4Department of Biochemistry, Microbiology, and Immunology, Faculty of Medicine, Ottawa Institute of Systems Biology, University of Ottawa, Ottawa, ON, CanadaDepartment of Biochemistry, Microbiology, and Immunology, Faculty of Medicine, Ottawa Institute of Systems Biology, University of Ottawa, Ottawa, ON, CanadaDepartment of Pediatrics, Faculty of Medicine, University of Ottawa, Ottawa, ON, CanadaInflammatory Bowel Disease Centre and CHEO Research Institute, Children's Hospital of Eastern Ontario, Ottawa, ON, CanadaDepartment of Biochemistry, Microbiology, and Immunology, Faculty of Medicine, Ottawa Institute of Systems Biology, University of Ottawa, Ottawa, ON, CanadaWhile the human gut virome has been increasingly explored in recent years, nearly all studies have been limited to fecal sampling. The mucosal–luminal interface has been established as a viable sample type for profiling the microbial biogeography of the gastrointestinal tract. We have developed a protocol to extract nucleic acids from viruses at the mucosal–luminal interface of the proximal and distal colon. Colonic viromes from pediatric patients with Crohn's disease demonstrated high interpatient diversity and low but significant intrapatient variation between sites. Whole metagenomics was also performed to explore virome–bacteriome interactions and to compare the viral communities observed in virome and whole metagenomic sequencing. A site-specific study of the human gut virome is a necessary step to advance our understanding of virome–bacteriome–host interactions in human diseases.https://www.frontiersin.org/articles/10.3389/fcimb.2020.582187/fullviromebacteriophagephagemicrobiomegut mucosaphageome |
| spellingShingle | Austin Yan James Butcher David Mack David Mack Alain Stintzi Virome Sequencing of the Human Intestinal Mucosal–Luminal Interface Frontiers in Cellular and Infection Microbiology virome bacteriophage phage microbiome gut mucosa phageome |
| title | Virome Sequencing of the Human Intestinal Mucosal–Luminal Interface |
| title_full | Virome Sequencing of the Human Intestinal Mucosal–Luminal Interface |
| title_fullStr | Virome Sequencing of the Human Intestinal Mucosal–Luminal Interface |
| title_full_unstemmed | Virome Sequencing of the Human Intestinal Mucosal–Luminal Interface |
| title_short | Virome Sequencing of the Human Intestinal Mucosal–Luminal Interface |
| title_sort | virome sequencing of the human intestinal mucosal luminal interface |
| topic | virome bacteriophage phage microbiome gut mucosa phageome |
| url | https://www.frontiersin.org/articles/10.3389/fcimb.2020.582187/full |
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