Dynamic nature of viral and bacterial communities in human faeces
Summary: Bacteriophages are a major component of the gut microbiome and are believed to play a role in establishment and stabilization of microbial communities by influencing taxonomic and functional diversity. We show that the activity of lytic and temperate phages can also significantly affect bac...
| Main Authors: | , , , , , , |
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| Format: | Article |
| Language: | English |
| Published: |
Elsevier
2024-02-01
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| Series: | iScience |
| Subjects: | |
| Online Access: | http://www.sciencedirect.com/science/article/pii/S2589004223028559 |
| _version_ | 1797359966867161088 |
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| author | Andrey N. Shkoporov Orla O'Regan Linda Smith Ekaterina V. Khokhlova Lorraine A. Draper R. Paul Ross Colin Hill |
| author_facet | Andrey N. Shkoporov Orla O'Regan Linda Smith Ekaterina V. Khokhlova Lorraine A. Draper R. Paul Ross Colin Hill |
| author_sort | Andrey N. Shkoporov |
| collection | DOAJ |
| description | Summary: Bacteriophages are a major component of the gut microbiome and are believed to play a role in establishment and stabilization of microbial communities by influencing taxonomic and functional diversity. We show that the activity of lytic and temperate phages can also significantly affect bacterial community structure in a model of extended colonic retention. Intact fresh human feces were incubated anaerobically at 37°C without homogenization and subjected to metagenomic sequencing. We observed subject-specific blooms and collapses of selected bacteriophage and bacterial populations within some individuals. Most notable were striking collapses of Prevotella populations accompanied by increases in specific bacteriophages. In a number of cases, we even observed a shift from one bacterial “enterotype” to another within 48 h. These results confirm that intact feces represents a highly dynamic ecological system and suggests that colonic retention time could have a profound effect on microbiome composition, including a significant impact by bacteriophages. |
| first_indexed | 2024-03-08T15:31:34Z |
| format | Article |
| id | doaj.art-6762a5253538424ca14d4d7220b36ae6 |
| institution | Directory Open Access Journal |
| issn | 2589-0042 |
| language | English |
| last_indexed | 2024-03-08T15:31:34Z |
| publishDate | 2024-02-01 |
| publisher | Elsevier |
| record_format | Article |
| series | iScience |
| spelling | doaj.art-6762a5253538424ca14d4d7220b36ae62024-01-10T04:39:11ZengElsevieriScience2589-00422024-02-01272108778Dynamic nature of viral and bacterial communities in human faecesAndrey N. Shkoporov0Orla O'Regan1Linda Smith2Ekaterina V. Khokhlova3Lorraine A. Draper4R. Paul Ross5Colin Hill6APC Microbiome Ireland, University College Cork, Cork, Ireland; School of Microbiology, University College Cork, Cork, Ireland; Department of Medicine, University College Cork, Cork, Ireland; Corresponding authorAPC Microbiome Ireland, University College Cork, Cork, IrelandAPC Microbiome Ireland, University College Cork, Cork, IrelandAPC Microbiome Ireland, University College Cork, Cork, IrelandAPC Microbiome Ireland, University College Cork, Cork, IrelandAPC Microbiome Ireland, University College Cork, Cork, Ireland; School of Microbiology, University College Cork, Cork, IrelandAPC Microbiome Ireland, University College Cork, Cork, Ireland; School of Microbiology, University College Cork, Cork, Ireland; Corresponding authorSummary: Bacteriophages are a major component of the gut microbiome and are believed to play a role in establishment and stabilization of microbial communities by influencing taxonomic and functional diversity. We show that the activity of lytic and temperate phages can also significantly affect bacterial community structure in a model of extended colonic retention. Intact fresh human feces were incubated anaerobically at 37°C without homogenization and subjected to metagenomic sequencing. We observed subject-specific blooms and collapses of selected bacteriophage and bacterial populations within some individuals. Most notable were striking collapses of Prevotella populations accompanied by increases in specific bacteriophages. In a number of cases, we even observed a shift from one bacterial “enterotype” to another within 48 h. These results confirm that intact feces represents a highly dynamic ecological system and suggests that colonic retention time could have a profound effect on microbiome composition, including a significant impact by bacteriophages.http://www.sciencedirect.com/science/article/pii/S2589004223028559virologymicrobiologymicrobiome |
| spellingShingle | Andrey N. Shkoporov Orla O'Regan Linda Smith Ekaterina V. Khokhlova Lorraine A. Draper R. Paul Ross Colin Hill Dynamic nature of viral and bacterial communities in human faeces iScience virology microbiology microbiome |
| title | Dynamic nature of viral and bacterial communities in human faeces |
| title_full | Dynamic nature of viral and bacterial communities in human faeces |
| title_fullStr | Dynamic nature of viral and bacterial communities in human faeces |
| title_full_unstemmed | Dynamic nature of viral and bacterial communities in human faeces |
| title_short | Dynamic nature of viral and bacterial communities in human faeces |
| title_sort | dynamic nature of viral and bacterial communities in human faeces |
| topic | virology microbiology microbiome |
| url | http://www.sciencedirect.com/science/article/pii/S2589004223028559 |
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