A functional selection reveals previously undetected anti-phage defence systems in the E. coli pangenome
<jats:title>Abstract</jats:title><jats:p>The ancient, ongoing coevolutionary battle between bacteria and their viruses, bacteriophages, has given rise to sophisticated immune systems including restriction-modification and CRISPR-Cas. Many additional anti-phage systems have been ide...
| Main Authors: | , , , , |
|---|---|
| Other Authors: | |
| Format: | Article |
| Language: | English |
| Published: |
Springer Science and Business Media LLC
2022
|
| Online Access: | https://hdl.handle.net/1721.1/146871 |
| _version_ | 1826209614600863744 |
|---|---|
| author | Vassallo, Christopher N Doering, Christopher R Littlehale, Megan L Teodoro, Gabriella IC Laub, Michael T |
| author2 | Massachusetts Institute of Technology. Department of Biology |
| author_facet | Massachusetts Institute of Technology. Department of Biology Vassallo, Christopher N Doering, Christopher R Littlehale, Megan L Teodoro, Gabriella IC Laub, Michael T |
| author_sort | Vassallo, Christopher N |
| collection | MIT |
| description | <jats:title>Abstract</jats:title><jats:p>The ancient, ongoing coevolutionary battle between bacteria and their viruses, bacteriophages, has given rise to sophisticated immune systems including restriction-modification and CRISPR-Cas. Many additional anti-phage systems have been identified using computational approaches based on genomic co-location within defence islands, but these screens may not be exhaustive. Here we developed an experimental selection scheme agnostic to genomic context to identify defence systems in 71 diverse <jats:italic>E. coli</jats:italic> strains. Our results unveil 21 conserved defence systems, none of which were previously detected as enriched in defence islands. Additionally, our work indicates that intact prophages and mobile genetic elements are primary reservoirs and distributors of defence systems in <jats:italic>E. coli</jats:italic>, with defence systems typically carried in specific locations or hotspots. These hotspots encode dozens of additional uncharacterized defence system candidates. Our findings reveal an extended landscape of antiviral immunity in <jats:italic>E. coli</jats:italic> and provide an approach for mapping defence systems in other species.</jats:p> |
| first_indexed | 2024-09-23T14:25:15Z |
| format | Article |
| id | mit-1721.1/146871 |
| institution | Massachusetts Institute of Technology |
| language | English |
| last_indexed | 2024-09-23T14:25:15Z |
| publishDate | 2022 |
| publisher | Springer Science and Business Media LLC |
| record_format | dspace |
| spelling | mit-1721.1/1468712022-12-14T03:13:07Z A functional selection reveals previously undetected anti-phage defence systems in the E. coli pangenome Vassallo, Christopher N Doering, Christopher R Littlehale, Megan L Teodoro, Gabriella IC Laub, Michael T Massachusetts Institute of Technology. Department of Biology <jats:title>Abstract</jats:title><jats:p>The ancient, ongoing coevolutionary battle between bacteria and their viruses, bacteriophages, has given rise to sophisticated immune systems including restriction-modification and CRISPR-Cas. Many additional anti-phage systems have been identified using computational approaches based on genomic co-location within defence islands, but these screens may not be exhaustive. Here we developed an experimental selection scheme agnostic to genomic context to identify defence systems in 71 diverse <jats:italic>E. coli</jats:italic> strains. Our results unveil 21 conserved defence systems, none of which were previously detected as enriched in defence islands. Additionally, our work indicates that intact prophages and mobile genetic elements are primary reservoirs and distributors of defence systems in <jats:italic>E. coli</jats:italic>, with defence systems typically carried in specific locations or hotspots. These hotspots encode dozens of additional uncharacterized defence system candidates. Our findings reveal an extended landscape of antiviral immunity in <jats:italic>E. coli</jats:italic> and provide an approach for mapping defence systems in other species.</jats:p> 2022-12-13T20:33:10Z 2022-12-13T20:33:10Z 2022-10 2022-12-13T19:57:00Z Article http://purl.org/eprint/type/JournalArticle https://hdl.handle.net/1721.1/146871 Vassallo, Christopher N, Doering, Christopher R, Littlehale, Megan L, Teodoro, Gabriella IC and Laub, Michael T. 2022. "A functional selection reveals previously undetected anti-phage defence systems in the E. coli pangenome." Nature Microbiology, 7 (10). en 10.1038/s41564-022-01219-4 Nature Microbiology Creative Commons Attribution 4.0 International license https://creativecommons.org/licenses/by/4.0/ application/pdf Springer Science and Business Media LLC Nature |
| spellingShingle | Vassallo, Christopher N Doering, Christopher R Littlehale, Megan L Teodoro, Gabriella IC Laub, Michael T A functional selection reveals previously undetected anti-phage defence systems in the E. coli pangenome |
| title | A functional selection reveals previously undetected anti-phage defence systems in the E. coli pangenome |
| title_full | A functional selection reveals previously undetected anti-phage defence systems in the E. coli pangenome |
| title_fullStr | A functional selection reveals previously undetected anti-phage defence systems in the E. coli pangenome |
| title_full_unstemmed | A functional selection reveals previously undetected anti-phage defence systems in the E. coli pangenome |
| title_short | A functional selection reveals previously undetected anti-phage defence systems in the E. coli pangenome |
| title_sort | functional selection reveals previously undetected anti phage defence systems in the e coli pangenome |
| url | https://hdl.handle.net/1721.1/146871 |
| work_keys_str_mv | AT vassallochristophern afunctionalselectionrevealspreviouslyundetectedantiphagedefencesystemsintheecolipangenome AT doeringchristopherr afunctionalselectionrevealspreviouslyundetectedantiphagedefencesystemsintheecolipangenome AT littlehalemeganl afunctionalselectionrevealspreviouslyundetectedantiphagedefencesystemsintheecolipangenome AT teodorogabriellaic afunctionalselectionrevealspreviouslyundetectedantiphagedefencesystemsintheecolipangenome AT laubmichaelt afunctionalselectionrevealspreviouslyundetectedantiphagedefencesystemsintheecolipangenome AT vassallochristophern functionalselectionrevealspreviouslyundetectedantiphagedefencesystemsintheecolipangenome AT doeringchristopherr functionalselectionrevealspreviouslyundetectedantiphagedefencesystemsintheecolipangenome AT littlehalemeganl functionalselectionrevealspreviouslyundetectedantiphagedefencesystemsintheecolipangenome AT teodorogabriellaic functionalselectionrevealspreviouslyundetectedantiphagedefencesystemsintheecolipangenome AT laubmichaelt functionalselectionrevealspreviouslyundetectedantiphagedefencesystemsintheecolipangenome |