High diversity and rapid spatial turnover of integron gene cassettes in soil
Integrons are genetic elements that promote rapid adaptation in bacteria by capturing exogenous, mobile gene cassettes. Recently, a subset of gene cassettes has facilitated the global spread of antibiotic resistance. However, outside clinical settings, very little is known about their diversity and...
Published in: | Environmental Microbiology |
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2019
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Online Access: | https://researchers.mq.edu.au/en/publications/7e224ac6-ba92-4aa0-8b55-c0e893194980 https://doi.org/10.1111/1462-2920.14551 https://research-management.mq.edu.au/ws/files/135195402/99143454_AAM.pdf http://www.scopus.com/inward/record.url?scp=85061573568&partnerID=8YFLogxK http://purl.org/au-research/grants/arc/DP130103839 |
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ftmacquarieunicr:oai:https://researchers.mq.edu.au:publications/7e224ac6-ba92-4aa0-8b55-c0e893194980 2024-09-15T17:42:37+00:00 High diversity and rapid spatial turnover of integron gene cassettes in soil Ghaly, Timothy M. Geoghegan, Jemma L. Alroy, John Gillings, Michael R. 2019-05 application/pdf https://researchers.mq.edu.au/en/publications/7e224ac6-ba92-4aa0-8b55-c0e893194980 https://doi.org/10.1111/1462-2920.14551 https://research-management.mq.edu.au/ws/files/135195402/99143454_AAM.pdf http://www.scopus.com/inward/record.url?scp=85061573568&partnerID=8YFLogxK http://purl.org/au-research/grants/arc/DP130103839 eng eng info:eu-repo/semantics/openAccess Ghaly , T M , Geoghegan , J L , Alroy , J & Gillings , M R 2019 , ' High diversity and rapid spatial turnover of integron gene cassettes in soil ' , Environmental Microbiology , vol. 21 , no. 5 , pp. 1567-1574 . https://doi.org/10.1111/1462-2920.14551 article 2019 ftmacquarieunicr https://doi.org/10.1111/1462-2920.14551 2024-07-10T23:45:58Z Integrons are genetic elements that promote rapid adaptation in bacteria by capturing exogenous, mobile gene cassettes. Recently, a subset of gene cassettes has facilitated the global spread of antibiotic resistance. However, outside clinical settings, very little is known about their diversity and spatial ecology. To address this question, we sequenced integron gene cassettes from soils sampled across Australia and Antarctica. We recovered 44 970 open reading frames that encoded 27 215 unique proteins, representing an order of magnitude more cassettes than previous sequencing efforts. We found that cassettes have extremely high local richness, significantly greater than previously predicted, with estimates ranging from 4000 to 18 000 unique cassettes per 0.3 g of soil. We show that cassettes have a heterogeneous distribution across space, and that they exhibit rapid turnover with distance. Similarity between samples drops to between 0.1% and 10% at distances of as little as 100 m. Together, these data provide key insights into the ecology and size of the gene cassette metagenome. Article in Journal/Newspaper Antarc* Antarctica Macquarie University Research Portal Environmental Microbiology 21 5 1567 1574 |
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Open Polar |
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Macquarie University Research Portal |
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ftmacquarieunicr |
language |
English |
description |
Integrons are genetic elements that promote rapid adaptation in bacteria by capturing exogenous, mobile gene cassettes. Recently, a subset of gene cassettes has facilitated the global spread of antibiotic resistance. However, outside clinical settings, very little is known about their diversity and spatial ecology. To address this question, we sequenced integron gene cassettes from soils sampled across Australia and Antarctica. We recovered 44 970 open reading frames that encoded 27 215 unique proteins, representing an order of magnitude more cassettes than previous sequencing efforts. We found that cassettes have extremely high local richness, significantly greater than previously predicted, with estimates ranging from 4000 to 18 000 unique cassettes per 0.3 g of soil. We show that cassettes have a heterogeneous distribution across space, and that they exhibit rapid turnover with distance. Similarity between samples drops to between 0.1% and 10% at distances of as little as 100 m. Together, these data provide key insights into the ecology and size of the gene cassette metagenome. |
format |
Article in Journal/Newspaper |
author |
Ghaly, Timothy M. Geoghegan, Jemma L. Alroy, John Gillings, Michael R. |
spellingShingle |
Ghaly, Timothy M. Geoghegan, Jemma L. Alroy, John Gillings, Michael R. High diversity and rapid spatial turnover of integron gene cassettes in soil |
author_facet |
Ghaly, Timothy M. Geoghegan, Jemma L. Alroy, John Gillings, Michael R. |
author_sort |
Ghaly, Timothy M. |
title |
High diversity and rapid spatial turnover of integron gene cassettes in soil |
title_short |
High diversity and rapid spatial turnover of integron gene cassettes in soil |
title_full |
High diversity and rapid spatial turnover of integron gene cassettes in soil |
title_fullStr |
High diversity and rapid spatial turnover of integron gene cassettes in soil |
title_full_unstemmed |
High diversity and rapid spatial turnover of integron gene cassettes in soil |
title_sort |
high diversity and rapid spatial turnover of integron gene cassettes in soil |
publishDate |
2019 |
url |
https://researchers.mq.edu.au/en/publications/7e224ac6-ba92-4aa0-8b55-c0e893194980 https://doi.org/10.1111/1462-2920.14551 https://research-management.mq.edu.au/ws/files/135195402/99143454_AAM.pdf http://www.scopus.com/inward/record.url?scp=85061573568&partnerID=8YFLogxK http://purl.org/au-research/grants/arc/DP130103839 |
genre |
Antarc* Antarctica |
genre_facet |
Antarc* Antarctica |
op_source |
Ghaly , T M , Geoghegan , J L , Alroy , J & Gillings , M R 2019 , ' High diversity and rapid spatial turnover of integron gene cassettes in soil ' , Environmental Microbiology , vol. 21 , no. 5 , pp. 1567-1574 . https://doi.org/10.1111/1462-2920.14551 |
op_rights |
info:eu-repo/semantics/openAccess |
op_doi |
https://doi.org/10.1111/1462-2920.14551 |
container_title |
Environmental Microbiology |
container_volume |
21 |
container_issue |
5 |
container_start_page |
1567 |
op_container_end_page |
1574 |
_version_ |
1810489249725677568 |