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A novel family of tyrosine integrases encoded by the temperate pleolipovirus SNJ2
Genomes of halophilic archaea typically contain multiple loci of integrated mobile genetic elements (MGEs). Despite the abundance of these elements, however, mechanisms underlying their site-specific integration and excision have not been investigated. Here, we identified and characterized a novel r...
Autores principales: | , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Oxford University Press
2018
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5861418/ https://www.ncbi.nlm.nih.gov/pubmed/29361162 http://dx.doi.org/10.1093/nar/gky005 |
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author | Wang, Jiao Liu, Yingchun Liu, Ying Du, Kaixin Xu, Shuqi Wang, Yuchen Krupovic, Mart Chen, Xiangdong |
author_facet | Wang, Jiao Liu, Yingchun Liu, Ying Du, Kaixin Xu, Shuqi Wang, Yuchen Krupovic, Mart Chen, Xiangdong |
author_sort | Wang, Jiao |
collection | PubMed |
description | Genomes of halophilic archaea typically contain multiple loci of integrated mobile genetic elements (MGEs). Despite the abundance of these elements, however, mechanisms underlying their site-specific integration and excision have not been investigated. Here, we identified and characterized a novel recombination system encoded by the temperate pleolipovirus SNJ2, which infects haloarchaeon Natrinema sp. J7-1. SNJ2 genome is inserted into the tRNA(Met) gene and flanked by 14 bp direct repeats corresponding to attachment core sites. We showed that SNJ2 encodes an integrase (Int(SNJ2)) that excises the proviral genome from its host cell chromosome, but requires two small accessory proteins, Orf2 and Orf3, for integration. These proteins were co-transcribed with Int(SNJ2) to form an operon. Homology searches showed that Int(SNJ2)-type integrases are widespread in haloarchaeal genomes and are associated with various integrated MGEs. Importantly, we confirmed that SNJ2-like recombination systems are encoded by haloarchaea from three different genera and are critical for integration and excision. Finally, phylogenetic analysis suggested that Int(SNJ2)-type recombinases belong to a novel family of archaeal integrases distinct from previously characterized recombinases, including those from the archaeal SSV- and pNOB8-type families. |
format | Online Article Text |
id | pubmed-5861418 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2018 |
publisher | Oxford University Press |
record_format | MEDLINE/PubMed |
spelling | pubmed-58614182018-03-28 A novel family of tyrosine integrases encoded by the temperate pleolipovirus SNJ2 Wang, Jiao Liu, Yingchun Liu, Ying Du, Kaixin Xu, Shuqi Wang, Yuchen Krupovic, Mart Chen, Xiangdong Nucleic Acids Res Molecular Biology Genomes of halophilic archaea typically contain multiple loci of integrated mobile genetic elements (MGEs). Despite the abundance of these elements, however, mechanisms underlying their site-specific integration and excision have not been investigated. Here, we identified and characterized a novel recombination system encoded by the temperate pleolipovirus SNJ2, which infects haloarchaeon Natrinema sp. J7-1. SNJ2 genome is inserted into the tRNA(Met) gene and flanked by 14 bp direct repeats corresponding to attachment core sites. We showed that SNJ2 encodes an integrase (Int(SNJ2)) that excises the proviral genome from its host cell chromosome, but requires two small accessory proteins, Orf2 and Orf3, for integration. These proteins were co-transcribed with Int(SNJ2) to form an operon. Homology searches showed that Int(SNJ2)-type integrases are widespread in haloarchaeal genomes and are associated with various integrated MGEs. Importantly, we confirmed that SNJ2-like recombination systems are encoded by haloarchaea from three different genera and are critical for integration and excision. Finally, phylogenetic analysis suggested that Int(SNJ2)-type recombinases belong to a novel family of archaeal integrases distinct from previously characterized recombinases, including those from the archaeal SSV- and pNOB8-type families. Oxford University Press 2018-03-16 2018-01-18 /pmc/articles/PMC5861418/ /pubmed/29361162 http://dx.doi.org/10.1093/nar/gky005 Text en © The Author(s) 2018. Published by Oxford University Press on behalf of Nucleic Acids Research. http://creativecommons.org/licenses/by-nc/4.0/ This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by-nc/4.0/), which permits non-commercial re-use, distribution, and reproduction in any medium, provided the original work is properly cited. For commercial re-use, please contact journals.permissions@oup.com |
spellingShingle | Molecular Biology Wang, Jiao Liu, Yingchun Liu, Ying Du, Kaixin Xu, Shuqi Wang, Yuchen Krupovic, Mart Chen, Xiangdong A novel family of tyrosine integrases encoded by the temperate pleolipovirus SNJ2 |
title | A novel family of tyrosine integrases encoded by the temperate pleolipovirus SNJ2 |
title_full | A novel family of tyrosine integrases encoded by the temperate pleolipovirus SNJ2 |
title_fullStr | A novel family of tyrosine integrases encoded by the temperate pleolipovirus SNJ2 |
title_full_unstemmed | A novel family of tyrosine integrases encoded by the temperate pleolipovirus SNJ2 |
title_short | A novel family of tyrosine integrases encoded by the temperate pleolipovirus SNJ2 |
title_sort | novel family of tyrosine integrases encoded by the temperate pleolipovirus snj2 |
topic | Molecular Biology |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5861418/ https://www.ncbi.nlm.nih.gov/pubmed/29361162 http://dx.doi.org/10.1093/nar/gky005 |
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