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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...

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Detalles Bibliográficos
Autores principales: Wang, Jiao, Liu, Yingchun, Liu, Ying, Du, Kaixin, Xu, Shuqi, Wang, Yuchen, Krupovic, Mart, Chen, Xiangdong
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Oxford University Press 2018
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.
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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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