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Prevalence of phase variable epigenetic invertons among host-associated bacteria
Type I restriction-modification (R-M) systems consist of a DNA endonuclease (HsdR, HsdM and HsdS subunits) and methyltransferase (HsdM and HsdS subunits). The hsdS sequences flanked by inverted repeats (referred to as epigenetic invertons) in certain Type I R-M systems undergo invertase-catalyzed in...
Autores principales: | , , , , , , , , , , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Oxford University Press
2020
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7672463/ https://www.ncbi.nlm.nih.gov/pubmed/33119758 http://dx.doi.org/10.1093/nar/gkaa907 |
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author | Huang, Xueting Wang, Juanjuan Li, Jing Liu, Yanni Liu, Xue Li, Zeyao Kurniyati, Kurni Deng, Yijie Wang, Guilin Ralph, Joseph D De Ste Croix, Megan Escobar-Gonzalez, Sara Roberts, Richard J Veening, Jan-Willem Lan, Xun Oggioni, Marco R Li, Chunhao Zhang, Jing-Ren |
author_facet | Huang, Xueting Wang, Juanjuan Li, Jing Liu, Yanni Liu, Xue Li, Zeyao Kurniyati, Kurni Deng, Yijie Wang, Guilin Ralph, Joseph D De Ste Croix, Megan Escobar-Gonzalez, Sara Roberts, Richard J Veening, Jan-Willem Lan, Xun Oggioni, Marco R Li, Chunhao Zhang, Jing-Ren |
author_sort | Huang, Xueting |
collection | PubMed |
description | Type I restriction-modification (R-M) systems consist of a DNA endonuclease (HsdR, HsdM and HsdS subunits) and methyltransferase (HsdM and HsdS subunits). The hsdS sequences flanked by inverted repeats (referred to as epigenetic invertons) in certain Type I R-M systems undergo invertase-catalyzed inversions. Previous studies in Streptococcus pneumoniae have shown that hsdS inversions within clonal populations produce subpopulations with profound differences in the methylome, cellular physiology and virulence. In this study, we bioinformatically identified six major clades of the tyrosine and serine family invertases homologs from 16 bacterial phyla, which potentially catalyze hsdS inversions in the epigenetic invertons. In particular, the epigenetic invertons are highly enriched in host-associated bacteria. We further verified hsdS inversions in the Type I R-M systems of four representative host-associated bacteria and found that each of the resultant hsdS allelic variants specifies methylation of a unique DNA sequence. In addition, transcriptome analysis revealed that hsdS allelic variations in Enterococcus faecalis exert significant impact on gene expression. These findings indicate that epigenetic switches driven by invertases in the epigenetic invertons broadly operate in the host-associated bacteria, which may broadly contribute to bacterial host adaptation and virulence beyond the role of the Type I R-M systems against phage infection. |
format | Online Article Text |
id | pubmed-7672463 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2020 |
publisher | Oxford University Press |
record_format | MEDLINE/PubMed |
spelling | pubmed-76724632020-11-24 Prevalence of phase variable epigenetic invertons among host-associated bacteria Huang, Xueting Wang, Juanjuan Li, Jing Liu, Yanni Liu, Xue Li, Zeyao Kurniyati, Kurni Deng, Yijie Wang, Guilin Ralph, Joseph D De Ste Croix, Megan Escobar-Gonzalez, Sara Roberts, Richard J Veening, Jan-Willem Lan, Xun Oggioni, Marco R Li, Chunhao Zhang, Jing-Ren Nucleic Acids Res Gene regulation, Chromatin and Epigenetics Type I restriction-modification (R-M) systems consist of a DNA endonuclease (HsdR, HsdM and HsdS subunits) and methyltransferase (HsdM and HsdS subunits). The hsdS sequences flanked by inverted repeats (referred to as epigenetic invertons) in certain Type I R-M systems undergo invertase-catalyzed inversions. Previous studies in Streptococcus pneumoniae have shown that hsdS inversions within clonal populations produce subpopulations with profound differences in the methylome, cellular physiology and virulence. In this study, we bioinformatically identified six major clades of the tyrosine and serine family invertases homologs from 16 bacterial phyla, which potentially catalyze hsdS inversions in the epigenetic invertons. In particular, the epigenetic invertons are highly enriched in host-associated bacteria. We further verified hsdS inversions in the Type I R-M systems of four representative host-associated bacteria and found that each of the resultant hsdS allelic variants specifies methylation of a unique DNA sequence. In addition, transcriptome analysis revealed that hsdS allelic variations in Enterococcus faecalis exert significant impact on gene expression. These findings indicate that epigenetic switches driven by invertases in the epigenetic invertons broadly operate in the host-associated bacteria, which may broadly contribute to bacterial host adaptation and virulence beyond the role of the Type I R-M systems against phage infection. Oxford University Press 2020-10-29 /pmc/articles/PMC7672463/ /pubmed/33119758 http://dx.doi.org/10.1093/nar/gkaa907 Text en © The Author(s) 2020. 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 Non-Commercial 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 | Gene regulation, Chromatin and Epigenetics Huang, Xueting Wang, Juanjuan Li, Jing Liu, Yanni Liu, Xue Li, Zeyao Kurniyati, Kurni Deng, Yijie Wang, Guilin Ralph, Joseph D De Ste Croix, Megan Escobar-Gonzalez, Sara Roberts, Richard J Veening, Jan-Willem Lan, Xun Oggioni, Marco R Li, Chunhao Zhang, Jing-Ren Prevalence of phase variable epigenetic invertons among host-associated bacteria |
title | Prevalence of phase variable epigenetic invertons among host-associated bacteria |
title_full | Prevalence of phase variable epigenetic invertons among host-associated bacteria |
title_fullStr | Prevalence of phase variable epigenetic invertons among host-associated bacteria |
title_full_unstemmed | Prevalence of phase variable epigenetic invertons among host-associated bacteria |
title_short | Prevalence of phase variable epigenetic invertons among host-associated bacteria |
title_sort | prevalence of phase variable epigenetic invertons among host-associated bacteria |
topic | Gene regulation, Chromatin and Epigenetics |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7672463/ https://www.ncbi.nlm.nih.gov/pubmed/33119758 http://dx.doi.org/10.1093/nar/gkaa907 |
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