Cargando…

Identification of nucleoid associated proteins (NAPs) under oxidative stress in Staphylococcus aureus

BACKGROUND: Bacterial nucleoid consists of genome DNA, RNA, and hundreds of nucleoid-associated proteins (NAPs). Escherichia coli nucleoid is compacted towards the stationary phase, replacing most log-phase NAPs with the major stationary-phase nucleoid protein, Dps. In contrast, Staphylococcus aureu...

Descripción completa

Detalles Bibliográficos
Autores principales: Ushijima, Yuri, Ohniwa, Ryosuke L., Morikawa, Kazuya
Formato: Online Artículo Texto
Lenguaje:English
Publicado: BioMed Central 2017
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5625760/
https://www.ncbi.nlm.nih.gov/pubmed/28969590
http://dx.doi.org/10.1186/s12866-017-1114-3
_version_ 1783268447805767680
author Ushijima, Yuri
Ohniwa, Ryosuke L.
Morikawa, Kazuya
author_facet Ushijima, Yuri
Ohniwa, Ryosuke L.
Morikawa, Kazuya
author_sort Ushijima, Yuri
collection PubMed
description BACKGROUND: Bacterial nucleoid consists of genome DNA, RNA, and hundreds of nucleoid-associated proteins (NAPs). Escherichia coli nucleoid is compacted towards the stationary phase, replacing most log-phase NAPs with the major stationary-phase nucleoid protein, Dps. In contrast, Staphylococcus aureus nucleoid sustains the fiber structures throughout the growth. Instead, the Dps homologue, MrgA, expresses under oxidative stress conditions to clump the nucleoid, but the composition of the clumped nucleoid was elusive. RESULTS: The staphylococcal nucleoid under oxidative stress was isolated by sucrose gradient centrifugation, and the proteins were analyzed by liquid chromatography-mass spectrometry/mass spectrometry (LC-MS/MS). We identified 299 proteins in the nucleoid under oxidative stress, including 113 csNAPs (contaminant-subtracted NAPs). Comparison with the previously identified csNAPs in log- and stationary phase indicated that one fifth of the csNAPs under oxidative stress were the constitutive nucleoid components; importantly, several factors including HU, SarA, FabZ, and ribosomes were sustained under oxidative stress. Some factors (e.g. SA1663 and SA0092/SA0093) with unknown functions were included in the csNAPs list specifically under oxidative stress condition. CONCLUSION: Nucleoid constitutively holds Hu, SarA, FabG, and ribosomal proteins even under the oxidative stress, reflecting the active functions of the clumped nucleoid, unlikely to the dormant E. coli nucleoid compacted in the stationary phase or starvation. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (10.1186/s12866-017-1114-3) contains supplementary material, which is available to authorized users.
format Online
Article
Text
id pubmed-5625760
institution National Center for Biotechnology Information
language English
publishDate 2017
publisher BioMed Central
record_format MEDLINE/PubMed
spelling pubmed-56257602017-10-12 Identification of nucleoid associated proteins (NAPs) under oxidative stress in Staphylococcus aureus Ushijima, Yuri Ohniwa, Ryosuke L. Morikawa, Kazuya BMC Microbiol Research Article BACKGROUND: Bacterial nucleoid consists of genome DNA, RNA, and hundreds of nucleoid-associated proteins (NAPs). Escherichia coli nucleoid is compacted towards the stationary phase, replacing most log-phase NAPs with the major stationary-phase nucleoid protein, Dps. In contrast, Staphylococcus aureus nucleoid sustains the fiber structures throughout the growth. Instead, the Dps homologue, MrgA, expresses under oxidative stress conditions to clump the nucleoid, but the composition of the clumped nucleoid was elusive. RESULTS: The staphylococcal nucleoid under oxidative stress was isolated by sucrose gradient centrifugation, and the proteins were analyzed by liquid chromatography-mass spectrometry/mass spectrometry (LC-MS/MS). We identified 299 proteins in the nucleoid under oxidative stress, including 113 csNAPs (contaminant-subtracted NAPs). Comparison with the previously identified csNAPs in log- and stationary phase indicated that one fifth of the csNAPs under oxidative stress were the constitutive nucleoid components; importantly, several factors including HU, SarA, FabZ, and ribosomes were sustained under oxidative stress. Some factors (e.g. SA1663 and SA0092/SA0093) with unknown functions were included in the csNAPs list specifically under oxidative stress condition. CONCLUSION: Nucleoid constitutively holds Hu, SarA, FabG, and ribosomal proteins even under the oxidative stress, reflecting the active functions of the clumped nucleoid, unlikely to the dormant E. coli nucleoid compacted in the stationary phase or starvation. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (10.1186/s12866-017-1114-3) contains supplementary material, which is available to authorized users. BioMed Central 2017-10-02 /pmc/articles/PMC5625760/ /pubmed/28969590 http://dx.doi.org/10.1186/s12866-017-1114-3 Text en © The Author(s). 2017 Open AccessThis article is distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated.
spellingShingle Research Article
Ushijima, Yuri
Ohniwa, Ryosuke L.
Morikawa, Kazuya
Identification of nucleoid associated proteins (NAPs) under oxidative stress in Staphylococcus aureus
title Identification of nucleoid associated proteins (NAPs) under oxidative stress in Staphylococcus aureus
title_full Identification of nucleoid associated proteins (NAPs) under oxidative stress in Staphylococcus aureus
title_fullStr Identification of nucleoid associated proteins (NAPs) under oxidative stress in Staphylococcus aureus
title_full_unstemmed Identification of nucleoid associated proteins (NAPs) under oxidative stress in Staphylococcus aureus
title_short Identification of nucleoid associated proteins (NAPs) under oxidative stress in Staphylococcus aureus
title_sort identification of nucleoid associated proteins (naps) under oxidative stress in staphylococcus aureus
topic Research Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5625760/
https://www.ncbi.nlm.nih.gov/pubmed/28969590
http://dx.doi.org/10.1186/s12866-017-1114-3
work_keys_str_mv AT ushijimayuri identificationofnucleoidassociatedproteinsnapsunderoxidativestressinstaphylococcusaureus
AT ohniwaryosukel identificationofnucleoidassociatedproteinsnapsunderoxidativestressinstaphylococcusaureus
AT morikawakazuya identificationofnucleoidassociatedproteinsnapsunderoxidativestressinstaphylococcusaureus