A Staphylococcus aureus Proteome Overview: Shared and Specific Proteins and Protein Complexes from Representative Strains of All Three Clades
Staphylococcus aureus is an important model organism and pathogen. This S. aureus proteome overview details shared and specific proteins and selected virulence-relevant protein complexes from representative strains of all three major clades. To determine the strain distribution and major clades we u...
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doaj-b7d79c40ec044621ac26aa25c71dd45d2020-11-24T23:04:29ZengMDPI AGProteomes2227-73822016-02-0141810.3390/proteomes4010008proteomes4010008A Staphylococcus aureus Proteome Overview: Shared and Specific Proteins and Protein Complexes from Representative Strains of All Three CladesChunguang Liang0Dominik Schaack1Mugdha Srivastava2Shishir K. Gupta3Edita Sarukhanyan4Anne Giese5Martin Pagels6Natalie Romanov7Jan Pané-Farré8Stephan Fuchs9Thomas Dandekar10Department of Bioinformatics, Biocenter, University of Würzburg, 97074 Würzburg, GermanyDepartment of Bioinformatics, Biocenter, University of Würzburg, 97074 Würzburg, GermanyDepartment of Bioinformatics, Biocenter, University of Würzburg, 97074 Würzburg, GermanyDepartment of Bioinformatics, Biocenter, University of Würzburg, 97074 Würzburg, GermanyDepartment of Bioinformatics, Biocenter, University of Würzburg, 97074 Würzburg, GermanyInstitut für Mikrobiologie Ernst-Moritz-Arndt-Universität Greifswald, Friedrich-Ludwig-Jahn-Straße 15, D-17487 Greifswald, GermanyInstitut für Mikrobiologie Ernst-Moritz-Arndt-Universität Greifswald, Friedrich-Ludwig-Jahn-Straße 15, D-17487 Greifswald, GermanyStructural and Computational Biology, European Molecular Biology Laboratory, Mayerhofstr. 1, D-69126 Heidelberg, GermanyInstitut für Mikrobiologie Ernst-Moritz-Arndt-Universität Greifswald, Friedrich-Ludwig-Jahn-Straße 15, D-17487 Greifswald, GermanyFG13 Nosocomial Pathogens and Antibiotic Resistance, Robert Koch Institut (RKI); Burgstr. 37; D-38855 Wernigerode, GermanyDepartment of Bioinformatics, Biocenter, University of Würzburg, 97074 Würzburg, GermanyStaphylococcus aureus is an important model organism and pathogen. This S. aureus proteome overview details shared and specific proteins and selected virulence-relevant protein complexes from representative strains of all three major clades. To determine the strain distribution and major clades we used a refined strain comparison combining ribosomal RNA, MLST markers, and looking at highly-conserved regions shared between strains. This analysis shows three sub-clades (A–C) for S. aureus. As calculations are complex and strain annotation is quite time consuming we compare here key representatives of each clade with each other: model strains COL, USA300, Newman, and HG001 (clade A), model strain N315 and Mu50 (clade B) and ED133 and MRSA252 (clade C). We look at these individual proteomes and compare them to a background of 64 S. aureus strains. There are overall 13,284 S. aureus proteins not part of the core proteome which are involved in different strain-specific or more general complexes requiring detailed annotation and new experimental data to be accurately delineated. By comparison of the eight representative strains, we identify strain-specific proteins (e.g., 18 in COL, 105 in N315 and 44 in Newman) that characterize each strain and analyze pathogenicity islands if they contain such strain-specific proteins. We identify strain-specific protein repertoires involved in virulence, in cell wall metabolism, and phosphorylation. Finally we compare and analyze protein complexes conserved and well-characterized among S. aureus (a total of 103 complexes), as well as predict and analyze several individual protein complexes, including structure modeling in the three clades.http://www.mdpi.com/2227-7382/4/1/8Staphylococcus aureusproteomeprotein complexesmodel strain |
collection |
DOAJ |
language |
English |
format |
Article |
sources |
DOAJ |
author |
Chunguang Liang Dominik Schaack Mugdha Srivastava Shishir K. Gupta Edita Sarukhanyan Anne Giese Martin Pagels Natalie Romanov Jan Pané-Farré Stephan Fuchs Thomas Dandekar |
spellingShingle |
Chunguang Liang Dominik Schaack Mugdha Srivastava Shishir K. Gupta Edita Sarukhanyan Anne Giese Martin Pagels Natalie Romanov Jan Pané-Farré Stephan Fuchs Thomas Dandekar A Staphylococcus aureus Proteome Overview: Shared and Specific Proteins and Protein Complexes from Representative Strains of All Three Clades Proteomes Staphylococcus aureus proteome protein complexes model strain |
author_facet |
Chunguang Liang Dominik Schaack Mugdha Srivastava Shishir K. Gupta Edita Sarukhanyan Anne Giese Martin Pagels Natalie Romanov Jan Pané-Farré Stephan Fuchs Thomas Dandekar |
author_sort |
Chunguang Liang |
title |
A Staphylococcus aureus Proteome Overview: Shared and Specific Proteins and Protein Complexes from Representative Strains of All Three Clades |
title_short |
A Staphylococcus aureus Proteome Overview: Shared and Specific Proteins and Protein Complexes from Representative Strains of All Three Clades |
title_full |
A Staphylococcus aureus Proteome Overview: Shared and Specific Proteins and Protein Complexes from Representative Strains of All Three Clades |
title_fullStr |
A Staphylococcus aureus Proteome Overview: Shared and Specific Proteins and Protein Complexes from Representative Strains of All Three Clades |
title_full_unstemmed |
A Staphylococcus aureus Proteome Overview: Shared and Specific Proteins and Protein Complexes from Representative Strains of All Three Clades |
title_sort |
staphylococcus aureus proteome overview: shared and specific proteins and protein complexes from representative strains of all three clades |
publisher |
MDPI AG |
series |
Proteomes |
issn |
2227-7382 |
publishDate |
2016-02-01 |
description |
Staphylococcus aureus is an important model organism and pathogen. This S. aureus proteome overview details shared and specific proteins and selected virulence-relevant protein complexes from representative strains of all three major clades. To determine the strain distribution and major clades we used a refined strain comparison combining ribosomal RNA, MLST markers, and looking at highly-conserved regions shared between strains. This analysis shows three sub-clades (A–C) for S. aureus. As calculations are complex and strain annotation is quite time consuming we compare here key representatives of each clade with each other: model strains COL, USA300, Newman, and HG001 (clade A), model strain N315 and Mu50 (clade B) and ED133 and MRSA252 (clade C). We look at these individual proteomes and compare them to a background of 64 S. aureus strains. There are overall 13,284 S. aureus proteins not part of the core proteome which are involved in different strain-specific or more general complexes requiring detailed annotation and new experimental data to be accurately delineated. By comparison of the eight representative strains, we identify strain-specific proteins (e.g., 18 in COL, 105 in N315 and 44 in Newman) that characterize each strain and analyze pathogenicity islands if they contain such strain-specific proteins. We identify strain-specific protein repertoires involved in virulence, in cell wall metabolism, and phosphorylation. Finally we compare and analyze protein complexes conserved and well-characterized among S. aureus (a total of 103 complexes), as well as predict and analyze several individual protein complexes, including structure modeling in the three clades. |
topic |
Staphylococcus aureus proteome protein complexes model strain |
url |
http://www.mdpi.com/2227-7382/4/1/8 |
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