Visual proteomics of the human pathogen Leptospira interrogans
(2009) In Nature Methods 6(11). p.23-817- Abstract
Systems biology conceptualizes biological systems as dynamic networks of interacting elements, whereby functionally important properties are thought to emerge from the structure of such networks. Owing to the ubiquitous role of complexes of interacting proteins in biological systems, their subunit composition and temporal and spatial arrangement within the cell are of particular interest. 'Visual proteomics' attempts to localize individual macromolecular complexes inside of intact cells by template matching reference structures into cryo-electron tomograms. Here we combined quantitative mass spectrometry and cryo-electron tomography to detect, count and localize specific protein complexes in the cytoplasm of the human pathogen... (More)
Systems biology conceptualizes biological systems as dynamic networks of interacting elements, whereby functionally important properties are thought to emerge from the structure of such networks. Owing to the ubiquitous role of complexes of interacting proteins in biological systems, their subunit composition and temporal and spatial arrangement within the cell are of particular interest. 'Visual proteomics' attempts to localize individual macromolecular complexes inside of intact cells by template matching reference structures into cryo-electron tomograms. Here we combined quantitative mass spectrometry and cryo-electron tomography to detect, count and localize specific protein complexes in the cytoplasm of the human pathogen Leptospira interrogans. We describe a scoring function for visual proteomics and assess its performance and accuracy under realistic conditions. We discuss current and general limitations of the approach, as well as expected improvements in the future.
(Less)
- author
- Beck, Martin ; Malmström, Johan A LU ; Lange, Vinzenz ; Schmidt, Alexander ; Deutsch, Eric W. and Aebersold, Ruedi
- publishing date
- 2009-11
- type
- Contribution to journal
- publication status
- published
- keywords
- Bacterial Proteins, Chromatography, Liquid, Ciprofloxacin, Computer Simulation, Cryoelectron Microscopy, Electron Microscope Tomography, Leptospira interrogans, Proteome, Proteomics, Stress, Physiological, Tandem Mass Spectrometry, Journal Article, Research Support, N.I.H., Extramural, Research Support, Non-U.S. Gov't
- in
- Nature Methods
- volume
- 6
- issue
- 11
- pages
- 7 pages
- publisher
- Nature Publishing Group
- external identifiers
-
- pmid:19838170
- scopus:70350709997
- ISSN
- 1548-7105
- DOI
- 10.1038/nmeth.1390
- language
- English
- LU publication?
- no
- id
- a547ca80-02fa-4585-b683-a06317c494c2
- date added to LUP
- 2017-09-04 17:20:18
- date last changed
- 2024-09-17 07:26:47
@article{a547ca80-02fa-4585-b683-a06317c494c2, abstract = {{<p>Systems biology conceptualizes biological systems as dynamic networks of interacting elements, whereby functionally important properties are thought to emerge from the structure of such networks. Owing to the ubiquitous role of complexes of interacting proteins in biological systems, their subunit composition and temporal and spatial arrangement within the cell are of particular interest. 'Visual proteomics' attempts to localize individual macromolecular complexes inside of intact cells by template matching reference structures into cryo-electron tomograms. Here we combined quantitative mass spectrometry and cryo-electron tomography to detect, count and localize specific protein complexes in the cytoplasm of the human pathogen Leptospira interrogans. We describe a scoring function for visual proteomics and assess its performance and accuracy under realistic conditions. We discuss current and general limitations of the approach, as well as expected improvements in the future.</p>}}, author = {{Beck, Martin and Malmström, Johan A and Lange, Vinzenz and Schmidt, Alexander and Deutsch, Eric W. and Aebersold, Ruedi}}, issn = {{1548-7105}}, keywords = {{Bacterial Proteins; Chromatography, Liquid; Ciprofloxacin; Computer Simulation; Cryoelectron Microscopy; Electron Microscope Tomography; Leptospira interrogans; Proteome; Proteomics; Stress, Physiological; Tandem Mass Spectrometry; Journal Article; Research Support, N.I.H., Extramural; Research Support, Non-U.S. Gov't}}, language = {{eng}}, number = {{11}}, pages = {{23--817}}, publisher = {{Nature Publishing Group}}, series = {{Nature Methods}}, title = {{Visual proteomics of the human pathogen Leptospira interrogans}}, url = {{http://dx.doi.org/10.1038/nmeth.1390}}, doi = {{10.1038/nmeth.1390}}, volume = {{6}}, year = {{2009}}, }