Coupling proteomics and metabolomics for the unsupervised identification of protein-metabolite interactions in Chaetomium thermophilum.
Protein-metabolite interactions play an important role in the cell's metabolism and many methods have been developed to screen them in vitro. However, few methods can be applied at a large scale and not alter biological state. Here we describe a proteometabolomic approach, using chromatography...
| Main Authors: | , , , , , , , , , |
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| Format: | Article |
| Language: | English |
| Published: |
Public Library of Science (PLoS)
2021-01-01
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| Series: | PLoS ONE |
| Online Access: | https://journals.plos.org/plosone/article/file?id=10.1371/journal.pone.0254429&type=printable |
| _version_ | 1826554697310273536 |
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| author | Yuanyue Li Michael Kuhn Joanna Zukowska-Kasprzyk Marco L Hennrich Panagiotis L Kastritis Francis J O'Reilly Prasad Phapale Martin Beck Anne-Claude Gavin Peer Bork |
| author_facet | Yuanyue Li Michael Kuhn Joanna Zukowska-Kasprzyk Marco L Hennrich Panagiotis L Kastritis Francis J O'Reilly Prasad Phapale Martin Beck Anne-Claude Gavin Peer Bork |
| author_sort | Yuanyue Li |
| collection | DOAJ |
| description | Protein-metabolite interactions play an important role in the cell's metabolism and many methods have been developed to screen them in vitro. However, few methods can be applied at a large scale and not alter biological state. Here we describe a proteometabolomic approach, using chromatography to generate cell fractions which are then analyzed with mass spectrometry for both protein and metabolite identification. Integrating the proteomic and metabolomic analyses makes it possible to identify protein-bound metabolites. Applying the concept to the thermophilic fungus Chaetomium thermophilum, we predict 461 likely protein-metabolite interactions, most of them novel. As a proof of principle, we experimentally validate a predicted interaction between the ribosome and isopentenyl adenine. |
| first_indexed | 2024-12-14T07:40:34Z |
| format | Article |
| id | doaj.art-96a7478f6dc84ecaaf836e81e344870f |
| institution | Directory Open Access Journal |
| issn | 1932-6203 |
| language | English |
| last_indexed | 2025-03-14T07:45:02Z |
| publishDate | 2021-01-01 |
| publisher | Public Library of Science (PLoS) |
| record_format | Article |
| series | PLoS ONE |
| spelling | doaj.art-96a7478f6dc84ecaaf836e81e344870f2025-03-03T05:33:21ZengPublic Library of Science (PLoS)PLoS ONE1932-62032021-01-01167e025442910.1371/journal.pone.0254429Coupling proteomics and metabolomics for the unsupervised identification of protein-metabolite interactions in Chaetomium thermophilum.Yuanyue LiMichael KuhnJoanna Zukowska-KasprzykMarco L HennrichPanagiotis L KastritisFrancis J O'ReillyPrasad PhapaleMartin BeckAnne-Claude GavinPeer BorkProtein-metabolite interactions play an important role in the cell's metabolism and many methods have been developed to screen them in vitro. However, few methods can be applied at a large scale and not alter biological state. Here we describe a proteometabolomic approach, using chromatography to generate cell fractions which are then analyzed with mass spectrometry for both protein and metabolite identification. Integrating the proteomic and metabolomic analyses makes it possible to identify protein-bound metabolites. Applying the concept to the thermophilic fungus Chaetomium thermophilum, we predict 461 likely protein-metabolite interactions, most of them novel. As a proof of principle, we experimentally validate a predicted interaction between the ribosome and isopentenyl adenine.https://journals.plos.org/plosone/article/file?id=10.1371/journal.pone.0254429&type=printable |
| spellingShingle | Yuanyue Li Michael Kuhn Joanna Zukowska-Kasprzyk Marco L Hennrich Panagiotis L Kastritis Francis J O'Reilly Prasad Phapale Martin Beck Anne-Claude Gavin Peer Bork Coupling proteomics and metabolomics for the unsupervised identification of protein-metabolite interactions in Chaetomium thermophilum. PLoS ONE |
| title | Coupling proteomics and metabolomics for the unsupervised identification of protein-metabolite interactions in Chaetomium thermophilum. |
| title_full | Coupling proteomics and metabolomics for the unsupervised identification of protein-metabolite interactions in Chaetomium thermophilum. |
| title_fullStr | Coupling proteomics and metabolomics for the unsupervised identification of protein-metabolite interactions in Chaetomium thermophilum. |
| title_full_unstemmed | Coupling proteomics and metabolomics for the unsupervised identification of protein-metabolite interactions in Chaetomium thermophilum. |
| title_short | Coupling proteomics and metabolomics for the unsupervised identification of protein-metabolite interactions in Chaetomium thermophilum. |
| title_sort | coupling proteomics and metabolomics for the unsupervised identification of protein metabolite interactions in chaetomium thermophilum |
| url | https://journals.plos.org/plosone/article/file?id=10.1371/journal.pone.0254429&type=printable |
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