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  The Archaeal Proteome Project advances knowledge about archaeal cell biology through comprehensive proteomics

Schulze, S., Adams, Z., Cerletti, M., Castro, R. D., Ferreira-Cerca, S., Fufezan, C., et al. (2020). The Archaeal Proteome Project advances knowledge about archaeal cell biology through comprehensive proteomics. Nature Communications, 11: 3145. doi:10.1038/s41467-020-16784-7.

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Item Permalink: http://hdl.handle.net/21.11116/0000-0007-6B74-F Version Permalink: http://hdl.handle.net/21.11116/0000-0007-6B77-C
Genre: Journal Article

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 Creators:
Schulze, S., Author
Adams, Z., Author
Cerletti, M., Author
Castro, R. De, Author
Ferreira-Cerca, S., Author
Fufezan, C., Author
Giménez, M. I., Author
Hippler, M., Author
Jevtic, Z., Author
Knüppel, R., Author
Legerme, G., Author
Lenz, C.1, Author              
Marchfelder, A., Author
Maupin-Furlow, J., Author
Paggi, R. A., Author
Pfeiffer, F., Author
Poetsch, A., Author
Urlaub, H.2, Author              
Pohlschroder, M., Author
Affiliations:
1Research Group of Bioanalytical Mass Spectrometry, MPI for Biophysical Chemistry, Max Planck Society, ou_578613              
2Research Group of Bioanalytical Mass Spectrometry, MPI for biophysical chemistry, Max Planck Society, ou_578613              

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Free keywords: Archaeal biology; Proteome informatics
 Abstract: While many aspects of archaeal cell biology remain relatively unexplored, systems biology approaches like mass spectrometry (MS) based proteomics offer an opportunity for rapid advances. Unfortunately, the enormous amount of MS data generated often remains incompletely analyzed due to a lack of sophisticated bioinformatic tools and field-specific biological expertise for data interpretation. Here we present the initiation of the Archaeal Proteome Project (ArcPP), a community-based effort to comprehensively analyze archaeal proteomes. Starting with the model archaeon Haloferax volcanii, we reanalyze MS datasets from various strains and culture conditions. Optimized peptide spectrum matching, with strict control of false discovery rates, facilitates identifying > 72% of the reference proteome, with a median protein sequence coverage of 51%. These analyses, together with expert knowledge in diverse aspects of cell biology, provide meaningful insights into processes such as N-terminal protein maturation, N-glycosylation, and metabolism. Altogether, ArcPP serves as an invaluable blueprint for comprehensive prokaryotic proteomics.

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Language(s): eng - English
 Dates: 2020-06-19
 Publication Status: Published online
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 Rev. Type: Peer
 Identifiers: DOI: 10.1038/s41467-020-16784-7
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Title: Nature Communications
Source Genre: Journal
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Pages: 14 Volume / Issue: 11 Sequence Number: 3145 Start / End Page: - Identifier: -