PXD005297 is an
original dataset announced via ProteomeXchange.
Dataset Summary
Title | Proteomics and comparative genomics of Nitrososphaera viennensis |
Description | Ammonia-oxidizing archaea (AOA) are among the most abundant microorganisms and key players in the global nitrogen and carbon cycles. They share a common energy metabolism but represent a heterogeneous group with respect to their environmental distri- bution and adaptions, growth requirements, and genome contents. We report here the genome and proteome of Nitrososphaera viennensis EN76, the type species of the archaeal class Nitrososphaeria of the phylum Thaumarchaeota encompassing all known AOA. N. viennensis is a soil organism with a 2.52-Mb genome and 3,123 predicted protein-coding genes. Proteomic analysis revealed that nearly 50% of the predicted genes were translated under standard laboratory growth conditions. Comparison with genomes of closely related species of the predominantly terrestrial Nitrososphaerales as well as the more streamlined marine Nitrosopumilales (Candidatus order) and the acidophile Nitrosotalea devanaterra revealed a core genome of AOA comprising 860 genes, which allowed for the reconstruction of central metabolic pathways common to all known AOA and expressed in the N. viennensis and Nitrosopelagicus brevis proteomes. Concomitantly, we were able to identify candidate proteins for as yet unidentified crucial steps in central metabolisms. In addition to unraveling aspects of core AOA metabolism, we identified specific metabolic innovations associated with the Nitrososphaerales mediating growth and survival in the soil milieu, including the capacity for biofilm formation, cell surface modifications and cell adhesion, and carbohydrate conversions as well as detoxification of aromatic compounds and drugs. |
HostingRepository | PRIDE |
AnnounceDate | 2017-05-03 |
AnnouncementXML | Submission_2017-05-03_08:25:00.xml |
DigitalObjectIdentifier | |
ReviewLevel | Peer-reviewed dataset |
DatasetOrigin | Original dataset |
RepositorySupport | Unsupported dataset by repository |
PrimarySubmitter | Melina Kerou |
SpeciesList | scientific name: Nitrososphaera viennensis EN76; NCBI TaxID: 926571; |
ModificationList | monohydroxylated residue; acetylated residue; iodoacetamide derivatized residue |
Instrument | LTQ Orbitrap |
Dataset History
Revision | Datetime | Status | ChangeLog Entry |
0 | 2016-11-08 05:45:31 | ID requested | |
⏵ 1 | 2017-05-03 08:25:02 | announced | |
Publication List
Kerou M, Offre P, Valledor L, Abby SS, Melcher M, Nagler M, Weckwerth W, Schleper C, Proteomics and comparative genomics of Nitrososphaera viennensis reveal the core genome and adaptations of archaeal ammonia oxidizers. Proc Natl Acad Sci U S A, 113(49):E7937-E7946(2016) [pubmed] |
Keyword List
curator keyword: Biological |
submitter keyword: archaea, ammonia oxidation, biofilm |
Contact List
Wolfram Weckwerth |
contact affiliation | Department of Ecogenomics and Systems Biology, University of Vienna; Vienna Metabolomics Centre, University of Vienna, Austria |
contact email | wolfram.weckwerth@univie.ac.at |
lab head | |
Melina Kerou |
contact affiliation | University of Vienna |
contact email | melina.kerou@univie.ac.at |
dataset submitter | |
Full Dataset Link List
Dataset FTP location
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PRIDE project URI |
Repository Record List
[ + ]
[ - ]
- PRIDE
- PXD005297
- Label: PRIDE project
- Name: Proteomics and comparative genomics of Nitrososphaera viennensis