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PXD005297 is an original dataset announced via ProteomeXchange.

Dataset Summary
TitleProteomics and comparative genomics of Nitrososphaera viennensis
DescriptionAmmonia-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.
ReviewLevelPeer-reviewed dataset
DatasetOriginOriginal dataset
RepositorySupportUnsupported dataset by repository
PrimarySubmitterMelina Kerou
SpeciesList scientific name: Nitrososphaera viennensis EN76; NCBI TaxID: 926571;
ModificationListmonohydroxylated residue; acetylated residue; iodoacetamide derivatized residue
InstrumentLTQ Orbitrap
Dataset History
RevisionDatetimeStatusChangeLog Entry
02016-11-08 05:45:31ID requested
12017-05-03 08:25:02announced
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 affiliationDepartment of Ecogenomics and Systems Biology, University of Vienna; Vienna Metabolomics Centre, University of Vienna, Austria
contact emailwolfram.weckwerth@univie.ac.at
lab head
Melina Kerou
contact affiliationUniversity of Vienna
contact emailmelina.kerou@univie.ac.at
dataset submitter
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