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Nitrososphaera viennensis

ABSTRACT: Nitrososphaera viennensis overview

PROVIDER: PRJNA70491 | ENA |

REPOSITORIES: ENA

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Dataset's files

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			Action	DRS
		Other
	DRR183659.fastq.gz	Fastqsanger.gz
	DRR183660.fastq.gz	Fastqsanger.gz
	DRR183661.fastq.gz	Fastqsanger.gz
	DRR183662.fastq.gz	Fastqsanger.gz

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Nitrososphaera viennensis EN76

Project description:Nitrososphaera viennensis EN76 Genome sequencing

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Nitrososphaera viennensis EN76

Project description:Nitrososphaera viennensis EN76 Raw sequence reads

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Nitrososphaera viennensis strain:PLX03 | isolate:PLX03

Project description:Nitrososphaera viennensis strain:PLX03 | isolate:PLX03 Genome sequencing

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Proteomics and comparative genomics of Nitrososphaera viennensis

Project 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.

2017-05-03 | PXD005297 | Pride

Copper Limitation in Nitrososphaera viennensis

Project description:Pure cultures of N. viennensis were subjected to copper limitation using the copper chelator TETA. Two samples that were subjected to copper limiation for approximately two weeks were used for protein extraction and subsequent proteomic analysis.

2020-07-15 | PXD018461 | Pride

Membrane Fraction Complexome of Nitrososphaera viennensis with BN-PAGE and Examination of the Archaeal Ammonia Monooxygenase Complex via SDS-Tricine-PAGE

Project description:Information on the files related to the respective experiments can be found in the metadata file titled “Metadata_for_Nviennensis_Experiments.xlsx”. The data found here encompasses three related mass spectrometry experiments: 1.) BN-PAGE: Biomass of Nitrososphaera viennensis grown in a bioreactor was lysed and membrane fractions were harvested using an ultracentrifuge. Membrane proteins were extracted using n-dodecyl-beta-D-maltoside (DDM) and loaded on a 3-12% gradient blue native PAGE gel. Selected bands were cut out and analyzed via mass spectrometry. 2.) SDS-Tricine-PAGE of AMO Band: A band containing a large amount of the ammonia monooxygenase complex (AMO) was denatured and run on a 15% SDS-Tricine-PAGE gel to identify individual subunits. 3.) AmoC from SDS-Tricine-PAGE: A band containing a high amount of AmoC from the SDS-Tricine-PAGE gel was processed with three separate digestive enzymes (trypsin, chymotrypsin, or GluC) to identify unique peptides among the six AmoC homologs found in the genome of N. viennensis.

2023-02-13 | PXD035349 | Pride

Candidatus Nitrososphaera gargensis

Project description:Candidatus Nitrososphaera gargensis overview

| PRJNA60551 | ENA

Cross-linked ammonia monooxygenase complex in BN-PAGE gel from Nitrososphaera viennensis

Project description:A band containing the ammonia monooxygenase complex from Nitrosospheara viennensis was cut from a Blue Native PAGE gel and cross linked using DSSO.

2023-02-13 | PXD034475 | Pride

Nitrososphaera viennensis, an ammonia oxidizing archaeon from soil.

Project description:Genes of archaea encoding homologues of ammonia monooxygenases have been found on a widespread basis and in large amounts in almost all terrestrial and marine environments, indicating that ammonia oxidizing archaea (AOA) might play a major role in nitrification on Earth. However, only one pure isolate of this group from a marine environment has so far been obtained, demonstrating archaeal ammonia oxidation coupled with autotrophic growth similar to the bacterial counterparts. Here we describe the cultivation and isolation of an AOA from soil. It grows on ammonia or urea as an energy source and is capable of using higher ammonia concentrations than the marine isolate, Nitrosopumilus maritimus. Surprisingly, although it is able to grow chemolithoautotrophically, considerable growth rates of this strain are obtained only upon addition of low amounts of pyruvate or when grown in coculture with bacteria. Our findings expand the recognized metabolic spectrum of AOA and help explain controversial results obtained in the past on the activity and carbon assimilation of these globally distributed organisms.

| S-EPMC3100973 | biostudies-literature

Tetranychus viennensis

Project description:Tetranychus viennensis Raw sequence reads

| PRJNA1176021 | ENA