PXD021606

PXD021606 is an original dataset announced via ProteomeXchange.

Title	Metabolic versatility of the nitrite-oxidizing bacterium Nitrospira marina and its proteomic response to oxygen-limited conditions
Description	In this study, we investigated the metabolic potential of N. marina based on its complete genome sequence and performed physiological experiments to test genome-derived hypotheses. Our data confirm that N. marina benefits from additions of undefined organic carbon substrates, has adaptations to resist oxidative, osmotic and UV light-induced stress and low dissolved pCO2. Additionally, N. marina is able to grow chemoorganotrophically on formate, and is thus not an obligate chemolithoautotroph. We further investigated the metabolic response of N. marina to low (5.6 µM) O2 concentrations. In response to O2-limited conditions, the abundance of a potentially more efficient CO2-fixing pyruvate:ferredoxin oxidoreductase (POR) complex and a high-affinity cbb3-type terminal oxidase increased, suggesting a role in sustaining nitrite oxidation-driven autotrophy under O2 limitation.
HostingRepository	PRIDE
AnnounceDate	2021-04-21
AnnouncementXML	Submission_2021-04-20_22:54:30.616.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD021606
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Matthew McIlvin
SpeciesList	scientific name: Nitrospira marina Nb-295; NCBI TaxID: 35815;
ModificationList	monohydroxylated residue; acetylated residue; iodoacetamide derivatized residue
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2020-09-22 01:59:26	ID requested
1	2021-04-20 14:12:33	announced
⏵ 2	2021-04-20 22:54:31	announced	2021-04-21: Updated project metadata.

10.1038/S41396-020-00828-3;

Bayer B, Saito MA, McIlvin MR, L, ü, cker S, Moran DM, Lankiewicz TS, Dupont CL, Santoro AE, Metabolic versatility of the nitrite-oxidizing bacterium Nitrospira marina and its proteomic response to oxygen-limited conditions. ISME J, 15(4):1025-1039(2021) [pubmed]

submitter keyword: LC-MSMS,Nitrospira marina, Thermo orbitrap

Mak Saito
contact affiliation	Marine Chemistry and Geochemistry, Woods Hole Oceanographic Institute, US
contact email	msaito@whoi.edu
lab head
Matthew McIlvin
contact affiliation	Woods Hole Oceanographic Inst.
contact email	mmcilvin@whoi.edu
dataset submitter

Dataset FTP location NOTE: Most web browsers have now discontinued native support for FTP access within the browser window. But you can usually install another FTP app (we recommend FileZilla) and configure your browser to launch the external application when you click on this FTP link. Or otherwise, launch an app that supports FTP (like FileZilla) and use this address: ftp://ftp.pride.ebi.ac.uk/pride/data/archive/2021/04/PXD021606

PRIDE project URI

• PRIDE
  1. PXD021606
     1. Label: PRIDE project
     2. Name: Metabolic versatility of the nitrite-oxidizing bacterium Nitrospira marina and its proteomic response to oxygen-limited conditions