PXD012491

PXD012491 is an original dataset announced via ProteomeXchange.

Title	An Integrated Systems Approach Unveils New Aspects of Microoxia-mediated Regulation in Bradyrhizobium diazoefficiens
Description	Using an integrated systems approach, the expressed proteome of B. diazoefficiens strain 110scp4 was measured under i) normal, oxic growth, and ii) microoxic growth condtions. This included, as a first step, the sequencing and de novo assembly of the genome of this widely used rhizobial model strain, which turned out to harbor several deletions and insertions compared to the B. diazoefficiens USDA 110 NCBI reference genome. With this optimal basis in hand, a shotgun proteomics approach relying on a slightly adapated FASP protocol was carried out, allowing to identify 2900 (oxia) and 2826 (microoxia) proteins, respectively, thereby largely expanding the proteome known to be expressed under microoxic conditions.
HostingRepository	PRIDE
AnnounceDate	2019-05-30
AnnouncementXML	Submission_2019-05-29_19:31:48.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD012491
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Christian Ahrens
SpeciesList	scientific name: Bradyrhizobium diazoefficiens; NCBI TaxID: 1355477;
ModificationList	Deamidated; Oxidation; Carbamidomethyl
Instrument	Orbitrap Fusion

Revision	Datetime	Status	ChangeLog Entry
0	2019-01-24 01:49:58	ID requested
⏵ 1	2019-05-29 19:31:50	announced

Fern, á, ndez N, Cabrera JJ, Varadarajan AR, Lutz S, Ledermann R, Roschitzki B, Eberl L, Bedmar EJ, Fischer HM, Pessi G, Ahrens CH, Mesa S, . Front Microbiol, 10():924(2019) [pubmed]

curator keyword: Biological

submitter keyword: B. diazoefficiens, genome sequencing, comparative genomics, microoxia, shotgun proteomics, proteogenomics, transcriptomics, Rhizobia, symbiosis, FNR/CRP proteins

Dr. Socorro Mesa
contact affiliation	Department of Soil Microbiology and Symbiotic Systems, Estacion Experimental del Zaidin, Granada, Spain
contact email	socorro.mesa@eez.csic.es
lab head
Christian Ahrens
contact affiliation	Agroscope
contact email	christian.ahrens@agroscope.admin.ch
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/2019/05/PXD012491

PRIDE project URI

• PRIDE
  1. PXD012491
     1. Label: PRIDE project
     2. Name: An Integrated Systems Approach Unveils New Aspects of Microoxia-mediated Regulation in Bradyrhizobium diazoefficiens