PXD004061

PXD004061 is an original dataset announced via ProteomeXchange.

Title	Bathymodiolus azoricus host-symbiont proteomics
Description	Bathymodiolus azoricus is a deep-sea mussel found in the hydrothermal vent fields of the Mid-Atlantic Ridge. It lives in symbiosis with sulfur- and methane-oxidizing γ-proteobacteria within its gills. In our study, we aimed to understand the metabolic and physiological interconnections between the symbiotic partners. For this purpose, symbionts and host were physically separated using density gradient centrifugation. This procedure yielded a symbiont-enriched gradient pellet fraction and a supernatant fraction enriched in host components. The cytosolic and membrane-associated proteome of both these fractions along with whole gill and foot tissue of the mussel were then investigated through 1D-PAGE LC-MS/MS. Proteins were quantified based on their spectral counts using the NSAF method. For efficient identification, sequences from evolutionarily related endosymbiotic and free-living bacteria and from bivalve host relatives were compiled into a comprehensive protein database. A total of 3178 host and symbiont proteins were identified from all samples.
HostingRepository	PRIDE
AnnounceDate	2017-10-24
AnnouncementXML	Submission_2017-10-24_05:52:23.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD004061
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Ruby Ponnudurai
SpeciesList	scientific name: methanotrophic endosymbiont of Bathymodiolus azoricus (Menez Gwen); NCBI TaxID: 343232; scientific name: thiotrophic endosymbiont of Bathymodiolus azoricus (Menez Gwen); NCBI TaxID: 343237; scientific name: Bathymodiolus azoricus (Mussel); NCBI TaxID: 150808;
ModificationList	No PTMs are included in the dataset
Instrument	LTQ Orbitrap Velos; LTQ Orbitrap

Revision	Datetime	Status	ChangeLog Entry
0	2016-04-27 01:58:46	ID requested
1	2016-10-06 08:17:47	announced
2	2016-10-07 05:45:16	announced	Updated project metadata.
3	2016-11-17 05:42:06	announced	Updated project metadata.
4	2017-10-24 03:07:59	announced	Updated project metadata.
⏵ 5	2017-10-24 05:52:25	announced	Updated project metadata.

Sayavedra L, Kleiner M, Ponnudurai R, Wetzel S, Pelletier E, Barbe V, Satoh N, Shoguchi E, Fink D, Breusing C, Reusch TB, Rosenstiel P, Schilhabel MB, Becher D, Schweder T, Markert S, Dubilier N, Petersen JM, Abundant toxin-related genes in the genomes of beneficial symbionts from deep-sea hydrothermal vent mussels. Elife, 4():e07966(2015) [pubmed]

Ponnudurai R, Kleiner M, Sayavedra L, Petersen JM, Moche M, Otto A, Becher D, Takeuchi T, Satoh N, Dubilier N, Schweder T, Markert S, Metabolic and physiological interdependencies in the Bathymodiolus azoricus symbiosis. ISME J, 11(2):463-477(2017) [pubmed]

curator keyword: Biological

submitter keyword: Bathymodiolus, symbiont, host, proteomics, LC-MS/MS

Thomas Schweder, Stephanie Markert
contact affiliation	University of Greifswald, Institut für Pharmazie/C_DAT, Pharmazeutische Biotechnologie, Felix-Hausdorff-Str. 3, 17489 Greifswald
contact email	stephanie.markert@uni-greifswald.de
lab head
Ruby Ponnudurai
contact affiliation	University of Greifswald
contact email	rp114410@uni-greifswald.de
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/2016/10/PXD004061

PRIDE project URI

• PRIDE
  1. PXD004061
     1. Label: PRIDE project
     2. Name: Bathymodiolus azoricus host-symbiont proteomics