PXD040273-1

PXD040273 is an original dataset announced via ProteomeXchange.

Title	Metaproteomics to study metabolic handoffs in the Idas modiolaeformis symbiosis
Description	The goal of this study was to identify the key functions of the six main symbionts that are hosted in gills of the marine bivalve, Idas modiolaeformis, which lives at deep-sea hydrocarbon seeps and wood falls in the Eastern Atlantic Ocean and the Mediterranean Sea. These symbionts include the main autotrophic methane- and sulfur-oxidizing lineages (Methyloprofundus, Thioglobus, Thiodubillierella), as well as a Methylophagaceae methylotrophic autotroph, a flavobacterial degrader of complex polysaccharides Urechidicola and a Nitrincolaceae heterotroph that specializes in degradation of nitrogen-rich compounds such as peptides and nucleosides. Four I. modiolaeformis individuals were preserved in RNAlater following retrieval from a brine pool habitat in the Eastern Mediterranean at 1,150 m water depth (32° 13.4' N 34° 10.7' E), using a remotely-operated vehicle. RNAlater was discarded after 24 hours, and the specimens were kept at -80°C until DNA/RNA/protein co-extraction using the AllPrep DNA/RNA/Protein Mini Kit (Cat. No. 80004, Qiagen).
HostingRepository	PRIDE
AnnounceDate	2023-07-20
AnnouncementXML	Submission_2023-07-20_11:26:26.817.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	SiminaVintila
SpeciesList	scientific name: Idas modiolaeformis; NCBI TaxID: 1417997; scientific name: Bacteria; NCBI TaxID: 2;
ModificationList	acetylated residue; monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Q Exactive HF

Revision	Datetime	Status	ChangeLog Entry
0	2023-02-20 05:25:10	ID requested
⏵ 1	2023-07-20 11:26:27	announced
2	2023-11-14 09:03:29	announced	2023-11-14: Updated project metadata.
3	2024-10-22 05:56:21	announced	2024-10-22: Updated project metadata.

Zvi-Kedem T, Vintila S, Kleiner M, Tchernov D, Rubin-Blum M, Metabolic handoffs between multiple symbionts may benefit the deep-sea bathymodioline mussels. ISME Commun, 3(1):48(2023) [pubmed]

submitter keyword: mollusk, chemosynthesis, metaproteome, symbiosis, metagenomics, bacteria-animal symbiosis, bivalve, metagenome,1D-LC-MS/MS, deep-sea, metaproteomics

ManuelKleiner
contact affiliation	PMB, North Carolina State University, USA
contact email	manuel_kleiner@ncsu.edu
lab head
SiminaVintila
contact affiliation	North Carolina State University
contact email	svintil@ncsu.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/2023/07/PXD040273

PRIDE project URI

• PRIDE
  1. PXD040273
     1. Label: PRIDE project
     2. Name: Metaproteomics to study metabolic handoffs in the Idas modiolaeformis symbiosis