PXD051186

PXD051186 is an original dataset announced via ProteomeXchange.

Title	Ca. Thiodiazotropha symbionts of the deep-sea lucinid clam Lucinoma kazani are metabolically versatile.
Description	The goal of this study was to identify the key functions of Candidatus Thiodiazotropha gloverae symbionts that are hosted in the gills of the lucinind clams, Lucinoma kazani, found at the deep-sea hydrocarbon seeps in the eastern Mediterranean Sea. These symbionts (Cromatiales, Sedimenticolaceae) are chemoautotrophs that use sulfide and thiosulfate as electron donors, and oxygen or nitrate as electron acceptors to fuel energy conservation. Yet, Ca. Thiodiazotropha gloverae ex. Lucinoma kazani can use alternative energy sources, such as methanol and formate. These symbionts encode the metabolic potential for dinitrogen fixation. In April 2021, we collected four L. kazani specimens near a brine pool in Palmahim Disturbance offshore Israel at a water depth of approximately 1150 m, (32° 13' 23.5" N 34° 10' 42.19" E), using a remotely-operated vehicle. They were fixed in RNAlater, which 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	2025-05-26
AnnouncementXML	Submission_2025-05-25_16:08:56.815.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Simina Vintila
SpeciesList	scientific name: Lucinoma kazani; NCBI TaxID: 1548728; scientific name: Candidatus Thiodiazotropha sp.; NCBI TaxID: 2847306;
ModificationList	acetylated residue; monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Q Exactive HF

Revision	Datetime	Status	ChangeLog Entry
0	2024-04-03 12:21:43	ID requested
⏵ 1	2025-05-25 16:08:57	announced

Ratinskaia L, Malavin S, Zvi-Kedem T, Vintila S, Kleiner M, Rubin-Blum M, have the genetic potential to fix nitrogen. ISME Commun, 4(1):ycae076(2024) [pubmed]

10.1093/ismeco/ycae076;

submitter keyword: chemosynthesis,1D-LC, metaproteome, symbiosis, diazotrophs, metaproteomics

Manuel Kleiner
contact affiliation	Plant and microbial biology, North Carolina State University
contact email	manuel_kleiner@ncsu.edu
lab head
Simina Vintila
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/2025/05/PXD051186

PRIDE project URI

• PRIDE
  1. PXD051186
     1. Label: PRIDE project
     2. Name: Ca. Thiodiazotropha symbionts of the deep-sea lucinid clam Lucinoma kazani are metabolically versatile.