PXD020317

PXD020317 is an original dataset announced via ProteomeXchange.

Title	Metaproteomes of the ciliated edge from the gill filaments of the deep-sea mussel “Bathymodiolus” childressi infected by Ca. Endonucleobacter
Description	“Bathymodiolus” childressi is a species of deep-sea mussels found predominantly in the Gulf of Mexico harbouring a methane oxidizing symbiont (MOX). Ca. Endonucleobacter is a gammaproteobacterial intranuclear parasite that infects the ciliated edge cells of the deep-sea mussel “B.” childressi. After a single Ca. Endonucleobacter cell invades the host nucleus, it proliferates massively, increasing the volume of the nucleus up to 50 fold. It is hypothesized that intranuclear parasites use host chromatin as a nutritional source, however, this would lead to a destabilization of the replication niche. The aim of this study was to investigate how Ca. Endonucleobacter thrives in the nucleus and how it affects the host cell using various “-omics' ' approaches. In addition to protein identification we generated a high quality genome draft for Ca. Endonucleobacter using a hybrid assembly pipeline (PacBio + Illumina reads). We annotated this high quality genome draft and used it as a reference to identify the proteins responsible for the molecular interaction between Ca. Endonucleobacter and its host cell. The 12 specimens of “B.” childressi analyzed in this study were collected during five dives from the Mississippi Canyon site (MC853, 28º07’ N; -089º08’ W) and the Green Canyon site (GC234, 27º45’ N; -091º13’ W) at a water depth of 1,070 and 540 m, respectively. The mussels were selected according to their degree of Ca. Endonucleobacter infection. According to this criterion, the “B.” childressi specimens were divided into two conditions: 8 were classified as “infected”, while 4 were classified as “non-infected” (negative control). For each specimen, we prepare microdissected ciliated edge samples in triplicates.
HostingRepository	PRIDE
AnnounceDate	2025-01-16
AnnouncementXML	Submission_2025-01-16_06:20:48.309.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Marlene Violette
SpeciesList	scientific name: methanotrophic bacterial endosymbiont of Bathymodiolus childressi; NCBI TaxID: 377142; scientific name: Candidatus Endonucleobacter; NCBI TaxID: 1921933; scientific name: Bathymodiolus childressi; NCBI TaxID: 114452;
ModificationList	monohydroxylated residue; acetylated residue; iodoacetamide derivatized residue
Instrument	Q Exactive HF-X

Revision	Datetime	Status	ChangeLog Entry
0	2020-07-13 00:12:19	ID requested
1	2025-01-13 11:30:47	announced
⏵ 2	2025-01-16 06:20:49	announced	2025-01-16: Updated project metadata.

Porras M Á G, Assi, é A, Tietjen M, Violette M, Kleiner M, Gruber-Vodicka H, Dubilier N, Leisch N, An intranuclear bacterial parasite of deep-sea mussels expresses apoptosis inhibitors acquired from its host. Nat Microbiol, 9(11):2877-2891(2024) [pubmed]

10.1038/S41564-024-01808-5;

10.1038/s41564-024-01808-5;

submitter keyword: Endozoicomonas

intranuclear parasite

chromatin

T3SS

IpgD

lipid droplets

chitin

apoptosis inhibitors

laser capture microdissection

cytoskeleton disentanglement

LC-MS/MS

metaproteomics

metaproteome

Manuel Kleiner
contact affiliation	North Carolina State University
contact email	manuel_kleiner@ncsu.edu
lab head
Marlene Violette
contact affiliation	Duke University
contact email	mjensen2@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/2025/01/PXD020317

PRIDE project URI

• PRIDE
  1. PXD020317
     1. Label: PRIDE project
     2. Name: Metaproteomes of the ciliated edge from the gill filaments of the deep-sea mussel “Bathymodiolus” childressi infected by Ca. Endonucleobacter