PXD045678

PXD045678 is an original dataset announced via ProteomeXchange.

Title	Novel cell-to-cell interactions revealed by cryotomography of a DPANN coculture system
Description	DPANN are a widespread and highly diverse group of archaea characterised by their small size, reduced genome, limited metabolic pathways, and symbiotic existence. DPANNs are predominantly obligate ectosymbionts that depend on their host for their survival and proliferation. Despite the recent expansion in this clade, the structural and molecular details of host recognition, host-DPANN intercellular communication, and host adaptation in response to DPANN attachment remain unknown. Here, we used electron cryotomography (cryo-ET) to reveal that the Candidatus Micrarchaeota” (ARM-1) interacts with its host through intercellular proteinaceous nanotubes. These tubes (~4.5 nm wide) originate in the host, extend all the way to the DPANN cytoplasm and act like tunnels for intercellular exchange. Combining cryo-ET and sub-tomogram averaging, we revealed the in situ architectures of host and DPANN S-layers and the structures of the nanotubes in their primed and extended states, providing mechanistic insights into substrate exchange. Additionally, we performed comparative proteomics and genomic analyses to identify host proteomic changes in response to the DPANN attachment. Our results showed striking alterations in host-proteome during symbiosis and upregulation/downregulation of key cellular pathways. Collectively, these results provided unprecedented insights into the structural basis of host-DPANN communication and deepen our understanding of the host ectosymbiotic relationships.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_06:43:02.148.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Nichollas Scott
SpeciesList	scientific name: Candidatus Micrarchaeota; NCBI TaxID: 1801631;
ModificationList	No PTMs are included in the dataset
Instrument	Orbitrap Exploris 480

Revision	Datetime	Status	ChangeLog Entry
0	2023-09-25 18:28:58	ID requested
1	2024-05-27 22:00:41	announced
⏵ 2	2024-10-22 06:43:02	announced	2024-10-22: Updated project metadata.

Dataset with its publication pending

submitter keyword: Protein nanotube, cryo-electron tomography, Microbial symbiosis, In situ structural Biology,Archaea, DPANN, Intercellular communication

Debnath Ghosal
contact affiliation	Department of Biochemistry & Pharmacology, Bio21 Molecular Science and Biotechnology Institute The University of Melbourne, Victoria, 3010 Australia
contact email	debnath.ghosal@unimelb.edu.au
lab head
Nichollas Scott
contact affiliation	University of Melbourne
contact email	nichollas.scott@unimelb.edu.au
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/2024/05/PXD045678

PRIDE project URI

• PRIDE
  1. PXD045678
     1. Label: PRIDE project
     2. Name: Novel cell-to-cell interactions revealed by cryotomography of a DPANN coculture system