PXD075695

PXD075695 is an original dataset announced via ProteomeXchange.

Title	Biofilm-associated extracellular material in Shewanella oneidensis MR-1
Description	Biofilms formed by Shewanella oneidensis MR-1 are crucial for metal reduction, underpinning bioremediation and bioenergy applications, yet detailed structural insights into biofilm components remain limited. Here we show that MR-1 biofilms contain abundant filamentous networks, membrane vesicles, and distinct square-shaped aggregates, as revealed by cryo-electron tomography and cryo-electron microscopy. We further determine near-atomic resolution structures of three filament types: bacterial flagella and two distinct pili, PilA and MshA. Notably, we present high-resolution structure of an MshA pilus and a PilA pilus structure from Shewanella. Structural analyses show that MshA pili exhibit a balanced surface charge distribution and extensive solvent-accessible surface area, facilitating essential interactions within the biofilm matrix. Additionally, oxygen limitation markedly increases the abundance of extracellular filaments and protein aggregates, indicating adaptive responses to environmental stress. Our findings elucidate the fundamental architecture and roles of biofilm extracellular components and provide a structural foundation for engineering enhanced Shewanella strains.
HostingRepository	PRIDE
AnnounceDate	2026-09-07
AnnouncementXML	Submission_2026-09-07_04:20:47.227.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Yuxuan Yao
SpeciesList	scientific name: Shewanella oneidensis (strain MR-1); NCBI TaxID: NEWT:211586;
ModificationList	No PTMs are included in the dataset
Instrument	LTQ

Revision	Datetime	Status	ChangeLog Entry
0	2026-03-16 11:36:25	ID requested
⏵ 1	2026-09-07 04:20:48	announced

Li D, Dong H, Zhang G, Li Y, Liu X, Chen Y, Xiao L, Wang X, Li D, Song H, Zhong C, Cao Q, Dai B, Liu C, Ultrastructural and atomic characterization of biofilm-associated extracellular filaments in Shewanella oneidensis MR-1. Nat Commun, 17(1):(2026) [pubmed]

10.1038/s41467-026-72442-4;

submitter keyword: Biofilm,Shewanella oneidensis

Cong Liu
contact affiliation	Interdisciplinary Research Center on Biology and Chemistry, State Key Laboratory of Chemical Biology, Shanghai Institute of Organic Chemistry, Chinese Academy of Sciences, Shanghai 201210, China
contact email	ldn998899@163.com
lab head
Yuxuan Yao
contact affiliation	Shanghai Jiao Tong University
contact email	yaoyuxuan@sjtu.edu.cn
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/2026/09/PXD075695

PRIDE project URI

• PRIDE
  1. PXD075695
     1. Label: PRIDE project
     2. Name: Biofilm-associated extracellular material in Shewanella oneidensis MR-1