PXD035071

PXD035071 is an original dataset announced via ProteomeXchange.

Title	A lipopolysaccharide-dependent phage infects a pseudomonad phytopathogen and can evolve to evade phage resistance
Description	Bacterial pathogens are major causes of crop diseases, leading to significant production losses. For instance, kiwifruit canker, caused by the phytopathogen Pseudomonas syringae pv. actinidiae (Psa), has posed a global challenge to kiwifruit production. Treatment with copper and antibiotics, whilst initially effective, is leading to the rise of bacterial resistance, requiring new biocontrol approaches. Previously, we isolated a group of closely related Psa phages with biocontrol potential, which represent environmentally sustainable antimicrobials. However, their deployment as antimicrobials requires further insight into their properties and infection strategy. Here, we provide an in-depth examination of the genome of ΦPsa374-like phages and show that they use lipopolysaccharides (LPS) as their main receptor. Through proteomics and cryo-electron microscopy of ΦPsa374, we revealed the structural proteome and that this phage possess a T=9 capsid triangulation, unusual for myoviruses. Furthermore, we show that ΦPsa374 phage resistance arises in planta through mutations in a glycosyltransferase involved in LPS synthesis. Lastly, through in vitro evolution experiments we showed that phage-resistance is overcome by mutations in a tail fiber and structural protein of unknown function in ΦPsa374. This study provides new insight into the properties of ΦPsa374-like phages that informs their use as antimicrobials against Psa.
HostingRepository	PRIDE
AnnounceDate	2025-08-05
AnnouncementXML	Submission_2025-08-05_02:11:01.476.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Torsten Kleffmann
SpeciesList	scientific name: Pseudomonas phage PaMx74; NCBI TaxID: 1175663;
ModificationList	monohydroxylated residue; deamidated residue; iodoacetamide derivatized residue
Instrument	LTQ Orbitrap

Revision	Datetime	Status	ChangeLog Entry
0	2022-07-04 14:50:44	ID requested
⏵ 1	2025-08-05 02:11:02	announced

10.1111/1462-2920.16106;

Warring SL, Malone LM, Jayaraman J, Easingwood RA, Rigano LA, Frampton RA, Visnovsky SB, Addison SM, Hernandez L, Pitman AR, Lopez Acedo E, Kleffmann T, Templeton MD, Bostina M, Fineran PC, A lipopolysaccharide-dependent phage infects a pseudomonad phytopathogen and can evolve to evade phage resistance. Environ Microbiol, 24(10):4834-4852(2022) [pubmed]

submitter keyword: Psa phage proteomics, cryo-electron microscopy, phage biocontrol, structural proteome ΦPsa374

Peter Fineran
contact affiliation	Department of Microbiology and Immunology, University of Otago, Dunedin, New Zealand
contact email	peter.fineran@otago.ac.nz
lab head
Torsten Kleffmann
contact affiliation	Department of Biochemistry, University of Otago
contact email	torsten.kleffmann@otago.ac.nz
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/2025/08/PXD035071

PRIDE project URI

• PRIDE
  1. PXD035071
     1. Label: PRIDE project
     2. Name: A lipopolysaccharide-dependent phage infects a pseudomonad phytopathogen and can evolve to evade phage resistance