ArticleNature communications2023
Next-generation proteomics for quantitative Jumbophage-bacteria interaction mapping.
Article in Nature communications, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 25 papers.
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
25 citing papers in PubMed, 30 citations in OpenAlex.
- Article
- A genome-scale CRISPRi perturbation atlas of human induced pluripotent stem cells.Nature biotechnology · 2026Article
- Modular plug-and-play engineering of Klebsiella phages with dual receptor-binding proteins for efficient host range design.Journal of biological engineering · 2026Article
- The biology of jumbo phages.Nature communications · 2026Review
- Structure of the bacteriophage PhiKZ non-virion RNA polymerase bound to a p119L open promoter analogue.IUCrJ · 2026Article
- Bacteriophage genome-wide transposon mutagenesis.bioRxiv : the preprint server for biology · 2025Article
- The complex developmental mechanisms of nucleus-forming jumbo phages.Current opinion in microbiology · 2025Review
- The Biology of Nucleus-Forming Jumbo Phages.Annual review of genetics · 2025Review
- Proteomic analysis reveals phage-driven metabolic shifts and biofilm disruption in methicillin-resistant Staphylococcus aureus (MRSA).World journal of microbiology & biotechnology · 2025Article
- Cell Mapping Toolkit: an end-to-end pipeline for mapping subcellular organization.Bioinformatics (Oxford, England) · 2025Article
- Article
- Genome-wide identification of bacterial genes contributing to nucleus-forming jumbo phage infection.Nucleic acids research · 2025Article
- Evaluating phage lytic activity: from plaque assays to single-cell technologies.Frontiers in microbiology · 2025Review
- Unifying proteomic technologies with ProteinProjector.Bioinformatics advances · 2025Article
- Review
- Article
- The Last Universal Common Ancestor of Ribosome-Encoding Organisms: Portrait of LUCA.Journal of molecular evolution · 2024Review
- Capsid structure of bacteriophage ΦKZ provides insights into assembly and stabilization of jumbo phages.Nature communications · 2024Article
- I'm Walking into Spiderwebs: Making Sense of Protein-Protein Interaction Data.Journal of proteome research · 2024Review
- Characterization of a lipid-based jumbo phage compartment as a hub for early phage infection.Cell host & microbe · 2024Article
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Authors and funding
12 authors at 3 institutions in 1 country.
Funding
Abstract
Host-pathogen interactions are pivotal in regulating establishment, progression, and outcome of an infection. While affinity-purification mass spectrometry has become instrumental in characterizing such interactions, it suffers from limitations in scalability and biological authenticity. Here we present the use of co-fractionation mass spectrometry for high throughput analysis of host-pathogen interactions from native viral infections of two jumbophages (ϕKZ and ϕPA3) in Pseudomonas aeruginosa. This approach enabled the detection of > 6000 unique host-pathogen interactions for each phage, encompassing > 50% of their respective proteomes. This deep coverage provided evidence for interactions between KZ-like phage proteins and the host ribosome, and revealed protein complexes for previously undescribed phage ORFs, including a ϕPA3 complex showing strong structural and sequence similarity to ϕKZ non-virion RNA polymerase. Interactome-wide comparison across phages showed similar perturbed protein interactions suggesting fundamentally conserved mechanisms of phage predation within the KZ-like phage family. To enable accessibility to this data, we developed PhageMAP, an online resource for network query, visualization, and interaction prediction ( https://phagemap.ucsf.edu/ ). We anticipate this study will lay the foundation for the application of co-fractionation mass spectrometry for the scalable profiling of host-pathogen interactomes and protein complex dynamics upon infection.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the Socratic graph.