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Six-month Master 2 internship at the Biologie et Ecologie des Ecosystèmes marins Profonds (BEEP) laboratory in Plouzané on the diversity and temporal dynamics of marine viruses in the Bay of Brest: building the first collection of viral gen

A Nature Microbiology study from ETH Zürich, University Hospital Basel, the University of Basel and the University of Lausanne presents HIDEN-SEQ (hidden Acr-enabled transposon-insertion sequencing), which systematically links viral genes t

Phage Tn-seq is a transposon-based approach to studying phage gene essentiality and engineering. Nature Microbiology

This Zenodo archive contains PHORAGER outputs from a prophage-mining analysis of publicly available ESKAPE pathogen genomes, packaged as one ZIP file per species. PHORAGER ESKAPE prophage output dataset

Bignaud, Lamy-Besnier, Koszul, Debarbieux, Marbouty and colleagues followed the 3D organization of the virulent phage PAK_P3 genome during infection of Pseudomonas aeruginosa. The phage genome rapidly decondenses into a specific 3D organiza

An atlas maps 8,484 interactions between 84 phages and 101 clinical Klebsiella strains, alongside GenoPHI. A Nature Microbiology study describes the genome-only model across 115,037 interactions, with experimental validation of 1,240 E. col

A metagenomic study of 450 virus-enriched honey bee gut samples from 63 hives across eight European countries, three seasons and three gut sections catalogues a diverse phageome, including many phages that appear to belong to novel taxa and

The 2026 SEA-PHAGES genome announcement workflow supports one microPublication Biology announcement per SEA school, with a reduced $150 publication fee. Participating schools’ final manuscript submission deadline is December 31, 2026. SEA-P

Sikkema and colleagues describe in PNAS an engineering platform for the phiKMV-like Pseudomonas aeruginosa phage 41S1 built on one-pot High Complexity Golden Gate assembly (HC-GGA): the genome is divided into synthesizable DNA fragments tha

Perfilyev and colleagues analysed 3.6 million bacterial genome assemblies from 1,226 species in Nature Microbiology and found 119,510 lytic phage genomes, which they call bacterial assembly-associated phage sequences, a roughly five-fold in

Jung and colleagues analysed the genomic, proteomic and functional characteristics of four bacteriophages (STP-1 to STP-4) targeting Salmonella Typhimurium, finding lysis-related genes (holin, endolysin, RZ-like spanins) and no genes linked

She et al. retrieved 5,178 viral sequences encoding 12 Salmonella enterica virulence genes from the IMG/VR database and compared them with 466,136 S. enterica genomes from EnteroBase. Virulence genes including iacP, mgtB, misL and fliC were

Cody Martin (University of Wisconsin-Madison) and colleagues published a new preprint on Protein Set Transformer: A protein-based genome language model to power high diversity viromics.

The study predicted 76 INPHARED genomes and 712 Unified Human Gut Virome Catalogue vOTUs that repurpose a stop codon to encode an amino acid, and re-annotated them with modified Pharokka-gv and Prokka-gv tools. For sequences predicted to re

Ryan Cook (Quadram Institute) and colleagues published a paper on benchmarking viromics using Illumina, Nanopore and PacBio. They constructed a mock phage community and used it to compare effectiveness of different sequencing technologies.

PrecisionPhage, a new startup based in Finland, has launched Phagenomics, a browser-based tool for phage genome analysis to streamline assembly and annotation for researchers and clinicians.

Researchers at the University of California, Berkeley developed a CRISPR interference method to map gene essentiality in phages and applied it to the coliphages λ and P1, largely recapitulating the known essential genes of λ and giving new

The 2023 PhageScope paper describes a database with 873,718 phage sequences and annotations for genome completeness, hosts, lifestyle, taxonomy and genetic elements, plus automated analyses and visualizations. Oxford Academic

Researchers at Skoltech report the full genome sequence and virion protein content of Escherichia coli phage BF23, a close relative of T5 that was isolated in the mid-twentieth century. BF23 resists Types I/II/III restriction-modification s

Katelyn McNair, the creator of Phanotate, has introduced a new tool called Genotate, designed to identify and predict coding genes in phage genomes. Now in final stages of development, it’s built to take your phage genome annotation and an