My thoughts are with Sudesh today and Jeff Cole's wider family. I can't make Jeff's memorial day tomorrow, but as I sit here drafting my fellowship I've been reflecting on the support I've had to get here. Jeff, you tested me! But you gave so much of your time and patience to develop us as students

We’re hiring! We’re looking for researchers who use AI/machine learning to study infectious disease. The position is at the University at Albany, in the Biomedical Sciences Dept, which has very close ties to the Wadsworth Center. albany.interviewexchange.com/jobofferdeta...

We are back, soon! The secrets of bacterial cell envelopes' our free online seminar series is due to resume in January 2026 after a long break. Hosted by Georgina Benn and Syma Khalid- supported by the Microbiology Society. More details soon. @microbiologysociety.org Please spread the word

Out yesterday. Using a translation reporter on a mini-tn5 transposon, and high freq. mutagenesis, we looked at translation on whole genome scale independently of genome annotation. academic.oup.com/nar/article/...

PIRT-Seq: a high-resolution whole-genome assay to identify protein-coding genes

Abstract. The advent of high-density mutagenesis and data-mining studies suggest the existence of further coding potential within bacterial genomes. Small

academic.oup.com

Happily representing @multidefence.bsky.social at the #EESMicrobiology in Heidelberg! Come to my poster if interested in prophage-mediated phage defence! Also don't miss @emgoodall.bsky.social's talk today, and @alekseiagapov.bsky.social and @davvi36.bsky.social posters!

Made it to Heidelberg for #EESMicrobiology @events.embl.org! Find me at poster 240 and make to check out @annaolina.bsky.social & @alekseiagapov.bsky.social 's posters and @emgoodall.bsky.social 's talk to see everyone from the lab 😁

Home sweet home! After an excellent time with @hendersonlab.bsky.social in Aus! I have finally returned to the UK and started a postdoc position this week with the van Houte lab at @uniofexeteresi.bsky.social with some fun research to come

Two ERC-funded postdoc positions available in the team - one here and second to follow - please repost! jobs.ncl.ac.uk/job/Newcastl...

This has been a long journey, but it's now out in final form. @kjamali.bsky.social academic.oup.com/bioinformati...

Fast protein structure searching using structure graph embeddings

Abstract . Comparing and searching protein structures independent of primary sequence has proved useful for remote homology detection, function annotation,

academic.oup.com

Joe Greener@jgreener64.bsky.social · 2y ago

The Progres method for fast protein structure searching is now available as a web server (progres.mrc-lmb.cam.ac.uk) and has the option to split query structures into domains with Chainsaw. An alternative to Foldseek for searching the AlphaFold database in < 1 second. (1/2)

The BASEL collection of E. coli #phages is limited by its host strain. @humollidorentina.bsky.social @damienpiel.bsky.social @aharms485.bsky.social &co use a modified host to add 36 new phages, revealing roles of O-antigen in recognition & R-M systems in immunity @plosbiology.org 🧪 plos.io/4jirGvX

OUT NOW: Inducible transposon mutagenesis identifies bacterial fitness determinants during infection in mice #microsky 🧪 www.nature.com/articles/s41...

Inducible transposon mutagenesis identifies bacterial fitness determinants during infection in mice - Nature Microbiology

InducTn-seq, a method for inducible mutagenesis followed by transposon insertion site sequencing, enables temporal control of transposition to bypass population bottlenecks and enable the quantificati...

nature.com

New online! Genetics, ecology and evolution of phage satellites

Genetics, ecology and evolution of phage satellites

Nature Reviews Microbiology, Published online: 27 March 2025; doi:10.1038/s41579-025-01156-zIn this Review, Penadés et al. explore the genetics, potential origins and life cycle of phage satellites, and they discuss the impact of these elements on the evolution of other mobile genetic elements and their host bacteria.

nature.com

Currently nap trapped, seemed like a good opportunity to finally set this up. Hellooooo science friends 👋