Sophia David

What determines who a phage can infect?

We tackled this question for temperate phages of Klebsiella — a bacterial pathogen — using a genome-wide association study (GWAS) and a massive protein testing effort.

👇 A thread!

Our preprint on using genomic data to explore vaccine target diversity ⬇️ A real pleasure working on this with Khalil Abudahab and the team. We're keen to gather feedback, feel free to get in touch (although I will be a little quiet for a while due to another project arriving soon! 👶)

Thrilled to see these preprints out after many years of planning, data collection, analysis - and huge efforts from the entire EURGen-Net CCRE Survey Working Group. It's been a pleasure working on these with Anke Kohlenberg @ecdc.europa.eu, Inga Froding & Alma Brolund at Public Health Agency Sweden.

We will be running the next in person iteration of our bacterial genomics course in Cambridge at the beginning of July

www.training.cam.ac.uk/bioinformati...

Please let anyone who may be interested know.

🚨 Teaching bioinformatics? Or learning it solo?
Check out my free & open Fundamentals of Bioinformatics course materials: lectures, slides, and exercises — no coding background required.
🔬🧬👩‍💻

📚 github.com/lskatz/funda...
⭐️ Star it, share it, and level up!

#bioinformatics #opensource #STEMeducation

A genome-wide One Health study of Klebsiella pneumoniae in Norway reveals overlapping populations but few recent transmission events across reservoirs - Genome Medicine Background Members of the Klebsiella pneumoniae species complex (KpSC) are opportunistic pathogens that cause severe and difficult-to-treat infections. KpSC are common in non-human niches, but the cli...

🦠Happy to share that our paper studying >3000 Klebsiella pneumoniae genomes in a #OneHealth perspective is now published in Genome Medicine! #MicroSky 🎉

@irenlohr.bsky.social @katholt.bsky.social

genomemedicine.biomedcentral.com/articles/10....

Preprint on our new amr.watch tool from @thecgps.bsky.social - this incorporates and analyses genome data of key resistant pathogens from the public archives on an ongoing basis (every 4h) & presents the output via an interactive platform for monitoring AMR trends: www.biorxiv.org/content/10.1...

We’ve just released a public Pathogenwatch collection of the MRSN Diversity Panel comprising 100 diverse K. pneumoniae clinical isolates: pathogen.watch/collection/8... #KlebClub

Hi Bluesky! We’re looking forward to engaging with the community and our users on here. Follow this account for updates on the Pathogenwatch platform (pathogen.watch), as well as our sister tools @microreact.bsky.social and @amrwatch.bsky.social developed by @thecgps.bsky.social