Happy to share our new AMR resource which has phenotypic AMR (usually MIC data) collected from publications and databases. This is paired with assemblies and annotations

We're excited for users who might train new models, find phenotype/genotype mismatches, or any other use

On this day in 1955, Her Majesty Queen Elizabeth II and His Royal Highness The Duke of Edinburgh opened the Department of Veterinary Medicine building in Cambridge.

Read more here: www.vet.cam.ac.uk/news/celebrating-70-years-cambridge-vet-school-building

#CambridgeVet70 #VetMed #BeACambridgeVet

🐾 Exciting news

The QVSH General Practice is open to pet owners across Cambs. We’re proud to be a not-for-profit practice and hospital.

Register your pet - it's easy and you’ll be part of a community that helps shape the future of veterinary medicine.

👉 www.hospital.vet.cam.ac.uk/general-prac...

The next online version of our "Working with Bacterial Genomes" course is now open for registration. We aim to provide you with comprehensive training in analysing bacterial genomes covering everything from QC to clustering plasmids. Sign up here: www.training.cam.ac.uk/bioinformati...

I'm really excited to share the postdoc I completed before joining PHG. It combines two great passions - bacteria and horses!!

Read more here: www.linkedin.com/posts/hayley... or go straight to the paper here: www.microbiologyresearch.org/content/jour...

Another week and more pipeline updates, this time my two assembly pipelines:

Illumina:
github.com/avantonder/a...

ONT:
github.com/avantonder/a...

Have a try and let me know what you think

I've spent some time updating my two Nextflow-based bacterial QC pipelines (bacQC and bacQC-ONT). It'd be great to get some feedback.
github.com/avantonder/b...
github.com/avantonder/b...

Happy to share the findings of our latest work on mutational adaptation of Staphylococcus aureus during colonisation now published on @NatureComms
rdcu.be/d55l3

📢 Apply now! We are recruiting an Associate Professor / Professor of Evolutionary Genomics to join our innovative research community!

Find out more about the position and apply: https://buff.ly/4gIRTDf

Our paper investigating the mutational landscape during Staphylococcus aureus during colonisation is out now rdcu.be//d55l3
@fcic.bsky.social @sangerinstitute.bsky.social @ibv-csic.bsky.social University of Cambridge @julianparkhill.bsky.social

It’s official: The Microbiology Society is on Bluesky!

Great way to start the year! A paper in @nature.com by our amazing @noemie presenting a way to use sequences to identify pathogen lineages, quantify their fitness, and identify potentially important genes/snps . Works across bugs, even with minimally and biased set of sequences.

Incredibly excited to share that our manuscript was just published in @nature.com ! What a way to start the new year! 🎉
https://buff.ly/4gyYCzx

We present phylowave, a framework that enables to learn the fitness dynamics of pathogens from phylogenies.

🧵 A thread... 1/n
#IDSky #IDModelling

Frustrating - I reviewed a paper that was highly problematic, mainly in scientific rigour undermining most of the conclusions, so I recommend Reject. However the editor decides to Revise presumably due to the more positive comments from reviewer 2... /1

Letter sent in to the Editor of the Guardian on brain microbiome nonsense.

* rolls up newspaper *
No Guardian! Bad Guardian! An infection is not a microbiome! www.theguardian.com/lifeandstyle...

A big congratulations to Noémie Lefrancq on being awarded the Sir Kenneth Mather Memorial Prize🏅 for their exceptional PhD thesis on global dynamics of the bacterium behind whooping cough, using genomes from throughout Europe and the world!
genetics.org.uk/medals-and-p...

Can colleagues amplify this appeal to journals and journal editors to open accounts on Bluesky, please? @MicrobioSoc @TrendsMicrobiol @CellCellPress @JBacteriology @jbiolchem @Nature @ScienceMagazine @PNASNews @MolMicroEditors @NAR_Open @NatureMicrobiol @NatureComms @ASMicrobiology 🙏
🦠🧪🧫🧬

We are looking for a Network Manager for TARGet (Transdisciplinary Antimicrobial Resistance Genomics network).

Apply by scanning the QR code or via www.birmingham.ac.uk/jobs