The plasmids keep causing problems! We have a new pre-print that addresses a rising #NDM issue. #IDtwitter #AMR #plasmids Most cases pre-2019 were travel-associated but we saw increases despite strict COVID-19 travel restrictions in Australia. Why? (1/3) medrxiv.org/content/10.110…

Latest from our lab showing that kraken applied to human pangenome reference provides highly effective and efficient removal of human DNA sequence from clinical metagenomics data, particularly in combination with nanopore sequencing biorxiv.org/content/10.110…

Fancy to fill a gap in our knowledge of the microbial past? A postdoc position is available in my group. If you are an enthusiastic, talented, motivated scientist with a strong experience in analysing large datasets of bacterial genomes, please apply! euraxess.ec.europa.eu/jobs/144016

It's recruitment time GeneticsCambridge 🦠🧫👏🥳 !!! 3 year computational postdoc doing cool Shigella AMR genomics with me and other fun people. Read more here jobs.cam.ac.uk/job/43349/ Would appreciate RTs!

Bactabolize has now been published in eLife. Few updates since the preprints and version 1.0.2 live on GitHub. elifesciences.org/articles/87406 For accurate, strain-specific metabolic models in less than 2 minutes per genome, check it out. github.com/kelwyres/Bacta…

Wonderful first pre-print from Andy Nguyen's PhD and a first for the Macesic Lab! Feasibility of predicting Pseudomonas AMR using MALDI-TOF data. At risk of making a long acronym longer... AI-MALDI. Great job Andy 🎉🎉🎉🙌 AdrianEgli78

What do we need to do to get genomic surveillance working for AMR? 🦠🧬💊Our series in The Lancet Microbe reports 9 recommendations from the SEDRIC working group. Check out the papers: thelancet.com/series/amr-gen… and the 🧵below for more 1/13

It hasn't been long since I last quantified Oxford Nanopore accuracy, but the release of Dorado v0.5.0 demanded another test: rrwick.github.io/2023/12/18/ont… Biggest improvement I've seen in a while! Most of these ONT-only bacterial genomes are now >Q60 😲

Just published in npj Antimicrobials and Resistance, check it out: rdcu.be/dvmyw. Theycallmemaggie and I explored all complete Ab plasmids and analysed their Rep-types, distribution, sampling sources, geographic locations, and the AMR genes they carry. #AMR

Back to the socials after the holidays and first post is an absolute joy--> 📣📣📣 Congratulations to Helena Cooper for preprinting the first chapter of her PhD thesis 🎉🎉🎉 doi.org/10.1101/2023.1…

Huge congratulations to our Nancy Millis Awardee Hugh Cottingham Hugh Cottingham from Monash University 👏🏻 can’t wait to see you present at the ASM national meeting!

Congrats to our PhD student Hugh Cottingham for winning the Nancy Millis last night! Keep an eye out for him at the national ASM meeting if you're keen to hear about how we can use CRISPR to enrich for bacterial pathogens in metagenomic samples

Very excited to be involved in this. Please consider joining us to contribute data or knowledge about your favourite bug! bit.ly/AMRrules

Super pleased to announce I was awarded an #nhmrc EL1 Investigator Grant this week! Can’t wait to get started on my research program next year

I'm recruiting for a new post-doc role based in Melbourne and contributing to #klebNET-GSP activities on #klebsiella genomic surveillance. Sylvain Brisse @DrKatHolt Centre for Genomic Pathogen Surveillance @chcrestani Tom Stanton Sophia David Theycallmemaggie Check out the details ⬇️

Happy to see this paper out from my PhD student Hugh Cottingham! Huge amount of work here developing methods to use CRISPR to enrich for Klebs on the ONT platform

We have a #PhDScholarship available for a student to join our team at Griffith University on the Gold Coast ☀️ to work on #Acinetobacterbaumannii capsules! See application details in the link 👇🏼 griffith.edu.au/research-study…

Ever wondered why there are so many co-circulating #klebsiella pneumo clones? ... me too! So I'm thrilled to present this new preprint from my lab, where we explore this very question. The culmination of 3+ yrs hard work by Ben Vezina! doi.org/10.1101/2024.0… Klebsiella Club