New preprint reveals bacteria can't just collect all resistance genes like Pokemon cards. We found mutually exclusive evolutionary pathways to multidrug resistance in E. coli & P. aeruginosa - some resistance mechanisms actively prevent others from coexisting www.biorxiv.org/content/10.1...

Very pleased to share this newly published work with Aishani Aatresh, part of her exceptional Harvard undergrad thesis. journals.asm.org/doi/10.1128/... .

The Department of Health and Human Services has a process for making and updating recommendations like this, using expert scientists and clinicians. RFK is deliberately putting Americans' health at risk and sidestepping good science for political reasons.

New preprint: we used k-mer matching with suffix match length information to create an assembly-to-assembly alignment algorithm + software, kbo. We wanted to create a reference-based aligner and variant caller that scales to at least 10-100k bacterial queries. www.biorxiv.org/content/10.1...

New paper: long-term trends in antibiotic resistance show signs of stabilisation (thread). journals.plos.org/plospathogen...

We are excited to announce our 2025 Schmidt Science Fellows! 32 early career researchers, nominated by the world’s leading research universities, who will take an interdisciplinary approach to advancing discovery schmidtsciencefellows.org/news/2025-fe...

Very interesting opportunity for a female African microbiologist. @tuliodna.bsky.social @ckyobutungi.bsky.social Please promote

Interested in pursing a PhD in infectious disease dynamics, artificial intelligence, and behavioural science? Come and join myself and Professor Stefan Flasche at the Charité Center for Global Health in Berlin: karriere.charite.de/en/job-vacan...

A must read opinion piece.

This is a gut-wrenching, beautifully written essay. A doctor must watch helplessly as children die because USAID's freeze on aid has limited access to nutritional supplements. time.com/7258248/us-f...

Goodnight friends. We end today with this quote for ourselves and for our new secretary of HHS.

I’m racing a Half Ironman triathlon this June. 2km swim, 90km cycle, 20km run and raising money for the Meningitis Research Foundation. Meningitis has ~2.5 million cases and 250,000 deaths annually predominantly among children. Any donation would be great! gofund.me/a958252f

Our mSCAPE project has been formally announced to the world by @smhopkins.bsky.social at #FOG2025 today: www.gov.uk/government/n... - a really exciting academic-public health collaboration to build a surveillance platform leveraging NHS metagenomic diagnostic data. @meerac.bsky.social

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

New MRC-funded postdoc with me on comparative bacterial genomics/phylodynamics @roslininstitute.bsky.social university of Edinburgh. Great multidisciplinary team and collaboration with partners at Shanghai Jao Tong University. elxw.fa.em3.oraclecloud.com/hcmUI/Candid...

Had a great whirlwind of a trip to Tokyo for #SMBE workshop on pangenomics with an inspiring community of people. Fun to present preliminary results on the environment and the pneumococcus! Thanks to #isppd and #schmidtsciencefellows for my funding and the organizers for my registration bursary.

A Portable and Scalable Genomic Analysis Pipeline for Streptococcus pneumoniae Surveillance: GPS Pipeline https://www.biorxiv.org/content/10.1101/2024.11.27.625679v1

There are four (that's right four!) academic posts open at the School of Biological sciences at Cambridge University. Check them out here: www.jobs.cam.ac.uk/job/?categor... Gr10/11 (AssocProf/Reader; now Prof) Closing 26/1/25. Looking for excellent, collaborative people. Spread the word!

How invasive are different E .coli capsules and how many are there? Find out here and use the group 2 and 3 database to type your own! medrxiv.org/cgi/content/...

🚨In our new Lancet Planetary Health 📰 #COP29 we discuss the climate-health-gender nexus by 🔎 reviewing gendered health impacts of #climatechange ⌛️ summarising gender & health in UNFCCC processes 📉 assessing the gender gap in delegations at COP1-28 Full ➡️ 👀 www.thelancet.com/journals/lan...