Thrilled to announce that the Department of Microbiology at the University of Washington, School of Medicine is hiring at the Assistant Professor level (tenure-track)! The Pacific Northwest is an awesome place to live and do science 🧪🦠. Join us! apply.interfolio.com/185622 Applications due 8/1.

#microsky ESGEM Webinar @esgem-sg.bsky.social @escmid.bsky.social Comprehensive and scalable whole- and core-genome MLST with chewBBACA 3 Speaker: Rafael Mamede Chairs: @natachacouto.bsky.social and @sandrareuter.bsky.social 26 May 2026, 13:00 CET Register: us06web.zoom.us/webinar/regi...

Welcome! You are invited to join a webinar: ESGEM: Comprehensive and scalable whole- and core-genome MLST with chewBBACA 3. After registering, you will receive a confirmation email about joining the w...

Welcome! You are invited to join a webinar: ESGEM: Comprehensive and scalable whole- and core-genome MLST with chewBBACA 3. After registering, you will receive a confirmation email about joining the w...

us06web.zoom.us

BIGSdb v1.53.2 has been released and is now live on @pubmlst.org. This adds functionality to the LINvis plugin. This includes annotation of nodes representing specific LIN prefixes entered as a list.

New research article Persistent spread of carbapenemase-producing #Klebsiella pneumoniae in acute care hospitals in 36 European countries (the CCRE survey) www.thelancet.com/journals/lan... #IDSky #ClinMicro #AMR #OpenAccess #OA

"A major European survey marks a significant milestone in the effort to control antimicrobial resistance ( #AMR), providing the most comprehensive genomic picture to date of carbapenem- and/or colistin-resistant Enterobacterales (CCRE) across hospitals in Europe." www.ecdc.europa.eu/en/news-even...

Europe advances genomic surveillance of CCRE with landmark multi-country study

A major European survey marks a significant milestone in the effort to control antimicrobial resistance (AMR), providing the most comprehensive genomic picture to date of carbapenem- and/or colistin-r...

ecdc.europa.eu

New research article Emergence of carbapenemase-producing #Escherichia coli in acute care hospitals in 32 European countries (the CCRE survey) www.thelancet.com/journals/lan... #IDSky #ClinMicro #AMR #Ecoli #OpenAccess #OA

Howdy! Happy to announce that Bactopia v4 is finally out! 🥳 This release supports the latest from @seqera.io Nextflow v26 (strict syntax, static types, and records! oh my!) It also open's the doors to start doing some fun things with Bactopia. To learn more, check out: bactopia.io/blog/bactopi...

Bactopia v4 Updates and Improvements | Bactopia

Learn about the new features and improvements in Bactopia version 4.

bactopia.io

It’s still funny to look at students’ faces at the registration desk when I say I’m an invited speaker 😄

Been working on a browser version of BRIG. No install. Interactive. Looking for beta testers; message me if you're interested.

Are you a post-doctoral microbiologist interested in characterising bacterial resistance evolution and want to apply your knowledge and expertise to developing new therapeutics for Klebsiella (and other Enterobacterales) infections? Then we need you! Apply now bit.ly/3MX39Ce close date March 13th 👀

If you weren’t able to join #IMMEMXIV in Porto this year, don’t miss this chance to hear the poster presentations made available by @escmid.bsky.social on their YouTube channel. @esgem-sg.bsky.social

ESCMID@escmid.bsky.social · 10mo ago

The next five videos from our #IMMEM XIV poster presentations are available on our YouTube channel and cover topics like #WGS, #bioinformatics and more. Stay tuned for more videos every Wednesday! #IDsky https://youtube.com/playlist?list=PLBG53xT7PX7v-C3XcKHnKeVP1NxsrLqBU&si=tpFqDe_obR6LZLtx

Join us tomorrow if you like plasmids and clones! @sandrareuter.bsky.social will be talking about a particular intriguing outbreak 🤓. @escmid.bsky.social

We invite you to the joint ESGEM & ESGMAP webinar: 👉 Dr. Sandra Reuter, University of Freiburg “Tracking clonal and plasmid transmission in carbapenem- and colistin-resistant Klebsiella pneumoniae.” 📅 Date & Time: November 11, 2025, 12:00 PM CEST 🔗 Register here: us06web.zoom.us/webinar/regi...

Com and join us in Groningen for an update on metagenomics 😊

ESCMID@escmid.bsky.social · 11mo ago

New Course Alert: Rapid #diagnostics & #surveillance of critical pathogens in the hospital are essential for patient treatment and hospital outbreak detection. Learn more & sign up today for this 3-day course! ow.ly/xUyq50X1iWQ #IDSky #clinmicro #MedSky

Delighted to see our paper studying the evolution of plasmids over the last 100 years, now out! Years of work by Adrian Cazares, also Nick Thomson @sangerinstitute.bsky.social - this version much improved over the preprint. Final version should be open access, apols. Thread 1/n

We wrapped up #IMMEM XIV over the weekend and it was a fantastic success with over 250 participants from 35 countries. A big thank you to the organisers and specifically @esgem-sg.bsky.social our study group on epidemiological markers! The content will be available on ESCMID media soon. #clinmicro

This has been an incredible week, one I will hardly forget. It started with a hackathon with a brilliant group of people. Followed by a cutting-edge meeting, #IMMEMXIV organized by @esgem-sg.bsky.social and @escmid.bsky.social which turned out to be one of my highest points this year.

Come see my poster at IMMEM Poster 151. 🔬 QualiBact – provides robust, data-driven QC thresholds for 304 bacterial species, built from >2.4M assemblies (AllTheBacteria + RefSeq). ⚙️ SpecCheck – an open-source command-line tool that applies these standards […] [Original post on mstdn.science]

🧠 Straight from one of the programme committee members, Angela offers what she is looking forward to most at #IMMEMXIV starting tomorrow in Porto, Portugal! You can review the programme and follow along during the conference days on social media. ow.ly/ucIc50WNoeA

One week to go! 🤓👏🏼

ESCMID@escmid.bsky.social · 12mo ago

🧠 Straight from the conference chair, Natacha offers what she is looking forward to most at #IMMEM XIV. Review the programme: ow.ly/ucIc50WNoeA 🚀 With only one week left, secure your spot at this conference today! Register now: ow.ly/rLhU50WNoeC #IDSky #clinmicro

🧠 Straight from the programme committee treasurer, Sylvain offers what he is looking forward to most at #IMMEM XIV. Review the programme: ow.ly/ucIc50WNoeA 🚀 With only 10 days left, secure your spot at this conference today! Register now: ow.ly/rLhU50WNoeC #IDSky #clinmicro

📣 Nominate exceptional candidates for the ballot by next Sunday, 31 Aug 2025! ⏰ Elections will be held among the membership at the end of 2025. 🗳️More info: ow.ly/3c5A50Wtjhs #IDSky #clinmicro #MedSky

🚨New Epi Alert this week: Mongolia reporting over 13K measles cases; Italy is experiencing its worst West Nile virus season w/ 173 human cases & 11 deaths in the last weeks; cholera in N. Darfur, melioidosis in Thailand, malaria in Namibia & more. ow.ly/OytK50WEl6u #IDSky #clinmicro #MedSky

Register today for the 14th International Meeting on Microbial Epidemiological Markers (IMMEM XIV)! Topics range from how genomics inform resistance profiling to pathogen surveillance in a #OneHealth framework. 🧬 ✍️ Register: ow.ly/gjOZ50WpOXX 👀 Programme: ow.ly/Whj850WpOXY #IDSky

📢New job posting!📢 Are you excited by the idea of building global infrastructure to make pathogen sequencing more accessible, interpretable, and equitable? 🧑🏻‍💻🧬 My group at @swisstph.ch has an opening working with ARTIC2, @pathoplexus.org, & Loculus - read on! 1/5

Register today for the 14th International Meeting on Microbial Epidemiological Markers (IMMEM XIV)! Session topics range from how genomics inform resistance profiling to pathogen surveillance in a One Health framework. Learn more: ow.ly/lBGs50WpOZs #IDSky #MedSky #clinmicro

Don't miss the chance to be a part of this exciting conference on microbial typing & genomics #IMMEMXIV. The theme this year is Microbial typing: from fundamental to daily microbiology. @escmid.bsky.social @esgem-sg.bsky.social Register today and see you in Porto! www.escmid.org/congress-eve...

Pleased to share our latest preprint describing vaccines.watch (vaccines.watch), an interactive platform enabling exploration of vaccine target diversity from global genome data: www.biorxiv.org/content/10.1...

🚨TODAY IS THE LAST DAY to apply for a new fellowship opportunity! Train the Trainers Fellowship is designed to support individuals to attend selected events & then organise a follow-up activity in their own country. ⏰ Due today! 💡 Learn more & apply: ow.ly/Z5Ro50VYLzl #IDSky #MedSky #clinmicro

ESCMID's Emerging Infections Subcommittee comments on the rise in MERS-CoV cases As of 12 May 2025, 9 new MERS-CoV cases - including 2 deaths - have been reported by health authorities in Saudi Arabia. Read the statement including links to further reports: ow.ly/ST6L50VZeT2 #IDSky #clinmicro

Write-up of our open-source software tool, Grapevne, enabling rapid construction of multi-data type workflows for enhanced pandemic preparedness. It was born out of the need to repeat analyses during the invasion of multiple Variants of Concern. wellcomeopenresearch.org/articles/10-...