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

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

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! 🤓👏🏼

🧠 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#IMMEM #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#OneHealth #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-...

We invite you all to our next webinar on "Carbapenemases in Enterobacterales in the food chain in the EU/EFTA" Speaker: Beatriz Guerra When: 16th June 12h00 CET Ling for registration (Open but mandatory): us06web.zoom.us/webinar/regi... See you there!

At #APHL annual conference? Check out poster 212 to learn more about Bactopia and all the fun things it can do! Side note, this is the first time all of Bactopia is depicted in a single metro map! 🎉 @bactopia.com @nextflow.io @aphl.org Full PDF: datasets.bactopia.com/media/2025-b...

Defence Systems are so hot right now 🔥 🔥 🔥 so check out our latest preprint to see how DSes contribute to niche adaptation, interact with each other, and drive accessory genome interactions in Pseudomonas aeruginosa 1/n www.biorxiv.org/content/10.1...

Sexually transmissible shigellosis has gone from an obscure cause of sporadic outbreaks to a sustained endemic AMR priority in only two decades! 🧫💊 Check out our latest preprint to understand how this happened 1/11 www.medrxiv.org/content/10.1...

📢Today Pathoplexus announces the inclusion of 2 new viral pathogens: RSV (A & B) and HMPV. These respiratory viruses cause a serious health burden, particularly in infants & the vulnerable, & Pathoplexus aims to support sequence sharing to improve understanding & response. 1/4

Myself and @yekwah.bsky.social are running our bacterial AMR databases and genotype prediction course again with @eventswcs.bsky.social. Completely free and study at your own pace. Check out the course objectives below and sign up before June 9th to join us! www.futurelearn.com/courses/anti...

Happy to share this resource of 568 closed Klebsiella pneumoniae species complex hybrid assemblies, including 1416 plasmids! ⭕️🦠 We hope this will be useful - short reads, long reads, hybrid assembly or all combined - for your own tools/validations 🥳 #Microsky journals.asm.org/doi/10.1128/...

There is still time to submit an abstract for #IMMEMXIV so don’t miss this chance and join us in Porto! Link for submission: www.escmid.org/congress-eve...

This has been an amazing journey and I’ve learnt a lot from it! Take a look at @katholt.bsky.social thread to know more!

Delighted to see this paper from danderson123.bsky.social 's PhD out. We have been building tools for AMR gene detection for over a decade now, but multicopy genes remain challenging. Dan shows that with a gene-space de Bruijn graph and long reads, you can do well www.biorxiv.org/content/10.1...

New Research Assistant position available in my lab to work on a project testing the efficacy of pills dependent #phage against clinical isolates of enteric bacteria . Part of a growing phage research theme in my lab my.corehr.com/pls/uoxrecru...

@esgem-sg.bsky.social Webinar coming up 6th May with @ameliabarberphd.bsky.social "Candida parapsilosis: sequencing for clinical microbiology" together with ESCMID Fungal Infection Study Group. Register here: us06web.zoom.us/webinar/regi... I'm looking forward to learning about fungal sequencing!

Our latest preprint is out describing amr.watch - a platform for monitoring AMR trends from global genomics data: www.biorxiv.org/content/10.1... (1/6)

New postdoc position in our lab (2 y+): evolutionary genomics of integrons and MGEs with focus on vibrio-phage interactions. Great environment @pasteur.fr for science, career building. Super collaborators @celineloot.bsky.social @amazeld.bsky.social @fredoleroux.bsky.social 3 weeks to apply!

here's a recording of a seminar i gave today. Using containers (docker) for bioinformatics software https://youtu.be/eBy-W2bUklw?si=A1mNYiKSe3k1xyO5 I cover. ✅ What is containerisation and how it helps make analyses reproducible and portable ✅ Key differences between Docker and Singularity ✅ […]

TWO postdoc positions in Computational Microbiology and/or biochemistry. Join our interdisciplinary group in the new Life and Mind Building @OxfordBiology, @UniofOxford, @IneosOxford Please apply and share this post: www.jobs.ac.uk/job/DMP641/p...

We're looking for a PhD student to join us at Vilnius University in Lithuania. We work on RNA virus evolution computationally but we'd like to generate more mosquito RNA virus sequence data. Official ad: www.gmc.vu.lt/en/doctoral-.... Please share & continue reading if interested.

I’ve travelled to Bucharest to join the Bioinformatics Horizons meeting (rsbi.ro/evenimente/b...) organized by the Romanian Society of Bioinformatics. I’ll be talking about plasmid typing and AMR genotyping. Looking forward to all the other talks. 🤓

I had a wonderful time doing this workshop with you @sandrareuter.bsky.social. Thanks to @escmid.bsky.social Programme Director Jacob Moran-Gilad for inviting us to do this!

The International Society for Plasmid Biology and other Mobile Genetic Elements are finally in Bluesky!! 😎😎😎

First time attending an #EUCIC @escmid.bsky.social module and it’s been great so far! Really nice discussions on antimicrobial and diagnostics stewardship! Highly recommended it! I talked about how genomics can help identify outbreaks in the hospital, of course! 🤓

Hey genomics community, @sandrareuter.bsky.social and I will be leading the one on the 27th March so join us for an interactive workshop on genomics!

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

First @esgem-sg.bsky.social webinar of 2025! If you are interested in Pseudomonas aeruginosa and/or genomics come and join this initiative!

Registration for #IMMEM14 is now open! Don't forget it is limited to 350 participants so secure your spot. @escmid.bsky.social @esgem.bsky.social escmid.org/congress-eve...

I'm putting together a Microbial Bioinformatics starter pack to help get everyone connected in our community. Let me know if there are any bluesky users to be added and share so that twitter refugees can tune back in to the fantastic world microbes go.bsky.app/3ezLo7e