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Célia Souque

@celiasouque.bsky.social
1.6K followers 785 following 41 posts

Evolution | Genomics | AMR ECDC EUPHEM fellow at the Norwegian Institute of Public Health. Previously seen: Harvard Medical School Currently obsessed with plasmids 🦠

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Reposted by Célia Souque
Everyone's least favorite lab mate @kepatitis-c.bsky.social · 06/01/2026
🎉 New year, NEW PREPRINT! Bacteria exhibit astonishing genetic diversity, but where do new genes come from? My best friend Arya Kaul (/labmate in the @baym lab) investigates how advantageous deletions can spawn new genes - "deletion-born fusions." 🧵:
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Everyone's least favorite lab mate @kepatitis-c.bsky.social · 20/11/2025
What is the best strategy to win any contest? Eliminate your opponents of course. Recently, my friend @fernpizza.bsky.social showed how plasmids compete intracellularly (check out his paper published in Science today!). With @baym.lol, we now know they can fight. www.biorxiv.org/content/10.1...
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Ricardo León-Sampedro @rleonsampedro.bsky.social · 07/11/2025
🚨 Excited to share our new paper is out! 🎉 We show how interactions within gut microbiomes allow certain antibiotic-resistant E. coli strains to persist even without antibiotics, helping explain how resistance is maintained in the human gut. Now published in @natcomms.nature.com rdcu.be/eOf63
rdcu.be
Multi-layered ecological interactions determine growth of clinical antibiotic-resistant strains within human microbiomes
Nature Communications - The role of ecological factors in modulating the spread of antibiotic-resistance bacteria in the gut remains unclear. Here, the authors use anaerobic microcosms to study the...
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Louise Roer @louiseroer.bsky.social · 18/09/2025
✨Célia Souque just showcased the outcomes of the 12th Microbial Bioinformatics Hackathon at IMMEM XIV. She brilliantly presented the first sneak-peek of PORT – Plasmid Outbreak Reporting Tool! 🧬 Looking forward to continuing this collaboration with PORT! #IMMEM #Hackathon #Plasmids #ESGEM #ESGMAP
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Sofya Garushyants @garushyants.bsky.social · 15/09/2025
hey bluesky 👋 visa hurdles mean I’m looking for opportunities outside the US. I’m a computational biologist (bacterial + phage genomics, postdoc in Koonin’s group @ NIH). I am interested in teaming up on funding apps. reach out if this resonates!
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Didier Mazel @amazeld.bsky.social · 23/06/2025
chng.it/jNJSnj2hjQ
chng.it
Avez-vous une minute pour aider cette campagne?
Sauvons BIOASTER : Un Appel Urgent pour la Recherche en Microbiologie !
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Reposted by Célia Souque
ESCMID_ESGMAP @esgmap.bsky.social · 19/06/2025
ESGMAP is now on LinkedIn and Bluesky! We published our first newsletter (lnkd.in/dUe43t8y). It introduces us, our mission, activities, and ways to get involved. Fill out our members' survey, and associate your publications with the group. Follow us for updates on the mobile elements and plasmids.
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Reposted by Célia Souque
Siân Owen @sianowen.bsky.social · 03/06/2025
The Wadsworth Center is expanding it's research focus on #virology /vector-borne diseases! www.asmcareerconnections.org/job/research-scientist-5-g-31/78488664/ This is a unicorn assistant prof equivalent position with 12-month hard money salary and no teaching commitments (!) Reposts appreciated 🙏
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Liana Merk @bacteriyay.bsky.social · 24/05/2025
(1/7) Very excited to share my first PhD preprint on the interactions of two of my favorite mobile genetic elements: phages and group II introns! www.biorxiv.org/content/10.1...
biorxiv.org
Prevalence of Group II Introns in Phage Genomes
Although bacteriophage genomes are under strong selective pressure for high coding density, they are still frequently invaded by mobile genetic elements (MGEs). Group II introns are MGEs that reduce h...
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Craig MacLean @craigmaclean.bsky.social · 08/05/2025
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...
my.corehr.com
Job Details
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Jose A Escudero @jaescudero.bsky.social · 08/05/2025
🧪 Finally out after peer review, our work showing that "Mobile #Integrons carry Phage Defense Systems" is now published in Science 🎉 Short 🧵 www.science.org/doi/10.1126/...
science.org
Mobile integrons encode phage defense systems
Integrons are bacterial genetic elements that capture, stockpile, and modulate the expression of genes encoded in integron cassettes. Mobile integrons (MIs) are borne on plasmids, acting as a vehicle ...
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Reposted by Célia Souque
Bram van Dijk 🏳️‍🌈 @bramvandijk.bsky.social · 24/03/2025
Cool preprint! The smallest Darwinian entity is a little smarter than we thought... www.biorxiv.org/content/10.1...
biorxiv.org
RNA-guided nucleases enable a gene drive of insertion sequences in plasmids
Mobile genetic elements (MGEs) and the interactions between them are a major source of evolutionary innovation. Insertion sequences, the simplest MGEs usually encoding only the necessary genes for tra...
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Célia Souque @celiasouque.bsky.social · 03/03/2025
Any idea when the abstract submission portal opens for IMMEM XIV? 😊 @esgem-sg.bsky.social
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Reposted by Célia Souque
Randall Munroe @xkcd.com · 26/02/2025
RNA xkcd.com/3056
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Célia Souque @celiasouque.bsky.social · 21/02/2025
Ground-breaking work by one of the most amazing of scientists. A must read for all plasmids afficionado (and and any evolutionary biologist in general!)
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Reposted by Célia Souque
Michael Baym @baym.lol · 17/01/2025
This paper has been a long time coming: We looked at the genomes of historical bacterial samples over a century to look for trends of antibiotic resistance genes, finding multiple instances of them in infections before the age of antibiotics, but an increase in both frequency and mobility after
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Reposted by Célia Souque
bioRxiv Microbiology @biorxiv-microbiol.bsky.social · 17/01/2025
Genomic resistance in historical clinical isolates increased in frequency and mobility after the age of antibiotics www.biorxiv.org/content/10.1101/202…
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Alexandre Almeida @alexmsalmeida.bsky.social · 10/01/2025
Delighted to share the first peer-reviewed paper from our team @camvetschool.bsky.social where we investigate the ecological dynamics of Enterobacteriaceae in the human gut #microbiome: www.nature.com/articles/s41... @naturemicrobiol.bsky.social
nature.com
Ecological dynamics of Enterobacteriaceae in the human gut microbiome across global populations - Nature Microbiology
Assessing more than 12,000 metagenomic samples from across the world using computational approaches, the authors determined interactions between species that co-colonize or co-exclude Enterobacteriace...
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Anna Dewar @annadewar.bsky.social · 08/01/2025
Our review is out in Nature Reviews Genetics! rdcu.be/d5AY2 We show how phylogeny-based methods can resolve the problem of non-independence in genomic datasets. These methods must be considered an essential part of the comparative genomics toolkit. @lauriebelch.bsky.social @stuwest.bsky.social
rdcu.be
A phylogenetic approach to comparative genomics
Nature Reviews Genetics - Controlling for phylogeny is essential in comparative genomics studies, because species, genomes and genes are not independent data points within statistical tests. The...
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Rachel M. Wheatley @rachelmwheatley.bsky.social · 30/12/2024
Sharing three fully funded PhD opportunities to join my lab at Queen’s to work on topics spanning bacterial pathogens, antibiotic resistance, microbial interactions, & mobile genetic elements 🦠. Closing dates in January and February, and open to international candidates 🌍 Projects detailed below ⬇️
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Michael Brockhurst @brockhurstlab.bsky.social · 04/12/2024
In case you missed it: @matthewjshepherd.bsky.social surveyed the clinical literature to reveal how #AMR evolves within patients, why eco/evo mechanisms vary among infections, & what we can do better to improve treatments www.nature.com/articles/s41... #MicroSky
nature.com
Ecological and evolutionary mechanisms driving within-patient emergence of antimicrobial resistance - Nature Reviews Microbiology
In this Review, Shepherd, Brockhurst and colleagues explore the clinical evidence in support of four major ecological and evolutionary mechanisms of within-patient antimicrobial resistance emergence i...
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Célia Souque @celiasouque.bsky.social · 03/12/2024
Gosh parts of me hate the concept of ChatGPT with a passion, but I have to acknowledge it's supremacy when trying to debug a Snakemake pipeline, which I am not convinced are made to be understood by humans 😅
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Reposted by Célia Souque
Anita Williams @catanita.bsky.social · 02/12/2024
Volume 2 of the #AMR Starter Pack is here! go.bsky.app/EUY2FUJ Follow these amazing people along with those in Vol. 1 go.bsky.app/KkZfvrh And don't forget to pin the Antimicrobial Resistance feed to get all the AMR posts in one place bsky.app/profile/did:...
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Craig MacLean @craigmaclean.bsky.social · 27/11/2024
Don't know how to do polls in Bluesky, but am very curious to know how what the #microsky thinks. Genes that increase fitness in natural conditions are: A. Over-represented on plasmids B. Over-represented on the chromosome C. Evenly distributed between plasmids and the chromosome
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Célia Souque @celiasouque.bsky.social · 27/11/2024
That's low-key one of my favorite thing about Oslo - the city center is very often car free, and the few cars are often electric, which makes them much less audible. Going to back to a 'proper' big city (Stockholm) for a week felt weird!
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Reposted by Célia Souque
Willem van Schaik @wvschaik.bsky.social · 30/10/2024
Please sign up, it will be fun! Open for all with an interest in AMR and genomics (in the UK and elsewhere). www.targetamr.org.uk (and please give @target-amr.bsky.social a follow!)
targetamr.org.uk
TargetAMR – Reducing AMR through Genomics
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Ellie Rand @ellie-rand.bsky.social · 23/11/2024
Get ready to dance, our paper – Phage DisCo: targeted discovery of bacteriophages by co-culture – has been pre-printed! 🪩 This has been a really fun project to work on with @sianowen.bsky.social, @baym.lol, @nquinoneso.bsky.social, and our two talented undergrads Kesther and Carmen!
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Célia Souque @celiasouque.bsky.social · 22/11/2024
Very glad to see this properly out and open access from my time with @baym.lol We've learnt so much about antibiotic resistance evolution already, and yet so many outstanding and fascinating questions remain, at all levels of selection. www.annualreviews.org/content/jour...
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Michael Baym @baym.lol · 21/11/2024
The first review article from my lab, helmed by @celiasouque.bsky.social, "From Petri Dishes to Patients to Populations: Scales and Evolutionary Mechanisms Driving Antibiotic Resistance" is now online and open access at Annual Reviews Microbiology: www.annualreviews.org/content/jour...
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Célia Souque @celiasouque.bsky.social · 19/11/2024
Very excited to be on the way to #ESCAIDE in Stockholm, and in particular to meet old and new EPIET/EUPHEM fellows 😄 On that note, if you are related to the fellowship and are not on this starter pack, let me know! go.bsky.app/EDqC8CG
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Reposted by Célia Souque
Michael Landis @landismj.bsky.social · 19/11/2024
Here's a starter pack for early career researchers in evolutionary biology. I prioritized the most-junior folks, and this list quickly filled up with undergrads, grad students, and postdocs. Might do another list later, but I'm tired. Have fun everyone! 🐒 #evobio go.bsky.app/MzND7nX
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Elinne Becket, PhD @bielleogy.bsky.social · 13/11/2024
Phylogenetics skeeps: any recommendations for a review of different approaches for building phylogenetic trees?
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Jerónimo Rodríguez-Beltrán @jerorb.bsky.social · 11/11/2024
I just made a starter pack on Ecology and Evolution of AMR. 🦠 ⚡ 💊 Feel free to suggest names and I’ll add them as soon as I can!! go.bsky.app/CwEzc79
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Eva Garmendia @evagaresp.bsky.social · 12/11/2024
If you follow me, you should definetely follow the @uac-uu.bsky.social account! I post there as part of my work as coordinator of the center, and will all be about #AMR and #antibiotics! Help me get the center’s words to the right audience!! 👇🏻👇🏻
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Mel Lacey @mellacey.bsky.social · 11/11/2024
Microbiology Education and Outreach peeps, I tried to find all the folk here I could and make this, please let me know who I've missed and I'll add them go.bsky.app/QYgSwS6
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João Botelho @joaoftsbotelho.bsky.social · 10/11/2024
Mobile Elements Starter Pack on BlueSky! Interested in plasmids, phages, ICEs, transposons, integrons, and all things accessory genome? Follow this curated list of researchers and labs doing exciting work in mobile elements.
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Célia Souque @celiasouque.bsky.social · 14/03/2024
Question for the (ex-)postdocs! I am co-corresponding author of soon-to-be-out paper (yay!), but my current academic email is tied with my postdoc. I hate putting an email that will become a dud, but feel personal (gmail) email look less professional? In that case, email of PI is also included.
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Elisa Granato @prokaryota.bsky.social · 14/12/2023
Big career announcement!! A few weeks ago I was offered an interview and site visit for a tenure-track Professor of Microbiology position at a dream location. But - I declined! Here is why ... (TLDR: enthusiastically saying "No, thank you" to academia) #MicroSky 1/8
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Will Matlock @wtmatlock.bsky.social · 07/12/2023
The formatted version of our multi-niche, multi-year plasmid genomic epidemiology study is finally available (elifesciences.org/articles/85302), but more importantly, I’d love to see future studies make use of the 1000s of Enterobacterales hybrid assemblies we generated: zenodo.org/records/7948...
elifesciences.org
Enterobacterales plasmid sharing amongst human bloodstream infections, livestock, wastewater, and wa...
A geographically and temporally restricted genomic surveillance study concludes that Enterobacterales plasmid dissemination between human and non-human niches might be occurring at greater rates than ...
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Célia Souque @celiasouque.bsky.social · 21/11/2023
Continuing on my #sulfa discovery journey 🦠🧫 by learning that we owe the Food and Drug Administration to sulfa drugs😮Their discovery led to a craze and spread of badly prepared sulfa 'elixirs' which caused mass poisoning, and the push to regulate pharmaceuticals! en.m.wikipedia.org/wiki/Elixir_...
en.m.wikipedia.org
Elixir sulfanilamide - Wikipedia
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Jose A Escudero @jaescudero.bsky.social · 21/11/2023
Check out our last work with Celine Loot, Ole Skovgaard, @amazeld.bsky.social and @sanmillan.bsky.social. We have deleted the Superintegron from V. cholerae! A long-awaited feat in the field!! Despite losing 3% of the genome, the strain remains phenotipically identical across Manu conditions!! 😵
biorxiv.org
Chromosomal Integrons are Genetically and Functionally Isolated Units of Genomes
bioRxiv - the preprint server for biology, operated by Cold Spring Harbor Laboratory, a research and educational institution
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Célia Souque @celiasouque.bsky.social · 11/11/2023
OK but like, could the new frontier of open access be book chapters? There is nothing worse than a very promising paper being just that out of reach, especially when a physical copy can't even be found on campus. (and also what are the benefits as an author if no one can't access it 😅)
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Elisa Granato @prokaryota.bsky.social · 10/11/2023
UK research fellowship interview season is upon us - here are some tips to help you prepare! Featuring a list of 100(!) popular Q&A questions elisagranato.com/how-to-apply...
elisagranato.com
How to apply for a (UK) postdoc fellowship - Elisa Granato
How to apply for a (UK) postdoc fellowship Disclaimer: this guide was written based on my experience applying for (and being awarded) a BBSRC Discovery Fellowship in 2020/2021. Some of this might appl...
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Célia Souque @celiasouque.bsky.social · 09/11/2023
Oh I should have added a 🦠🧫 - still getting used to the #Microsky thing!
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Célia Souque @celiasouque.bsky.social · 09/11/2023
Reading a bit about the history of antibiotics. Sulfa drugs were widely used before penicillin became a thing. Why does penicillin get all the glory? Simply bad PR from sulfa, or was penicillin just that much better?
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Vaughn Cooper @vscooper.micropopbio.org · 16/10/2023
This is a great opportunity👇 If you want to be stateside, I’m also searching for a similar role 🧪🧬
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Célia Souque @celiasouque.bsky.social · 16/10/2023
Awesome postdoc opportunity with a great supervisor!
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Célia Souque @celiasouque.bsky.social · 09/10/2023
Tonight new experience was bonsaï making 😮 Surprised at how fun it was!
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Zamin Iqbal @zaminiqbal.bsky.social · 04/10/2023
I'm recruiting PhD students for Oct 24 start at University of Bath. Fully funded for UK students only. If interested in developing data structures/algorithms for bacterial genomics, or exploring plasmid epidemiology, or ML/AI on bacterial/phage geno/pheno data, give me a call!
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Elisa Granato @prokaryota.bsky.social · 04/10/2023
Hey friends! I'm Elisa, and I study microbes and how they fight each other 🦠⚔️ My favorite things are: science, cats, and explaining science with cats. Based in Oxford but a Bavarian at heart 🥨
Woman in pink lab coat wearing green gloves making the peace sign.cute grey cat sitting in front of laptop and flowersCute black cat biting finger. Meme text overlay: exonuclease  (cat) and polynucleotide (finger).
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