Célia Souque
Evolution | Genomics | AMR
ECDC EUPHEM fellow at the Norwegian Institute of Public Health. Previously seen: Harvard Medical School
Currently obsessed with plasmids 🦠
- Reposted by Célia Souque🎉 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." 🧵:
- Novel genes arise from genomic deletions across the bacterial tree of life biorxiv.org/content/10.64898/20…
- Reposted by Célia SouqueWhat 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...
- Reposted by Célia Souque🚨 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
- Reposted by Célia Souque✨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
- Reposted by Célia Souquehey 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!
- Reposted by Célia Souque
- Reposted by Célia SouqueESGMAP 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.
- Reposted by Célia SouqueThe 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 🙏
- Reposted by Célia Souque(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...
- Reposted by Célia SouqueNew 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...
- Reposted by Célia Souque🧪 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/...
- Reposted by Célia SouqueCool preprint! The smallest Darwinian entity is a little smarter than we thought... www.biorxiv.org/content/10.1...
- Any idea when the abstract submission portal opens for IMMEM XIV? 😊 @esgem-sg.bsky.social
- Reposted by Célia SouqueRNA xkcd.com/3056
- 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!)
- I'm so happy that I can finally share the results of my first postdoc paper with @baym.lol!!! Turns out plasmids are an amazing system to study multi-scale evolution and we can track within-cell and between-cell dynamics! (1/n) www.biorxiv.org/content/earl...
- Reposted by Célia SouqueThis 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
- Genomic resistance in historical clinical isolates increased in frequency and mobility after the age of antibiotics biorxiv.org/content/10.1101/202…
- Reposted by Célia SouqueGenomic resistance in historical clinical isolates increased in frequency and mobility after the age of antibiotics biorxiv.org/content/10.1101/202…
- Reposted by Célia SouqueDelighted 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
- Reposted by Célia SouqueOur 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
- Reposted by Célia SouqueSharing 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 ⬇️
- Reposted by Célia SouqueIn 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
- 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 😅
- Reposted by Célia SouqueVolume 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:...at://did:plc:swgxhx3zgg47bscokhlo2j24/app.bsky.graph.starterpack/3lccjrm3prm2o
- Reposted by Célia SouqueDon'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
- 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!
- Reposted by Célia SouquePlease 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!)
- We've officially launched the #TARGetAMR network! Join us on our mission to create a #Transdisciplinary network to explore how #Genomics can combat #AMR. Together we can make a difference: Sign up now: targetamr.org.uk #AntimicrobialResistance #GlobalHealth #SaveLives
- Reposted by Célia SouqueGet 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!
- 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...
- Reposted by Célia SouqueThe 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...
- 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/EDqC8CGat://did:plc:sljja5dym6tsh3nzidxo6hc2/app.bsky.graph.starterpack/3laqkzajmvf25
- Reposted by Célia SouqueHere'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/MzND7nXat://did:plc:lqntypahtulzsssbj3slomy7/app.bsky.graph.starterpack/3lb5nxrqajy2n
- Reposted by Célia SouquePhylogenetics skeeps: any recommendations for a review of different approaches for building phylogenetic trees?
- Reposted by Célia SouqueI 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/CwEzc79at://did:plc:vm4xes4swfr7wj5byw6uunvn/app.bsky.graph.starterpack/3lapa3ih4ns2g
- Reposted by Célia SouqueIf 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!! 👇🏻👇🏻
- Hi there #blueworld! We are expanding our presence on the social platforms and want to connect with you here as well! We are a center for #research & #education on #antibiotics, #antibioticresistance & #AMR at Uppsala University. Looking forward to connect and grow with all of you, join us! 🙌🏻
- Reposted by Célia SouqueMicrobiology 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/QYgSwS6at://did:plc:aykihv222o7anvao3s33cocx/app.bsky.graph.starterpack/3lao4nnydtm26
- Reposted by Célia SouqueMobile 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.at://did:plc:5sw7inqlcs26nurzzysdo7dm/app.bsky.graph.starterpack/3lak65fp46w2z
- 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.
- Reposted by Célia SouqueBig 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
- Reposted by Célia SouqueThe 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...
- 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_...
- Reposted by Célia SouqueCheck 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!! 😵
- 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 😅)
- And sure, you can take the way of the high sea, but that's something that could be definitely less gatekeepy
- Reposted by Célia SouqueUK 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...
- Oh I should have added a 🦠🧫 - still getting used to the #Microsky thing!
- 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?
- Reposted by Célia SouqueThis is a great opportunity👇 If you want to be stateside, I’m also searching for a similar role 🧪🧬
- Postdoc job: 10 days left to apply for this ERC funded postdoc position studying evolutionary biology of antibiotic resistance in my lab: www.jobs.ac.uk/job/DDA647/p...
- Awesome postdoc opportunity with a great supervisor!
- Postdoc job: 10 days left to apply for this ERC funded postdoc position studying evolutionary biology of antibiotic resistance in my lab: www.jobs.ac.uk/job/DDA647/p...
- Tonight new experience was bonsaï making 😮 Surprised at how fun it was!
- Reposted by Célia SouqueI'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!
- Reposted by Célia SouqueHey 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 🥨
- Reposted by Célia SouqueNew to Bluesky! Evolutionary microbiology person. Interested in AMR, microbiomes, lungs, and dabbling in experimental evolution & bioinformatics. Currently based in Oxford (UK), as a Fellow in Biology at Magdalen College. In free time… lots of judo and boxing!
- Having a layover in Madrid - was already looking forward to bring back all the jamón when I saw this. USA why are you so cruel 😭
- Reposted by Célia SouqueMicrobio ppl are fun. Who else should I follow? Looking for more people in microbial evolution and metabolism peeps. TYIA!
- Reposted by Célia SouqueMicrobiologists, as requested we have a feed: MicroSky! Use this form to sign up: forms.gle/kiPC8vDKGDZV... and then tag posts with #MicroSky (case insensitive) or 🧫 or 🦠 and enjoy! Thanks to @kyt-thatsme.bsky.social for getting this going
