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Posts by Ryan Cook

So I don't think there was previously any evidence either way (that I know of), so it was more of an open question. It was possible that European settlers had brought it with them, but our results suggest that wasn't the case

6 days ago 1 0 1 0
An ancient genome of Streptococcus pyogenes from a pre-Columbian Bolivian mummy - Nature Communications Streptococcus pyogenes is a human pathogen responsible for a range of diseases. Here, the authors reconstruct an ancient S. pyogenes genome from a pre-Columbian Bolivian mummy, supporting that the pat...

Really happy to have played a small part in this cool piece of work led by @guido-valverde.bsky.social and @msabrysarhan.bsky.social. We characterised S. pyogenes in a pre-Columbian Bolivian mummy (suggesting circulation before European contact) #VivaBolivianMummies
www.nature.com/articles/s41...

1 week ago 14 10 1 0

We're excited for @microbiologysociety.org #microbio26 to begin but also to share the fantastic news that our @eh-hayles.bsky.social's latest paper is now preprinted. If you wanna hear about temporal dynamics & acquisition of Shiga toxin subtype stx2a within #STEC in England go see her poster at A39

1 week ago 10 5 0 0
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The second, I’m at #microbio26 in Belfast presenting the next stages of the project, looking at the gene, genome and phage variation of #stx2a. Come see me at poster A039!

1 week ago 13 3 1 0
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What a wonderful start to @microbiologysociety.org #microbio26 with an interactive session on celebrating & promoting actions advancing #EDI followed by @prideinmicro.bsky.social lecture on From visibility to belonging. Its been wonderful to see this network grow. Read more here: microb.io/4mnraQc

1 week ago 19 6 0 0
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Absolutely stellar start to #Microbio26 with the EDI prize lecture to @prideinmicro.bsky.social ! Well done and so well deserved @landongetz.bsky.social @edelplopez.bsky.social @bfrancescol.bsky.social 👏

1 week ago 32 7 2 1
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And the poster is up at #microbio26! Come and find me at A037 to talk all things biofilm :)

@microbiologysociety.org

1 week ago 18 3 0 1
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Phage Cocktail Designed for Wastewater Bioremediation Has Limited Effect on Crustacean Filtrator Microbiome Diversity and Health Phage cocktail designed for wastewater bioremediation is safe for freshwater filtrators. D. magna cultured with phages showed no significant changes in life-history parameters and minor shifts in the...

Excited to share our latest publication from the PhageLand project which investigated the effects of a phage cocktail, designed for wastewater bioremediation, on Daphnia magna microbiome and life-history parameters! 🌊💧

enviromicro-journals.onlinelibrary.wiley.com/doi/10.1111/...

1 week ago 8 3 1 0

🚨Two exciting updates! The first, our new preprint assessing the dynamics of Shiga toxin subtype #stx2a in #STEC across England, 2016-2024 is now live!

Read the preprint here: www.biorxiv.org/content/10.6...

1 week ago 4 2 1 0

First preprint from my PhD research under the supervision of Ed Galyov and @milja001.bsky.social
We developed a novel bacterial minicells platform combined with #metagenomics to selectively enrich cognate #phages from complex environmental samples and investigated phage-host interactions #phagesky

1 week ago 6 3 0 0
GitHub - gbouras13/baktfold: Rapid & standardized genome annotation using protein structural information Rapid & standardized genome annotation using protein structural information - gbouras13/baktfold

Whenever I presented Phold, I was frequently asked "can you do the same beyond phages?" We ( @oschwengers.bsky.social @linsalrob.bsky.social @binomicalabs.org et al) finally did it with Baktfold github.com/gbouras13/ba... www.biorxiv.org/content/10.6...

2 weeks ago 56 22 1 2

Really enjoyed working with @emmabeansworth.bsky.social and @gemma-langridge.bsky.social on this one! Am loving the inevitable phage-ification of the Langridge lab group #phages

3 weeks ago 8 2 0 0
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Unravelling the genetic threads: Comparative genomic analysis of Salmonella from food and clinical cases in England, 2015–2019 Despite advances in Salmonella testing, surveillance, and improved food safety practices, salmonellosis remains prevalent in the UK. The primary chall…

Massive thanks to Claire, @gemma-langridge.bsky.social' @ryancook94.bsky.social and @ukhsa.bsky.social's @mariechattaway.bsky.social, Beata Orzechowska and Frieda Jorgensen for getting this one over the line & in such quick time after there previous publication on this dataset!

3 weeks ago 2 1 0 0

Salmonella Genomic Markers for Risk to Food Safety www.biorxiv.org/content/10.64898/2026.03...

3 weeks ago 1 1 0 0
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Our @nisbetalice.bsky.social and @gemma-langridge.bsky.social are in Cambodia 🇰🇭
Powering through the jetlag, they are sharing their research on typhoidal #salmonella 🧬🦠
in collaboration with #ukhsa and #fijinationaluniversity
#takeontyphoid #phnompenh

3 weeks ago 16 5 1 0
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Research Fellow (Postdoctoral) at University of Birmingham Explore an exciting academic career as a Research Fellow (Postdoctoral). Don't miss out on other academic jobs. Click to apply and explore more opportunities.

Two post-doctoral positions open in our lab. We're looking for people with expertise in molecular microbiology and/or genome-scale tools. Initially 3 yrs, posts could be extended for upto 8 yrs. If you'd like to know more about us take a look at www.graingerlab.com

www.jobs.ac.uk/job/DQY475/r...

4 weeks ago 27 52 0 1
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Microbial Ecological Signatures Predict Pathogen Emergence and Multidrug Resistance in Cystic Fibrosis Airways up to a Year in Advance Chronic infections in cystic fibrosis (CF) emerge from gradual ecological transitions in the airway microbiome, yet early predictive markers remain poorly defined. We developed a new autoencoder-based...

Check out our preprint on airway microbiome CF

www.medrxiv.org/content/10.6...

Q: Can we predict clinical outcomes before the clinic?
A: Yes!

🦠 Microbiome predicts Pseudomonas colonisation & AMR early
🦠 Resistance mechanisms mirror those seen in lab!

#Microbiome #CysticFibrosis #Metagenomics

4 weeks ago 14 7 0 0
Oral microbiome | Centre For Biophoton

🚨PhD studentship alert!

Join @gailmcconnell.bsky.social, @liam-rooney.bsky.social and I for an exciting imaging project characterising inter-species interactions in the oral microbiome. Details here:
www.centreforbiophotonics.com/oralmicrobio...

Application deadline 10th April 2026!

1 month ago 9 10 1 0
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Structural and functional diversity of toxin-antitoxin-chaperone systems Toxin-antitoxin-chaperone (TAC) systems are three-part gene clusters encoding a toxin, antitoxin, and specialized SecB-like chaperone (SecBTA) with em…

Had a bit of a break from the socials and forgot my Bluesky password, but really happy to belatedly share some great work from PhD student Jose Nakamoto on the diversity of toxin-antitoxin-chaperone systems
www.sciencedirect.com/science/arti...

1 month ago 33 7 1 0
Research Associate in Microbial Genomics:Manchester This postdoctoral research position is part of a Cystic Fibrosis Canada Early Career Investigator Award funded for 3-years led by Dr. Fabrice Jean-Pierre and Dr. Fiona Whelan. The aim of this project is to identify the genetic changes that arise in the Pseudomonas aeruginosa genome following perturbations – such as antibiotic treatment – in an in vitro system. The PDRA will use a large dataset of P. aeruginosa genomes and experimental metadata to predict key mutationsto the organism.

📣 The Whelan lab is hiring a bioinformatics postdoc 📣

Together with @fabricejpierre.bsky.social, we are offering a 1-year bioinformatic PDRA position in comparative genomics of Pseudomonas aeruginosa. To find out more please visit whelanlab.co.uk/contact/. Applications close 3 April 2026!

1 month ago 24 39 0 4
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A virus hiding inside bacteria may help explain colorectal cancer Scientists found an unexpected viral hitchhiker lurking inside a common gut bacterium – and it was twice as prevalent in people with colorectal cancer.

A virus hiding inside bacteria may help explain colorectal cancer 🦠

"The broader implication is a shift in how we think about the gut microbiome and its relationship to disease. It may not be enough to ask which bacteria are present."

🗨️ Dr Ryan Cook, Research Scientist

1 month ago 4 4 0 0
2026 PhD – bourse d’excellence IVID – Graduate Plus

📢 Opportunity to apply for a PhD fellowship to join our group and work on MGE-MGE interactions and phage defence systems!
@mmsb-lyon.bsky.social

See informations about eligibility and research project on this web page: graduate-plus.fr/immunology-v...

Contact me if you are interested !

1 month ago 10 12 0 0
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A virus hiding inside bacteria may help explain colorectal cancer Scientists found an unexpected viral hitchhiker lurking inside a common gut bacterium – and it was twice as prevalent in people with colorectal cancer.

Scientists found an unexpected viral hitchhiker lurking inside a common gut bacterium – and it was twice as prevalent in people with colorectal cancer.

1 month ago 13 7 0 0
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A virus hiding inside bacteria may help explain colorectal cancer Scientists found an unexpected viral hitchhiker lurking inside a common gut bacterium – and it was twice as prevalent in people with colorectal cancer.

Really enjoyed writing a piece for @uk.theconversation.com - trying to write for a general audience, you suddenly realise how much jargon is deeply embedded in your brain #Phages #Microbiome #SciComm

theconversation.com/a-virus-hidi...

1 month ago 8 2 0 0
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Postdoc Ad Postdoctoral Position in Computational Phage Biology Microbial Genomics Group, Malopolska Centre of Biotechnology (MCB), Jagiellonian University, Kraków PL Summary We are seeking a postdoctoral rese...

📢 Hiring a Postdoc in Computational Phage Biology (Kraków, Poland)

We study the evolution & structural modularity of prophage-encoded glycan-degrading enzymes in Klebsiella pneumoniae — combining genomics and AlphaFold-based analyses.

Details in attached PDF 👇

1 month ago 10 12 1 0
Job Details

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 👀

1 month ago 7 13 0 2
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(President's Doctoral Scholar Award) A mechanistic understanding of microbe-immune cross talk in the face of pollutant challenge at The University of Manchester on FindAPhD.com PhD Project - (President's Doctoral Scholar Award) A mechanistic understanding of microbe-immune cross talk in the face of pollutant challenge at The University of Manchester, listed on FindAPhD.c...

📣 2026 PhD studentship 📣
Via @manchester.ac.uk 's President's Doctoral Scholar Awards, we are encouraging applications for a PhD on the effect of pollutant exposure on microbe-immune cross talk. This project will incorporate microbiology, immunology, & bioinformatics. Deadline: 16 March 2026!

2 months ago 7 6 0 2

📣new preprint from the phagefoundry.org team 🎉 Jessica Trinh and Catherine Mageeney (Sandia National Laboratories)!!

Systematic analysis of prophages from ~1000 Acinetobacter baumannii isolates, induction & screening. We found this 😎 looking phage with bunch of 💍💍

2 months ago 35 13 0 1
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Quadram Institute spinoff Quadlytics shortlisted for innovation award - Quadram Institute Quadlytics, led by Dr Hannah Morelli, is developing technology that identifies combinations of bacteriophages, commonly called phages, which are helpful viruses that can be used as alternatives to…

Quadlytics, led by Dr Hannah Morelli, is developing technology that identifies combinations of bacteriophages, commonly called phages, which are helpful viruses that can be used as alternatives to antibiotics to kill bacteria in humans, animals and in the environment.

2 months ago 5 6 0 0

🔔Collabator Alert🔔

I’m putting together a project on UTIs and the urogenital microbiome and am looking for a collaborator with solid metagenomic sequencing/analysis experience. If you’d be interested in joining the work, I’d love to talk

#MicroSky #UTISky

2 months ago 9 14 2 1