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Malaka De Silva

@malakades.bsky.social
110 followers 116 following 2 posts

Postdoctoral researcher based at the University of Cambridge.

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Reposted by Malaka De Silva
Kate Baker @ksbakes.bsky.social · 25/09/2026
We have an open Assistant/Associate Professor position in Pathogen Biology at the Department of Genetics - come and join us! 🦠 🧫 🧬https://www.cam.ac.uk/jobs/assistantassociate-professor-in-pathogen-genetics-pc51175
cam.ac.uk
Assistant/Associate Professor in Pathogen Genetics
Applications are invited for an Assistant or Associate Professorship in Pathogen Genetics to be held in the Department of Genetics. We are searching for a talented individual with a track record of fu...
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Pathogen Dynamics Unit @pducambridge.bsky.social · 25/09/2026
We have an open Assistant/Associate Professor position in Pathogen Genetics - come and join our department! 🦠 🧫 🧬https://www.cam.ac.uk/jobs/assistantassociate-professor-in-pathogen-genetics-pc51175
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Vicki Orr @vickiorr.bsky.social · 24/07/2026
Our pQBR plasmid paper is out! A model environmental plasmid collection that contains no known AMR genes and worldwide relatives! @jpjhall.bsky.social @ellieevolves.bsky.social @dwrivett.bsky.social and Rosanna Wright @microbiologysociety.org microbiologyresearch.org/content/journal/mgen/10.1099
microbiologyresearch.org
The pQBR mercury resistance plasmids: a model set of sympatric environmental mobile genetic elements
Plasmids are extrachromosomal mobile genetic elements that can facilitate rapid bacterial adaptation by transferring genes between individuals. Whilst plasmids are known to exist in diverse habitats a...
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Benoit Marteyn @marteynlab.bsky.social · 18/05/2026
Join our team at IBMC in Strasbourg as a postdoctoral fellow to develop/assess new familles of Shigella vaccine. Please RT. emploi.cnrs.fr/Offres/CDD/U...
emploi.cnrs.fr
Portail Emploi CNRS - Job offer - Postdoctoral researcher (M/F) – Shigella vaccine development
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Charles Wei @rositea.bsky.social · 06/05/2026
It took years after my masters to publish BaGPipe, now it's out! It's a Nextflow pipeline to run end-to-end bacterial GWAS, heavily tested and benchmarked on different datasets, and now in good hands of the Sanger's Pathogen Informatics Team. link.springer.com/article/10.1...
link.springer.com
BaGPipe: an automated, reproducible, and flexible pipeline for bacterial genome-wide association studies - BMC Microbiology
BMC Microbiology - Microbial genome-wide association studies (GWAS) are crucial for linking genetic variation to phenotypic traits in bacteria. However, current tools often involve complex manual...
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Kate Baker @ksbakes.bsky.social · 25/03/2026
And @paulturnermicro.bsky.social
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The Shigella Meeting @shigellameeting.bsky.social · 20/03/2026
By popular demand we have now added the option to watch the Shigella 2026 conference online! Check out virtual registration options here 🖥️ 🧫 www.shigella2026.conferences-pasteur.org/registration...
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Kate Baker @ksbakes.bsky.social · 20/03/2026
Great news for those who aren't able to attend in person
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Paul Fogg @pcmfogg.bsky.social · 20/03/2026
It is a pleasure to announce the 4th UK MGE workshop will be in York on 23rd-24th June 2026! Registration is free and we are actively looking for contributors. Interested? If so, please register via the website and select the talk option www.ukmgeworkshop.org We look forward to seeing you in York!
ukmgeworkshop.org
MGE-UK-4
We are thrilled to invite you to the fourth edition of the MGE UK Workshop, hosted this year in the historic City of York. Mobile Genetic Elements (MGEs) are the ultimate architects of biology. MGEs i...
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Siobhán O'Brien @siderophile.bsky.social · 18/02/2026
MENI is back! Join us in Dublin this August 2026 for our 3rd Meeting for Microbial Evolution in Ireland. We are delighted to have @rachelmwheatley.bsky.social @drrebeccajhall.bsky.social @jpjhall.bsky.social and @tweethinking.bsky.social join us as keynote speakers this year. miniurl.com/MENI
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Benoit Marteyn @marteynlab.bsky.social · 12/02/2026
To make sure the whole Shigella community will be gathered at this inaugural meeting, we have re-opened abstract submission for poster presentation until the end of the month. Please RT! www.shigella2026.conferences-pasteur.org/registration...
shigella2026.conferences-pasteur.org
Registration - EMBO Workshop Shigella: from biology to prevention
EMBO Workshop Shigella: from biology to prevention
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The Shigella Meeting @shigellameeting.bsky.social · 22/01/2026
Did you know shigellosis also transmits as a sexually transmissible illness? This has increased since the early 2000s with marked AMR. Read the back story on ST shigellosis emergence here, and come to Paris for #Shigella2026 to find out more! doi.org/10.1099/mgen...
doi.org
The natural history of the emergence of sexually transmissible shigellosis
Shigellosis is a gastrointestinal illness caused by bacteria belonging to one of four species of Shigella. Sexually transmissible (ST) shigellosis was first reported in 1974, but recently there has be...
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Kate Baker @ksbakes.bsky.social · 05/01/2026
Happy New Year Shigellophiles! There's only 105 days to go ... don't forget to get your abstract in!
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Kate Baker @ksbakes.bsky.social · 17/09/2025
Come and join us at @shigellameeting.bsky.social in Paris 2026. Registrations are now open! www.shigella2026.conferences-pasteur.org/home and follow the Shigella starter pack go.bsky.app/6Vbwhjc (message to be added)! 215 days to go!
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Maxence Lejars @mlejars.bsky.social · 10/09/2025
Happy to share the published version of our genetic toolbox, EASY-edit, for simple, flexible and efficient targeted editing in E. coli! Feel free to to try it, we can send strains and plasmids! academic.oup.com/nar/article/...
academic.oup.com
EASY-edit: a toolbox for high-throughput single-step custom genetic editing in bacteria
Abstract. Targeted gene editing can be achieved using CRISPR–Cas9-assisted recombineering. However, high-efficiency editing requires careful optimization f
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Isabel @isabelott.bsky.social · 01/09/2025
“…we demonstrate that although human use may affect the prevalence and mobility of genomic resistance in clinical isolates, for most antibiotics, genomic resistance existed within the pangenomes of sampled pathogens prior to clinical introduction.” Really neat stuff!
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Kaitlin Schaal @evokait.bsky.social · 03/09/2025
Is the era of microbial metagenomics over? Check out our new preprint on using species abundance distributions to predict plasmid maintenance in bacterial communities: arxiv.org/abs/2509.01695
arxiv.org
Heterogeneity drives plasmid maintenance in large microbial communities
Microbiomes are complex systems comprised of many interacting species. Species can survive harsh or changing conditions by rapid adaptation, a process accelerated by the exchange of genetic material b...
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Kaitlin Schaal @evokait.bsky.social · 03/09/2025
New preprint with my HFSP collaborators. Network structures for bacterial and plasmid interactions determine community structure and evolvability: doi.org/10.32942/X21...
doi.org
The interplay between ecological networks drives host-plasmid community dynamics
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Kaitlin Schaal @evokait.bsky.social · 03/09/2025
Plasmids can be lost from a bacterial community even under positive environmental selection: doi.org/10.1101/2025...
doi.org
Species interactions determine plasmid persistence in a 3-member bacterial community
Microbial communities are shaped by complex forces, including interspecies interactions and the effects of mobile genetic elements such as plasmids. How these forces interact to affect community respo...
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Eduardo Rocha @epcrocha.bsky.social · 03/09/2025
At last ! A tool specifically for phage-plasmid hunters. Check tyPPing by @karinailchenko.bsky.social and @eugenpfeifer.bsky.social
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Matt Sullivan @drsull.bsky.social · 04/09/2025
Vacancy! We have a postdoc position at UEA to explore the microbiology of metal resistance in Gram-positive pathogens. 📍 Norwich UK 🗓️ Apply by 21st September 25 🔗 tinyurl.com/mrssbd7f RPs appreciated! @microbiologysociety.org @asm.org @aussocmic.bsky.social @femsmicro.org @norwichmicro.bsky.social
tinyurl.com
Senior Research Associate (RA2346) in University of East Anglia | UEA
View details and apply for this Senior Research Associate (RA2346) vacancy in University of East Anglia. Faculty of Science School of Biological Sciences Senior Research Associate Ref: RA23...
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Matt Sullivan @drsull.bsky.social · 04/09/2025
Vacancy! We have a Technician role at UEA to support research on metal resistance in Gram-positive pathogens. 📍 Norwich UK 🗓️ Apply by 21st September 25 🔗 tinyurl.com/mr3ev3ke RPs appreciated! @microbiologysociety.org @asm.org @aussocmic.bsky.social @femsmicro.org @norwichmicro.bsky.social
tinyurl.com
Research Technician (TC923) in University of East Anglia | UEA
View details and apply for this Research Technician (TC923) vacancy in University of East Anglia. Faculty of Science School of Biological Sciences Research Technician (Part-Time, 0.6 FTE) R...
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Lewis C. E. Mason @lewiscemason.bsky.social · 28/08/2025
How should #XDR #shigellosis cases be treated? Our new education piece at #BMJ #SexuallyTransmittedInfections explores specific empirical treatment. Our recommendations are subsequent to our microbial genomic, phenotypic #AMR, and clinical/pharmacological analyses. sti.bmj.com/content/earl... 🧫💻🛟🧪🧬🦠
sti.bmj.com
Antimicrobial treatment options for extensively drug-resistant (XDR) shigellosis in men who have sex with men
The sexual transmission of Shigella s onnei and Shigella flexneri has been observed since the 1970s between men who have sex with men (MSM) associated with living with HIV, sexually transmitted infect...
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The Shigella Meeting @shigellameeting.bsky.social · 30/08/2025
232 days to go ...
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Alvaro San Millan @sanmillan.bsky.social · 13/08/2025
New paper in collaboration with the @asantoslopez.bsky.social lab! www.biorxiv.org/content/10.1...
biorxiv.org
Plasmids promote antimicrobial resistance through Insertion Sequence-mediated gene inactivation
Antimicrobial Resistance (AMR) is a major threat to public health. Plasmids are mobile genetic elements that can rapidly spread across bacterial populations, promoting the dissemination of AMR genes i...
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The Shigella Meeting @shigellameeting.bsky.social · 07/08/2025
Why not follow our @shigellameeting.bsky.social starterpack of people who are speaking at and attending the conference - please message to be added to the starter pack if you're planning on coming or we haven't found you yet! go.bsky.app/6Vbwhjc
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Kate Baker @ksbakes.bsky.social · 07/08/2025
I hope all my fellow #shigellaphiles have 20 - 24 April 2026 blocked out in their diaries for @shigellameeting.bsky.social next year in Paris! In the meantime, check out (and join) our starter pack to start community building now 🧫
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Dr Blanca Perez-Sepulveda @blancaps.bsky.social · 01/08/2025
Finally out!! It was a long time in the making, I hope you enjoy it!! #salmonella #iNTS #AMR
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Jamie Hall @jpjhall.bsky.social · 31/07/2025
It was great fun writing this review with @gemccallum.bsky.social , even if our conclusions are rather scary. Lots of important pathogen evolution must be occurring outside of the infection context...
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Jane Hawkey @yekwah.bsky.social · 30/07/2025
Huge amount of work in this paper, very proud of Hugh getting through all these benchmarking tests. We’re much more confident now using ONT-only data for our clinical questions
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Greg McCallum @gemccallum.bsky.social · 30/07/2025
Delighted to have this review out with @jpjhall.bsky.social! We discuss the risk of transmission of antimicrobial resistance in the hospital sink drain microbiome, highlight studies providing evidence of transfer, and consider strategies to mitigate these risks 🪠🦠 doi.org/10.1038/s442...
doi.org
The hospital sink drain microbiome as a melting pot for AMR transmission to nosocomial pathogens - npj Antimicrobials and Resistance
npj Antimicrobials and Resistance - The hospital sink drain microbiome as a melting pot for AMR transmission to nosocomial pathogens
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Kate Baker @ksbakes.bsky.social · 27/07/2025
There are half a million cases of invasive non-Typhoidal Salmonella (iNTS) every year and while you might know S. Typhimurim and Enteritidis, you may not have heard of S. Panama 💩 🩸 🧫 💊 Check out our latest in @lancetmicrobe.bsky.social doi.org/10.1016/j.la... and the 🧵 below to find out more 1/n
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David Sünderhauf @davvi36.bsky.social · 22/07/2025
Please share! 🦠 Workshop on Phage Therapy in Liverpool on 25th November organised by Stineke van Houte, @jojofoth.bsky.social, @brockhurstlab.bsky.social, & Edze Westra. Limited FREE tickets & more info here: sites.exeter.ac.uk/vanhoutelab/... #MicroSky
Conference flyer, all info is on link too
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Eduardo Rocha @epcrocha.bsky.social · 23/07/2025
Here's our new broad review on the extended mobility of plasmids, about all mechanisms driving and limiting their transfer. From conjugation to conduction, phage-plasmids to hitchers, molecular to evolutionary dynamics, ecology to biotech. The state of affairs. 1/9 academic.oup.com/nar/article/...
graphical abstract of the article the extended mobility of plasmids
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Pathogen Dynamics Unit @pducambridge.bsky.social · 06/07/2025
@ksbakes.bsky.social is representing PDU at the GRC Microbial Population Biology conference this week introducing the AMR through time and space session - check out the work of the other attendees here:
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Nature Genetics @natgenet.nature.com · 23/06/2025
💫Don't miss the N&V💫 📰Organoid models advance dysentery control. By Sydney L. Miles & Serge Mostowy. ⬇️ www.nature.com/articles/s41...
nature.com
Organoid models advance dysentery control - Nature Genetics
Shigella is a major human pathogen with a stark lack of pipelines linking genome content to clinical pathogenesis. An innovative study using large-scale organoid models, combined with genome-wide muta...
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Franklin Nobrega @fnobrega.bsky.social · 19/06/2025
Thank you to everyone who attended the 3rd UK MGE workshop. What an incredible few days of science and community building! Next stop: York 2026, hosted by @pcmfogg.bsky.social. See you all next year! #UKMGE
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Jamie Hall @jpjhall.bsky.social · 20/06/2025
🚨 Reminder! You have just over two weeks to submit an abstract, if you want to present at the @microbiologysociety.org meeting "Understanding and predicting microbial evolutionary dynamics" in Liverpool in November! #microsky 🦠🧫🔬
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Alvaro San Millan @sanmillan.bsky.social · 23/06/2025
Under the PLASFIGHTER project, we drive innovative solutions against AMR. 🔹 We use CRISPRi to dissect plasmid and multidrug-resistant enterobacteriaceae interactions 🔹 Through multi-omic data, we model real-world environments where AMR evolves  Learn more 👉 plasmidlab.es #AntibioticResistance
plasmidlab.es
Plasmid Biology and Evolution lab
Tracing the evolution of antibiotic resistance
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Contamination Club @contamclub.bsky.social · 02/06/2025
🚨 Very excited to finally say… 🚨 The story of Noodlococcus - the contaminant that started ContamClub - is available to read 📖🍜🦠 Check it out ➡️ doi.org/10.1101/2025... 1/15 🧵
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Alvaro San Millan @sanmillan.bsky.social · 28/05/2025
Through the new PLASFIGHTER project, we drive significant advances in unravelling and fighting AMR. We study plasmid-bacteria interactions to answer important questions about their role in generating and maintaining superbugs. Discover the project ➡️ plasmidlab.es/project/  #AntibioticResistance
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Lauren Cowley @laurencowley.bsky.social · 28/05/2025
Come to Newcastle this summer to hear about all the latest cool research in Genome Science www.genomescience.org.uk. The programme is hotting up! Get registering and see you there
genomescience.org.uk
Genome Science UK 2025
Newcastle University
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Kate Baker @ksbakes.bsky.social · 27/05/2025
Gonna be so good ...
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The Shigella Meeting @shigellameeting.bsky.social · 27/05/2025
Only 328 days to go! We're very busy behind the scenes getting thigns ready for the meeting! In the meantime you can add your email address for updates here: coming-soon.embo.org/w26-04
coming-soon.embo.org
Shigella, the first international meeting
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Kate Baker @ksbakes.bsky.social · 23/05/2025
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...
biorxiv.org
Defence systems drive accessory genome interactions in Pseudomonas aeruginosa
As well as undergoing mutational selection, bacterial genomes are shaped by a complex evolutionary interplay among diverse accessory genome elements (AGEs). In this study we define AGEs as encompassin...
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Kate Baker @ksbakes.bsky.social · 23/05/2025
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...
medrxiv.org
The natural history of the emergence of sexually transmissible shigellosis
Shigellosis is a gastrointestinal illness caused by bacteria belonging to one of four species of Shigella . Sexually transmissible shigellosis was first reported in 1974, but recently there has been a...
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Alvaro San Millan @sanmillan.bsky.social · 14/05/2025
Our updated lab website is live! We’ve kicked off a new project and a new look with it. Take a look and let us know what you think! 👉 plasmidlab.es
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John Innes Centre @johninnescentre.bsky.social · 09/05/2025
EVENT - Early Career Microbiologists Mini-Symposium Join our Department of Molecular #Microbiology Early Career Microbiologists Mini-Symposium. Application deadline: 9 June 2025. Event: 15 - 16 September 2025. The John Innes Centre, NR4 7UH Find out more and apply: www.jic.ac.uk/event/early-...
jic.ac.uk
Early Career Microbiologists Mini-Symposium 2025 | John Innes Centre
The Department of Molecular Microbiology is organising a one and a half day Early Career Microbiologists Mini-Symposium. The symposium will be held from Monday 15 – Tuesday 16 September 2025.
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Serge Mostowy @sergemostowylab.bsky.social · 02/05/2025
Shigella-trained pro-inflammatory macrophages protect zebrafish from secondary infection @cgmargarida.bsky.social
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Jamie Hall @jpjhall.bsky.social · 02/05/2025
‼️Update! Abstract submission is now open for the 2025 Liverpool UK @microbiologysociety.org meeting on "Understanding and predicting microbial evolutionary dynamics”! Deadline July 7th #microsky 🧪🧫🦠 microbiologysociety.org/event/societ...
microbiologysociety.org
Understanding and predicting microbial evolutionary dynamics - 2025 meeting
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