Kate Baker
@ksbakes.bsky.social
Prof @cambridgebiosci.bsky.social Genomic epidemiologist connecting pathogen evolution with public health outcomes. #Shigella and #AMR enthusiast. Views own. http://gen.cam.ac.uk/baker-group also www.pdu.gen.cam.ac.uk also @pducambridge.bsky.social
Twitching was like Pokémon Go before there was Pokémon Go … minus the battles I guess 🦅 🦢 🐦
Time to begin my promised/threatened thread of lifers I see while I'm in Costa Rica!
Won't necessarily be the best shots, just the best record shot between when I'm at the hotels.
1. Scarlet Macaw
Won't necessarily be the best shots, just the best record shot between when I'm at the hotels.
1. Scarlet Macaw
November 26, 2025 at 7:52 AM
Twitching was like Pokémon Go before there was Pokémon Go … minus the battles I guess 🦅 🦢 🐦
Okay, it's the start of the academic year and there have been further funny (and some frustrating) mix ups ... just a gentle reminder that there are two of us - try to make sure you have the right one ...
November 26, 2025 at 7:21 AM
Okay, it's the start of the academic year and there have been further funny (and some frustrating) mix ups ... just a gentle reminder that there are two of us - try to make sure you have the right one ...
Reposted by Kate Baker
Encourage creativity and storytelling for young folk 9+ with a copy of Graphic Novel Builder: the illustrated guide to making your own comics! With an intro by Alice Oseman! ✏️
www.edwardross.co.uk/shop/p/graph...
www.edwardross.co.uk/shop/p/graph...
Graphic Novel Builder: The illustrated guide to making your own comics — Edward Ross
A comic book…about making comic books! The perfect gift for budding artists and aspiring storytellers. Written and illustrated by comic artist Edward Ross with an introduction by Alice Oseman, creat...
www.edwardross.co.uk
November 25, 2025 at 12:31 PM
Encourage creativity and storytelling for young folk 9+ with a copy of Graphic Novel Builder: the illustrated guide to making your own comics! With an intro by Alice Oseman! ✏️
www.edwardross.co.uk/shop/p/graph...
www.edwardross.co.uk/shop/p/graph...
Reposted by Kate Baker
Really pleased to share the first paper to come out of the lab.
We found that hospital patients were frequently colonised with P. aeruginosa and that the same clone was shared between the gut and the lung.
The phylogenies indicate that the clones moved from lung->gut
www.nature.com/articles/s41...
We found that hospital patients were frequently colonised with P. aeruginosa and that the same clone was shared between the gut and the lung.
The phylogenies indicate that the clones moved from lung->gut
www.nature.com/articles/s41...
High frequency body site translocation of nosocomial Pseudomonas aeruginosa - Nature Communications
Here, the authors report within-host diversity and body site translocation dynamics in hospital samples of Pseudomonas aeruginosa and reveal that body site sharing was likely due to within-patient tra...
www.nature.com
November 25, 2025 at 10:40 AM
Really pleased to share the first paper to come out of the lab.
We found that hospital patients were frequently colonised with P. aeruginosa and that the same clone was shared between the gut and the lung.
The phylogenies indicate that the clones moved from lung->gut
www.nature.com/articles/s41...
We found that hospital patients were frequently colonised with P. aeruginosa and that the same clone was shared between the gut and the lung.
The phylogenies indicate that the clones moved from lung->gut
www.nature.com/articles/s41...
I have a wonderful colleague who calls these things out by saying “It’s interesting you think that, what makes you think that?”
I really need to practice saying “what a weird, rude thing to say” to the people who say weird, rude things to me
November 24, 2025 at 8:17 PM
I have a wonderful colleague who calls these things out by saying “It’s interesting you think that, what makes you think that?”
Normally I would agree with this but it’s 2025 and the 30th of November is right there. A conveniently located Sunday. It’s gonna happen people.
Stop putting Christmas decorations up before December you maniacs
November 21, 2025 at 8:33 PM
Normally I would agree with this but it’s 2025 and the 30th of November is right there. A conveniently located Sunday. It’s gonna happen people.
Reposted by Kate Baker
#Abstract submissions are open for The #Shigella Meeting! If you would like to be considered for a #travel #grant, abstracts are due December 16, 2025. Regular submissions due January 14, 2026. Show us your #science!
@shigellameeting.bsky.social
🦠 🧫🔬 #Microsky #IDsky
@shigellameeting.bsky.social
🦠 🧫🔬 #Microsky #IDsky
Call for abstracts - EMBO Workshop Shigella: from biology to prevention
EMBO Workshop Shigella: from biology to prevention
www.shigella2026.conferences-pasteur.org
November 21, 2025 at 1:22 AM
Don't forget to register for the #1st ever @shigellameeting.bsky.social at Pasteur next year! Apr 20 - 24 www.shigella2026.conferences-pasteur.org/home
Home - EMBO Workshop Shigella: from biology to prevention
EMBO Workshop Shigella: from biology to prevention
www.shigella2026.conferences-pasteur.org
November 20, 2025 at 3:37 PM
Don't forget to register for the #1st ever @shigellameeting.bsky.social at Pasteur next year! Apr 20 - 24 www.shigella2026.conferences-pasteur.org/home
Reposted by Kate Baker
This #WAAW Don’t forget to get your awesome AMR abstracts submitted to join us in Hinxton to discuss AMR genomics, innovations in diagnostics,
therapeutics, and data analytics, and novel mechanisms of antimicrobial survival! #AMR2026
therapeutics, and data analytics, and novel mechanisms of antimicrobial survival! #AMR2026
Present your #AMR work at our dedicated forum for global researchers and practitioners! 🧫
🗓️ 23-25 March 2026
Submit abstract by 1 December 📩
Share #genomics and big data approaches for navigating the growing complexities in the AMR field.
📎bit.ly/3SWzJUm
#MicroSky #AMR2026
🗓️ 23-25 March 2026
Submit abstract by 1 December 📩
Share #genomics and big data approaches for navigating the growing complexities in the AMR field.
📎bit.ly/3SWzJUm
#MicroSky #AMR2026
November 19, 2025 at 6:00 PM
This #WAAW Don’t forget to get your awesome AMR abstracts submitted to join us in Hinxton to discuss AMR genomics, innovations in diagnostics,
therapeutics, and data analytics, and novel mechanisms of antimicrobial survival! #AMR2026
therapeutics, and data analytics, and novel mechanisms of antimicrobial survival! #AMR2026
Present your #AMR work at our dedicated forum for global researchers and practitioners! 🧫
🗓️ 23-25 March 2026
Submit abstract by 1 December 📩
Share #genomics and big data approaches for navigating the growing complexities in the AMR field.
📎bit.ly/3SWzJUm
#MicroSky #AMR2026
🗓️ 23-25 March 2026
Submit abstract by 1 December 📩
Share #genomics and big data approaches for navigating the growing complexities in the AMR field.
📎bit.ly/3SWzJUm
#MicroSky #AMR2026
November 19, 2025 at 6:00 PM
Reposted by Kate Baker
Happy to share our new AMR resource which has phenotypic AMR (usually MIC data) collected from publications and databases. This is paired with assemblies and annotations
We're excited for users who might train new models, find phenotype/genotype mismatches, or any other use
We're excited for users who might train new models, find phenotype/genotype mismatches, or any other use
Antimicrobial resistance (AMR) is a growing health threat, making infections harder to treat and complicating routine medical care.
EMBL-EBI’s new AMR portal brings together laboratory resistance data and bacterial genomes in one open platform.
#WAAW2025 #ActOnAMR
www.ebi.ac.uk/about/news/t...
🧬💻
EMBL-EBI’s new AMR portal brings together laboratory resistance data and bacterial genomes in one open platform.
#WAAW2025 #ActOnAMR
www.ebi.ac.uk/about/news/t...
🧬💻
A new gateway to global antimicrobial resistance data
New online portal connects bacterial genomes with experimental resistance data to support antimicrobial resistance research.
www.ebi.ac.uk
November 19, 2025 at 12:27 PM
Happy to share our new AMR resource which has phenotypic AMR (usually MIC data) collected from publications and databases. This is paired with assemblies and annotations
We're excited for users who might train new models, find phenotype/genotype mismatches, or any other use
We're excited for users who might train new models, find phenotype/genotype mismatches, or any other use
Reposted by Kate Baker
🚨Job claxon 🚨
University College Cork is looking to appoint a lecturer in Medical Microbiology into a permanent, non-clinical post
A great opportunity in a microbiology powerhouse
For details go to my.corehr.com/pls/uccrecru... and enter reference number 092153
University College Cork is looking to appoint a lecturer in Medical Microbiology into a permanent, non-clinical post
A great opportunity in a microbiology powerhouse
For details go to my.corehr.com/pls/uccrecru... and enter reference number 092153
University College Cork Vacancies
my.corehr.com
November 18, 2025 at 10:55 PM
🚨Job claxon 🚨
University College Cork is looking to appoint a lecturer in Medical Microbiology into a permanent, non-clinical post
A great opportunity in a microbiology powerhouse
For details go to my.corehr.com/pls/uccrecru... and enter reference number 092153
University College Cork is looking to appoint a lecturer in Medical Microbiology into a permanent, non-clinical post
A great opportunity in a microbiology powerhouse
For details go to my.corehr.com/pls/uccrecru... and enter reference number 092153
Reposted by Kate Baker
London interdisciplinary #PhD position now open with myself, @sergemostowylab.bsky.social, & @gmknght.bsky.social on #phage -bacteria-host immune dynamics for WHO priority bacterial pathogens #Klebsiella, #Shigella, and #Staph. Combines cellular microbiology, genomics, & mathematical modelling.
2026-27 Project (Dyson & Mostowy & Knight) - MRC London Intercollegiate Doctoral Training Partnership Studentships
PHACTS: Unravelling PHAge-baCTeria-host immune dynamicS to inform phage therapy SUPERVISORY TEAM Supervisor Dr Zoe Dyson...
mrc-lid.lshtm.ac.uk
November 13, 2025 at 11:11 AM
London interdisciplinary #PhD position now open with myself, @sergemostowylab.bsky.social, & @gmknght.bsky.social on #phage -bacteria-host immune dynamics for WHO priority bacterial pathogens #Klebsiella, #Shigella, and #Staph. Combines cellular microbiology, genomics, & mathematical modelling.
Reposted by Kate Baker
Know metagenomics and could spare 2 mins? I'm applying for funding to build a visual repository for metagenomic classification data (not sequence data). To support the application, I have a short 2 minute survey and it would be a big help if you could fill it in: docs.google.com/forms/d/e/1F...
November 12, 2025 at 12:01 PM
Know metagenomics and could spare 2 mins? I'm applying for funding to build a visual repository for metagenomic classification data (not sequence data). To support the application, I have a short 2 minute survey and it would be a big help if you could fill it in: docs.google.com/forms/d/e/1F...
Reposted by Kate Baker
If you’re at @astmh.bsky.social #ASTMH2025 check out our session today on Enteric Pathogen Genomics & Evolution (room 717, 16:30) featuring @ksbakes.bsky.social on Shigella, plus 2 other great talks on V. cholerae phages, and Salmonella!
November 10, 2025 at 2:04 PM
If you’re at @astmh.bsky.social #ASTMH2025 check out our session today on Enteric Pathogen Genomics & Evolution (room 717, 16:30) featuring @ksbakes.bsky.social on Shigella, plus 2 other great talks on V. cholerae phages, and Salmonella!
For anyone else whose Mac Outlook 365 has started making regular, massive faux pas through Autocorrect recently: Start typing new email > Edit > Spelling and Grammar > uncheck 'Correct Spelling Automatically'. Literally just called a new collaborator Baby because of this ... 🙄
November 10, 2025 at 12:29 PM
For anyone else whose Mac Outlook 365 has started making regular, massive faux pas through Autocorrect recently: Start typing new email > Edit > Spelling and Grammar > uncheck 'Correct Spelling Automatically'. Literally just called a new collaborator Baby because of this ... 🙄
Are you hungry for some Shigella news? Why not come to the 1st International Shigella meeting www.shigella2026.conferences-pasteur.org/home 20-24 April 2026 Paris
October 29, 2025 at 6:29 PM
Are you hungry for some Shigella news? Why not come to the 1st International Shigella meeting www.shigella2026.conferences-pasteur.org/home 20-24 April 2026 Paris
This 👇 👇 👇
Why attend the @shigellameeting.bsky.social in 6 months you ask? (🧵) 🦠 🧫 🔬 #Microsky #IDsky
What a question and a grand request,
To muse on why scientists should travel for a pest!
Forget lonely lab benches and the pipette's cold song,
There are better pursuits for which researchers long.
What a question and a grand request,
To muse on why scientists should travel for a pest!
Forget lonely lab benches and the pipette's cold song,
There are better pursuits for which researchers long.
October 21, 2025 at 9:53 PM
This 👇 👇 👇
Reposted by Kate Baker
Funded PhD position available in @langridgelab.bsky.social! Excellent project in a very supportive, driven & knowledgable group 🧬
🚨 Funded PhD alert 🚨
We are recruiting for a PhD student to join the @langridgelab.bsky.social in October 2026 - please share!
If you like bacteria, genomics and puzzles, this could be the project for you 🦠🧬🧩
Apply by 2 Dec 🗓️
#PhDposition
Find out more ⬇️
www.uea.ac.uk/course/phd-d...
We are recruiting for a PhD student to join the @langridgelab.bsky.social in October 2026 - please share!
If you like bacteria, genomics and puzzles, this could be the project for you 🦠🧬🧩
Apply by 2 Dec 🗓️
#PhDposition
Find out more ⬇️
www.uea.ac.uk/course/phd-d...
October 17, 2025 at 7:26 AM
Funded PhD position available in @langridgelab.bsky.social! Excellent project in a very supportive, driven & knowledgable group 🧬
Can we stop calling it a slow pandemic yet?
Between 2018–2023, antibiotic resistance increased in over 40% of the pathogen–antibiotic combinations monitored, with an average annual rise of 5–15%.
Resistance is highest in the WHO South-East Asian & Eastern Mediterranean Regions, where 1 in 3 reported infections were resistant 👉 bit.ly/438Ta1u
Resistance is highest in the WHO South-East Asian & Eastern Mediterranean Regions, where 1 in 3 reported infections were resistant 👉 bit.ly/438Ta1u
October 15, 2025 at 4:51 PM
Can we stop calling it a slow pandemic yet?
Reposted by Kate Baker
We are running a hackathon at EBI in Feb: biomics.bacpop.org
If you are at EMBL, ETH Zurich, GRC or GIMM working on a biological problem in data science or programming, consider putting a project forwards!
If you are at EMBL, ETH Zurich, GRC or GIMM working on a biological problem in data science or programming, consider putting a project forwards!
BIOMICS hackathon at EMBL-EBI
Hackathon held in Hinxton 2026
biomics.bacpop.org
October 15, 2025 at 4:29 PM
We are running a hackathon at EBI in Feb: biomics.bacpop.org
If you are at EMBL, ETH Zurich, GRC or GIMM working on a biological problem in data science or programming, consider putting a project forwards!
If you are at EMBL, ETH Zurich, GRC or GIMM working on a biological problem in data science or programming, consider putting a project forwards!
Reposted by Kate Baker
Sign up for tomorrow's hybrid Bradford Hill Seminar with Professor Danny Dorling of @ox.ac.uk. He'll be discussing the politics of epidemiology & public health in the UK
📅 Wed 15 October, 1 PM (UK)
Register - buff.ly/wblZfOx
@dphpc.bsky.social @mrc-bsu.bsky.social @phgfoundation.bsky.social
📅 Wed 15 October, 1 PM (UK)
Register - buff.ly/wblZfOx
@dphpc.bsky.social @mrc-bsu.bsky.social @phgfoundation.bsky.social
October 14, 2025 at 9:30 AM
Sign up for tomorrow's hybrid Bradford Hill Seminar with Professor Danny Dorling of @ox.ac.uk. He'll be discussing the politics of epidemiology & public health in the UK
📅 Wed 15 October, 1 PM (UK)
Register - buff.ly/wblZfOx
@dphpc.bsky.social @mrc-bsu.bsky.social @phgfoundation.bsky.social
📅 Wed 15 October, 1 PM (UK)
Register - buff.ly/wblZfOx
@dphpc.bsky.social @mrc-bsu.bsky.social @phgfoundation.bsky.social
Abstracts you're thinking about for this conference might also be suitable for our Nature AMR collection in the genomics of resistance - open until March 24 2026! www.nature.com/collections/...
October 15, 2025 at 7:58 AM
Abstracts you're thinking about for this conference might also be suitable for our Nature AMR collection in the genomics of resistance - open until March 24 2026! www.nature.com/collections/...
Reposted by Kate Baker
Enhanced virulence and stress tolerance are signatures of epidemiologically successful Shigella sonnei
@sydneylmiles.bsky.social @katholt.bsky.social
🙏to transformative collaborative effort
www.nature.com/articles/s41...
@sydneylmiles.bsky.social @katholt.bsky.social
🙏to transformative collaborative effort
www.nature.com/articles/s41...
October 13, 2025 at 9:48 PM
Enhanced virulence and stress tolerance are signatures of epidemiologically successful Shigella sonnei
@sydneylmiles.bsky.social @katholt.bsky.social
🙏to transformative collaborative effort
www.nature.com/articles/s41...
@sydneylmiles.bsky.social @katholt.bsky.social
🙏to transformative collaborative effort
www.nature.com/articles/s41...
Reposted by Kate Baker
Present your #AMR work at our dedicated forum for global researchers and practitioners! 🧫
🗓️ 23-25 March 2026
Submit abstract by 1 December 📩
Share #genomics and big data approaches for navigating the growing complexities in the AMR field.
📎bit.ly/3SWzJUm
#MicroSky #AMR2026
🗓️ 23-25 March 2026
Submit abstract by 1 December 📩
Share #genomics and big data approaches for navigating the growing complexities in the AMR field.
📎bit.ly/3SWzJUm
#MicroSky #AMR2026
October 14, 2025 at 7:00 AM
Present your #AMR work at our dedicated forum for global researchers and practitioners! 🧫
🗓️ 23-25 March 2026
Submit abstract by 1 December 📩
Share #genomics and big data approaches for navigating the growing complexities in the AMR field.
📎bit.ly/3SWzJUm
#MicroSky #AMR2026
🗓️ 23-25 March 2026
Submit abstract by 1 December 📩
Share #genomics and big data approaches for navigating the growing complexities in the AMR field.
📎bit.ly/3SWzJUm
#MicroSky #AMR2026