Jamie Hall
@jpjhall.bsky.social
microbiology // evolution // mobile genetic elements
🏫 University of Liverpool, UK
🦠 www.andthemicrobes.org
💻 www.jpjhall.net
🏫 University of Liverpool, UK
🦠 www.andthemicrobes.org
💻 www.jpjhall.net
Reposted by Jamie Hall
Conferences like #microevo25 are possible because of the community publishing with @microbiologysociety.org
November 26, 2025 at 9:51 AM
Conferences like #microevo25 are possible because of the community publishing with @microbiologysociety.org
Reposted by Jamie Hall
Hot off the press! Our latest paper led by @fernpizza.bsky.social, understanding how plasmids evolve inside cells. These small, self-replicating DNA circles live inside bacteria and carry antibiotic resistance genes, but also compete with one another to replicate. 1/
www.science.org/doi/10.1126/...
www.science.org/doi/10.1126/...
Intracellular competition shapes plasmid population dynamics
From populations of multicellular organisms to selfish genetic elements, conflicts between levels of biological organization are central to evolution. Plasmids are extrachromosomal, self-replicating g...
www.science.org
November 20, 2025 at 9:42 PM
Hot off the press! Our latest paper led by @fernpizza.bsky.social, understanding how plasmids evolve inside cells. These small, self-replicating DNA circles live inside bacteria and carry antibiotic resistance genes, but also compete with one another to replicate. 1/
www.science.org/doi/10.1126/...
www.science.org/doi/10.1126/...
🚨#PhD studentship opportunity! Plasmids provide bacteria with antimicrobial resistance, but do they have more fundamental effects on behaviour? 🧫🦠💫🧟♂️
Apply for a 4y funded MRC DiMeN position with me and Jamie Wheeler @livuni-ives.bsky.social www.findaphd.com/phds/project...
Apply for a 4y funded MRC DiMeN position with me and Jamie Wheeler @livuni-ives.bsky.social www.findaphd.com/phds/project...
MRC DiMeN Doctoral Training Partnership: Resistant zombies: how drug-resistance plasmids manipulate the behaviour of the opportunistic pathogen Pseudomonas aeruginosa at University of Liverpool on Fin...
PhD Project - MRC DiMeN Doctoral Training Partnership: Resistant zombies: how drug-resistance plasmids manipulate the behaviour of the opportunistic pathogen Pseudomonas aeruginosa at University of Li...
www.findaphd.com
November 18, 2025 at 9:38 AM
🚨#PhD studentship opportunity! Plasmids provide bacteria with antimicrobial resistance, but do they have more fundamental effects on behaviour? 🧫🦠💫🧟♂️
Apply for a 4y funded MRC DiMeN position with me and Jamie Wheeler @livuni-ives.bsky.social www.findaphd.com/phds/project...
Apply for a 4y funded MRC DiMeN position with me and Jamie Wheeler @livuni-ives.bsky.social www.findaphd.com/phds/project...
Reposted by Jamie Hall
Here’s published version of our manuscript using GWAS to investigate tailocin sensitivity in Pseudomonas syringae. TL:DR pretty clear LPS is tailocin receptor but also that P.syringae often completely swaps out its entire O antigen biosynth pathway w/ recombination
academic.oup.com/g3journal/ad...
academic.oup.com/g3journal/ad...
Genomic correlates of tailocin sensitivity in Pseudomonas syringae
Abstract. Phage-derived bacteriocins, also referred to as tailocins, are structures encoded by bacterial genomes and deployed into the extracellular enviro
academic.oup.com
October 6, 2025 at 6:57 PM
Here’s published version of our manuscript using GWAS to investigate tailocin sensitivity in Pseudomonas syringae. TL:DR pretty clear LPS is tailocin receptor but also that P.syringae often completely swaps out its entire O antigen biosynth pathway w/ recombination
academic.oup.com/g3journal/ad...
academic.oup.com/g3journal/ad...
Reposted by Jamie Hall
New preprint with my HFSP collaborators. Network structures for bacterial and plasmid interactions determine community structure and evolvability: doi.org/10.32942/X21...
The interplay between ecological networks drives host-plasmid community dynamics
doi.org
September 3, 2025 at 11:11 AM
New preprint with my HFSP collaborators. Network structures for bacterial and plasmid interactions determine community structure and evolvability: doi.org/10.32942/X21...
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...
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...
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...
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
doi.org
July 31, 2025 at 3:22 PM
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...
🚨 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 🦠🧫🔬
‼️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...
June 20, 2025 at 2:35 PM
🚨 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 🦠🧫🔬
Reposted by Jamie Hall
New preprint ex @bolinabug.bsky.social (+ @daisukekageyama.bsky.social & @scottishwormboy.bsky.social) on the pronounced secondary expansion of Spiroplasma and Rickettsia genomes in lacewings doi.org/10.1101/2025... #symbiosky 1/2
Concerted genome expansion of heritable symbionts in an insect host
Maternally transmitted symbionts represent important components of arthropod biology, acting as both beneficial partners and as reproductive parasites. Their strict vertical transmission greatly reduc...
doi.org
May 12, 2025 at 8:14 AM
New preprint ex @bolinabug.bsky.social (+ @daisukekageyama.bsky.social & @scottishwormboy.bsky.social) on the pronounced secondary expansion of Spiroplasma and Rickettsia genomes in lacewings doi.org/10.1101/2025... #symbiosky 1/2
Reposted by Jamie Hall
Happy to finally have this out! It has been a fun side-project that we’ve been slowly working on for a while 🍜
I think it has turned out as a nice story, and demonstrates some important issues with historic taxonomic classifications in genome databases. All from investigating a contaminant! ⤵️
I think it has turned out as a nice story, and demonstrates some important issues with historic taxonomic classifications in genome databases. All from investigating a contaminant! ⤵️
🚨 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 🧵
The story of Noodlococcus - the contaminant that started ContamClub - is available to read 📖🍜🦠
Check it out ➡️ doi.org/10.1101/2025...
1/15 🧵
June 6, 2025 at 10:00 AM
Happy to finally have this out! It has been a fun side-project that we’ve been slowly working on for a while 🍜
I think it has turned out as a nice story, and demonstrates some important issues with historic taxonomic classifications in genome databases. All from investigating a contaminant! ⤵️
I think it has turned out as a nice story, and demonstrates some important issues with historic taxonomic classifications in genome databases. All from investigating a contaminant! ⤵️
Reposted by Jamie Hall
🚨 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 🧵
The story of Noodlococcus - the contaminant that started ContamClub - is available to read 📖🍜🦠
Check it out ➡️ doi.org/10.1101/2025...
1/15 🧵
June 2, 2025 at 8:00 AM
🚨 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 🧵
The story of Noodlococcus - the contaminant that started ContamClub - is available to read 📖🍜🦠
Check it out ➡️ doi.org/10.1101/2025...
1/15 🧵
Congratulations to Vicki for successfully defending her thesis yesterday!
PhD viva passed!!! 🥳 🍻 Thank you to Liam Shaw and Stephen Cornell for assessing and for a very enjoyable discussion! Thank you to @jpjhall.bsky.social, Ellie Harrison and Calvin Dytham for being an amazing supervisory team throughout my PhD 😁
May 21, 2025 at 6:31 PM
Congratulations to Vicki for successfully defending her thesis yesterday!
Reposted by Jamie Hall
PhD viva passed!!! 🥳 🍻 Thank you to Liam Shaw and Stephen Cornell for assessing and for a very enjoyable discussion! Thank you to @jpjhall.bsky.social, Ellie Harrison and Calvin Dytham for being an amazing supervisory team throughout my PhD 😁
May 21, 2025 at 4:57 PM
PhD viva passed!!! 🥳 🍻 Thank you to Liam Shaw and Stephen Cornell for assessing and for a very enjoyable discussion! Thank you to @jpjhall.bsky.social, Ellie Harrison and Calvin Dytham for being an amazing supervisory team throughout my PhD 😁
Reposted by Jamie Hall
🧪
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/...
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/...
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 ...
www.science.org
May 8, 2025 at 8:27 PM
🧪
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/...
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 Jamie Hall
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
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
May 14, 2025 at 9:21 AM
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
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
‼️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...
May 2, 2025 at 3:37 PM
‼️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...
Reposted by Jamie Hall
Do restriction-modification systems shape plasmid sequence composition? A group of plasmid-aficionados, led by Liam Shaw, started to explore this during the 2023 @embo.org Workshop on Plasmids in Trieste. Happy to have contributed to this work and be part of such a great team!
The leading region of many conjugative plasmids is depleted in restriction-modification targets https://www.biorxiv.org/content/10.1101/2025.04.03.647016v1
April 4, 2025 at 1:57 PM
Do restriction-modification systems shape plasmid sequence composition? A group of plasmid-aficionados, led by Liam Shaw, started to explore this during the 2023 @embo.org Workshop on Plasmids in Trieste. Happy to have contributed to this work and be part of such a great team!
Reposted by Jamie Hall
Every time I have a conversation about AI in a journal publishing context and I mention indirect prompt injection, I'm met with blank expressions. People really need to read up on this.
cetas.turing.ac.uk/publications...
cetas.turing.ac.uk/publications...
Indirect Prompt Injection: Generative AI’s Greatest Security Flaw
cetas.turing.ac.uk
April 4, 2025 at 12:31 PM
Every time I have a conversation about AI in a journal publishing context and I mention indirect prompt injection, I'm met with blank expressions. People really need to read up on this.
cetas.turing.ac.uk/publications...
cetas.turing.ac.uk/publications...
Reposted by Jamie Hall
Prize Medal 2025 winner, Professor Richard Lenski, presents their lecture on "Dynamics and Repeatability in a Long-Term Experiment with Bacteria" at #Microbio25. It begins at 18:30 BST. Read more about their work: microb.io/PrizeWinner2...
Meet the Prize Medal 2025 Winner, Professor Richard Lenski
25 March 2025
microb.io
March 31, 2025 at 5:30 PM
Prize Medal 2025 winner, Professor Richard Lenski, presents their lecture on "Dynamics and Repeatability in a Long-Term Experiment with Bacteria" at #Microbio25. It begins at 18:30 BST. Read more about their work: microb.io/PrizeWinner2...
Reposted by Jamie Hall
Preprint below has been a long time coming, here just in time for #microbio25 ! (if the train wifi lets me)
With @andrewmatthews.bsky.social
#MicroSky
🧵
With @andrewmatthews.bsky.social
#MicroSky
🧵
Stealth plasmids: rapid evolution of deleted plasmids can displace antibiotic resistance plasmids under selection for horizontal transmission. https://www.biorxiv.org/content/10.1101/2025.03.30.646151v1
March 31, 2025 at 1:10 PM
Preprint below has been a long time coming, here just in time for #microbio25 ! (if the train wifi lets me)
With @andrewmatthews.bsky.social
#MicroSky
🧵
With @andrewmatthews.bsky.social
#MicroSky
🧵
Reposted by Jamie Hall
Thanks again for making Annual Conference 2025 such a success! Want to join us in 2026? Submit an article to our journals by June 30th for a chance to win your registration, whilst supporting us as a not-for-profit. Find out more here: microb.io/3o6DvhI
April 4, 2025 at 9:00 AM
Thanks again for making Annual Conference 2025 such a success! Want to join us in 2026? Submit an article to our journals by June 30th for a chance to win your registration, whilst supporting us as a not-for-profit. Find out more here: microb.io/3o6DvhI
Congratulations to lab member @vickiorr.bsky.social for her #Microbio25 prize-winning poster on the evolutionary ecology of transposon-plasmid interactions! ✨💫🎉
Congratulations to the Poster Prize Winners at #Microbio25 Poster Block B:
- JMM poster prize winner: Jessica Lester
- JMM poster prize winner: Sami-Jo Terry
- JGV poster prize winner: Kelly Roper
- Mic prize: Victoria Orr, University of Liverpool @vickiorr.bsky.social
- JMM poster prize winner: Jessica Lester
- JMM poster prize winner: Sami-Jo Terry
- JGV poster prize winner: Kelly Roper
- Mic prize: Victoria Orr, University of Liverpool @vickiorr.bsky.social
April 5, 2025 at 7:33 AM
Congratulations to lab member @vickiorr.bsky.social for her #Microbio25 prize-winning poster on the evolutionary ecology of transposon-plasmid interactions! ✨💫🎉
Reposted by Jamie Hall
To all enjoying #MicroBio25 remember: all @microbiologysociety.org events rely on our journals - every paper pays 4x travel grants!
Make 2025 when you submit a paper to a MicroSoc journal www.microbiologyresearch.org
$0 OA for Publish+Read institutions www.microbiologyresearch.org/publish-and-...
Make 2025 when you submit a paper to a MicroSoc journal www.microbiologyresearch.org
$0 OA for Publish+Read institutions www.microbiologyresearch.org/publish-and-...
Microbiology Society
Microbiology Society journals contain high-quality research papers and topical review articles. We are a not-for-profit publisher and we support and invest in the microbiology community, to the benefi...
www.microbiologyresearch.org
April 2, 2025 at 7:30 AM
To all enjoying #MicroBio25 remember: all @microbiologysociety.org events rely on our journals - every paper pays 4x travel grants!
Make 2025 when you submit a paper to a MicroSoc journal www.microbiologyresearch.org
$0 OA for Publish+Read institutions www.microbiologyresearch.org/publish-and-...
Make 2025 when you submit a paper to a MicroSoc journal www.microbiologyresearch.org
$0 OA for Publish+Read institutions www.microbiologyresearch.org/publish-and-...
Reposted by Jamie Hall
Presenting a poster at #Microbio25 today/tomorrow. Come for a chat about defence hotspots in Pseudomonas phage!
March 31, 2025 at 5:36 PM
Presenting a poster at #Microbio25 today/tomorrow. Come for a chat about defence hotspots in Pseudomonas phage!
Reposted by Jamie Hall
Electrochemical Disinfection Promotes Community-Wide Permissiveness toward the Conjugative Antibiotic Resistance Plasmid pKJK5
by Li, @metlabau.bsky.social, et al. in ES&T Engineering (@pubs.acs.org)
pubs.acs.org/doi/10.1021/...
#AMR #microsky
by Li, @metlabau.bsky.social, et al. in ES&T Engineering (@pubs.acs.org)
pubs.acs.org/doi/10.1021/...
#AMR #microsky
pubs.acs.org
March 18, 2025 at 8:34 AM
Electrochemical Disinfection Promotes Community-Wide Permissiveness toward the Conjugative Antibiotic Resistance Plasmid pKJK5
by Li, @metlabau.bsky.social, et al. in ES&T Engineering (@pubs.acs.org)
pubs.acs.org/doi/10.1021/...
#AMR #microsky
by Li, @metlabau.bsky.social, et al. in ES&T Engineering (@pubs.acs.org)
pubs.acs.org/doi/10.1021/...
#AMR #microsky
Reposted by Jamie Hall
This is good news, and relevant to a comic about wastewater management that @rikworth.bsky.social @jpjordan.bsky.social and I made with @bangoruniversity.bsky.social @elliejameson.bsky.social last year.
You can read the whole thing on the One Health project website: www.bangor.ac.uk/one-health
You can read the whole thing on the One Health project website: www.bangor.ac.uk/one-health
March 11, 2025 at 4:13 PM
This is good news, and relevant to a comic about wastewater management that @rikworth.bsky.social @jpjordan.bsky.social and I made with @bangoruniversity.bsky.social @elliejameson.bsky.social last year.
You can read the whole thing on the One Health project website: www.bangor.ac.uk/one-health
You can read the whole thing on the One Health project website: www.bangor.ac.uk/one-health