Modernising Medical Microbiology
@modmedmicro.bsky.social
Modernising Medical Microbiology is a research unit within @ox.ac.uk aiming to transform how we analyse and treat infections, to improve patient care.
Reposted by Modernising Medical Microbiology
Read the full paper here: tinyurl.com/2a5z6tt8
Nanopore adaptive sampling for bacterial identification from periprosthetic joint replacement tissue
Metagenomic approaches to the diagnosis of prosthetic joint infections promise more accurate and more rapid diagnosis. However, the high host DNA to bacterial DNA ratio is a challenge. Nanopore adapti...
tinyurl.com
December 18, 2025 at 3:30 PM
Read the full paper here: tinyurl.com/2a5z6tt8
Reposted by Modernising Medical Microbiology
🔬 New blog post!
Infections after joint replacement are serious, and identifying the bacteria quickly is crucial for patient care. We explain our research into metagenomic sequencing—reading all DNA in a sample to identify bacteria without needing lab growth.
👉 tinyurl.com/mrh8ukha
#AMR #Genomics
Infections after joint replacement are serious, and identifying the bacteria quickly is crucial for patient care. We explain our research into metagenomic sequencing—reading all DNA in a sample to identify bacteria without needing lab growth.
👉 tinyurl.com/mrh8ukha
#AMR #Genomics
December 18, 2025 at 3:27 PM
🔬 New blog post!
Infections after joint replacement are serious, and identifying the bacteria quickly is crucial for patient care. We explain our research into metagenomic sequencing—reading all DNA in a sample to identify bacteria without needing lab growth.
👉 tinyurl.com/mrh8ukha
#AMR #Genomics
Infections after joint replacement are serious, and identifying the bacteria quickly is crucial for patient care. We explain our research into metagenomic sequencing—reading all DNA in a sample to identify bacteria without needing lab growth.
👉 tinyurl.com/mrh8ukha
#AMR #Genomics
Our paper is out in Microbial Genomics! 🧬
We evaluate gnomonicus, an open-source AMR prediction tool, using 2,663 Mycobacterium tuberculosis genomes—showing how WGS can deliver faster, scalable TB resistance predictions.
Read the full paper here🔗 bit.ly/4iZepd1
#TB #AMR #Genomics
We evaluate gnomonicus, an open-source AMR prediction tool, using 2,663 Mycobacterium tuberculosis genomes—showing how WGS can deliver faster, scalable TB resistance predictions.
Read the full paper here🔗 bit.ly/4iZepd1
#TB #AMR #Genomics
Characterizing the performance of an antibiotic resistance prediction tool, gnomonicus, using a diverse test set of 2,663 Mycobacterium tuberculosis samples
Tuberculosis remains a global health problem. Making it easier and quicker to identify which antibiotics an infection is likely to be susceptible to will be a key part of the solution. Whilst whole-ge...
bit.ly
December 17, 2025 at 3:31 PM
Our paper is out in Microbial Genomics! 🧬
We evaluate gnomonicus, an open-source AMR prediction tool, using 2,663 Mycobacterium tuberculosis genomes—showing how WGS can deliver faster, scalable TB resistance predictions.
Read the full paper here🔗 bit.ly/4iZepd1
#TB #AMR #Genomics
We evaluate gnomonicus, an open-source AMR prediction tool, using 2,663 Mycobacterium tuberculosis genomes—showing how WGS can deliver faster, scalable TB resistance predictions.
Read the full paper here🔗 bit.ly/4iZepd1
#TB #AMR #Genomics
📢Job Alert! Translational Research Collaboration Manager in Infectious Disease and Antimicrobial resistance. 🦠💊 Know anyone who would be good? Pass it on! www.imperial.ac.uk/jobs/search-...
Description
Please note that job descriptions are not exhaustive, and you may be asked to take on additional duties that align with the key responsibilities ment...
www.imperial.ac.uk
December 9, 2025 at 10:37 AM
📢Job Alert! Translational Research Collaboration Manager in Infectious Disease and Antimicrobial resistance. 🦠💊 Know anyone who would be good? Pass it on! www.imperial.ac.uk/jobs/search-...
Reposted by Modernising Medical Microbiology
Our team wore blue for World Antimicrobial Awareness Week 2025💙
Research into how resistance emerges, spreads and can be prevented is vital. Our group works to understand these processes and develop better tools to detect, monitor and combat antimicrobial resistance.
#WAAW @oxfordbrc.bsky.social
Research into how resistance emerges, spreads and can be prevented is vital. Our group works to understand these processes and develop better tools to detect, monitor and combat antimicrobial resistance.
#WAAW @oxfordbrc.bsky.social
November 20, 2025 at 3:14 PM
Our team wore blue for World Antimicrobial Awareness Week 2025💙
Research into how resistance emerges, spreads and can be prevented is vital. Our group works to understand these processes and develop better tools to detect, monitor and combat antimicrobial resistance.
#WAAW @oxfordbrc.bsky.social
Research into how resistance emerges, spreads and can be prevented is vital. Our group works to understand these processes and develop better tools to detect, monitor and combat antimicrobial resistance.
#WAAW @oxfordbrc.bsky.social
Reposted by Modernising Medical Microbiology
This World Antimicrobial Resistance Awareness Week #WAAW, we’re championing our microbiology and infection researchers whose work is benefiting patients and informing health care policy. Read: oxfordbrc.nihr.ac.uk/research-the...
@ox.ac.uk @ouhospitals.bsky.social @modmedmicro.bsky.social
@ox.ac.uk @ouhospitals.bsky.social @modmedmicro.bsky.social
Modernising Medical Microbiology and Big Infection Diagnostics | NIHR Oxford Biomedical Research Centre
oxfordbrc.nihr.ac.uk
November 20, 2025 at 3:26 PM
This World Antimicrobial Resistance Awareness Week #WAAW, we’re championing our microbiology and infection researchers whose work is benefiting patients and informing health care policy. Read: oxfordbrc.nihr.ac.uk/research-the...
@ox.ac.uk @ouhospitals.bsky.social @modmedmicro.bsky.social
@ox.ac.uk @ouhospitals.bsky.social @modmedmicro.bsky.social
Reposted by Modernising Medical Microbiology
Why is antimicrobial awareness important?
Antimicrobial resistant infections are rising. In the next 25 years an estimated 39.1 million people globally will die from infections with antimicrobial resistance.
So what can you do to help? Something as simple as finishing your course of antibiotics!
Antimicrobial resistant infections are rising. In the next 25 years an estimated 39.1 million people globally will die from infections with antimicrobial resistance.
So what can you do to help? Something as simple as finishing your course of antibiotics!
November 19, 2025 at 12:44 PM
Why is antimicrobial awareness important?
Antimicrobial resistant infections are rising. In the next 25 years an estimated 39.1 million people globally will die from infections with antimicrobial resistance.
So what can you do to help? Something as simple as finishing your course of antibiotics!
Antimicrobial resistant infections are rising. In the next 25 years an estimated 39.1 million people globally will die from infections with antimicrobial resistance.
So what can you do to help? Something as simple as finishing your course of antibiotics!
For #WorldAntimicrobialAwarenessWeek, we introduce our recent paper on antibiotic-resistant subpopulations in TB.
TB may be one of humanity’s oldest diseases, yet it still kills over 1M people yearly. As resistance spreads, knowing each patient’s resistance profile before treatment is vital. 🧬💊
TB may be one of humanity’s oldest diseases, yet it still kills over 1M people yearly. As resistance spreads, knowing each patient’s resistance profile before treatment is vital. 🧬💊
Subpopulations in clinical samples of M. tuberculosis can give rise to rifampicin resistance and shed light on how resistance is acquired
AbstractObjectives. WGS has become a key tool for diagnosing Mycobacterium tuberculosis infections, but discrepancies between genotypic and phenotypic drug
academic.oup.com
November 18, 2025 at 6:03 PM
For #WorldAntimicrobialAwarenessWeek, we introduce our recent paper on antibiotic-resistant subpopulations in TB.
TB may be one of humanity’s oldest diseases, yet it still kills over 1M people yearly. As resistance spreads, knowing each patient’s resistance profile before treatment is vital. 🧬💊
TB may be one of humanity’s oldest diseases, yet it still kills over 1M people yearly. As resistance spreads, knowing each patient’s resistance profile before treatment is vital. 🧬💊
Reposted by Modernising Medical Microbiology
Antimicrobial resistance occurs when bacteria, viruses, fungi & parasites change over time - leading to medicines being less effective against them.
Here you see bacteria growing and antibiotics (the small discs) which kill the bacteria...unless they are resistant!
#WAAW #AMR @oxfordbrc.bsky.social
Here you see bacteria growing and antibiotics (the small discs) which kill the bacteria...unless they are resistant!
#WAAW #AMR @oxfordbrc.bsky.social
November 18, 2025 at 2:36 PM
Antimicrobial resistance occurs when bacteria, viruses, fungi & parasites change over time - leading to medicines being less effective against them.
Here you see bacteria growing and antibiotics (the small discs) which kill the bacteria...unless they are resistant!
#WAAW #AMR @oxfordbrc.bsky.social
Here you see bacteria growing and antibiotics (the small discs) which kill the bacteria...unless they are resistant!
#WAAW #AMR @oxfordbrc.bsky.social
Reposted by Modernising Medical Microbiology
Are you interested in infections, the micro-organisms that cause them and antimicrobial resistance? So are @bashthebug.net and they're looking for new members to join their patient & public group. More info: bashthebug.net/lay-represen... Deadline 27 Nov @ouhospitals.bsky.social @medsci.ox.ac.uk
Bash The Bug (@BashTheBug) / X
Bash The Bug (@BashTheBug) / X
x.com
November 11, 2025 at 4:32 PM
Are you interested in infections, the micro-organisms that cause them and antimicrobial resistance? So are @bashthebug.net and they're looking for new members to join their patient & public group. More info: bashthebug.net/lay-represen... Deadline 27 Nov @ouhospitals.bsky.social @medsci.ox.ac.uk
Reposted by Modernising Medical Microbiology
New paper by @vbrunner.bsky.social looking at detecting rifampicin resistant subpopulations in M. tuberculosis infections using genetics and putting a lower limit on the proportion that arose due to secondary infections.
bit.ly/47rwf42
@modmedmicro.bsky.social
@oxfordbrc.bsky.social
bit.ly/47rwf42
@modmedmicro.bsky.social
@oxfordbrc.bsky.social
New paper: What can subpopulations tell us about rifampicin resistance?
Last Thursday this work which we'd previously preprinted looking at looking at rifampicin-resistant subpopulations in clinical M. tuberculosis samples was published in JAC-Antimicrobial Resistance. If...
bit.ly
October 17, 2025 at 7:24 AM
New paper by @vbrunner.bsky.social looking at detecting rifampicin resistant subpopulations in M. tuberculosis infections using genetics and putting a lower limit on the proportion that arose due to secondary infections.
bit.ly/47rwf42
@modmedmicro.bsky.social
@oxfordbrc.bsky.social
bit.ly/47rwf42
@modmedmicro.bsky.social
@oxfordbrc.bsky.social
Reposted by Modernising Medical Microbiology
🔔🔔Post-doc in microbial genomics with @modmedmicro.bsky.social🧬 - deadline tomorrow! Big genomic and clinical datasets to play with, friendly and very multidisciplinary team!
my.corehr.com/pls/uoxrecru...
my.corehr.com/pls/uoxrecru...
Job Details
my.corehr.com
October 15, 2025 at 10:58 AM
🔔🔔Post-doc in microbial genomics with @modmedmicro.bsky.social🧬 - deadline tomorrow! Big genomic and clinical datasets to play with, friendly and very multidisciplinary team!
my.corehr.com/pls/uoxrecru...
my.corehr.com/pls/uoxrecru...
Reposted by Modernising Medical Microbiology
Our recent paper on rifampicin resistant subpopulations in M. tuberculosis (M. tb) has been published at JAC-antimicrobial resistance.
I am really happy to see this work published just hours before submitting my DPhil thesis! 🔗👇
doi.org/10.1093/jaca...
I am really happy to see this work published just hours before submitting my DPhil thesis! 🔗👇
doi.org/10.1093/jaca...
Subpopulations in clinical samples of M. tuberculosis can give rise to rifampicin resistance and shed light on how resistance is acquired
AbstractObjectives. WGS has become a key tool for diagnosing Mycobacterium tuberculosis infections, but discrepancies between genotypic and phenotypic drug
doi.org
October 13, 2025 at 4:40 PM
Our recent paper on rifampicin resistant subpopulations in M. tuberculosis (M. tb) has been published at JAC-antimicrobial resistance.
I am really happy to see this work published just hours before submitting my DPhil thesis! 🔗👇
doi.org/10.1093/jaca...
I am really happy to see this work published just hours before submitting my DPhil thesis! 🔗👇
doi.org/10.1093/jaca...
Reposted by Modernising Medical Microbiology
We have a fully funded PhD studentship available @modmedmicro.bsky.social in Oxford to work on a really cool project looking at population heterogeneity in bloodstream infections www.ndm.ox.ac.uk/study/dphil-... Please spread the word/get in touch if you'd like to chat.
DPhil project themes
www.ndm.ox.ac.uk
October 8, 2025 at 7:11 PM
We have a fully funded PhD studentship available @modmedmicro.bsky.social in Oxford to work on a really cool project looking at population heterogeneity in bloodstream infections www.ndm.ox.ac.uk/study/dphil-... Please spread the word/get in touch if you'd like to chat.
Reposted by Modernising Medical Microbiology
Now published in @natcomms.nature.com 🎉
www.nature.com/articles/s41...
With Gillian Rodger, @nstoesser.bsky.social, @samlipworth.bsky.social, @stat-sarah.bsky.social, and many others!
www.nature.com/articles/s41...
With Gillian Rodger, @nstoesser.bsky.social, @samlipworth.bsky.social, @stat-sarah.bsky.social, and many others!
September 30, 2025 at 4:21 PM
Now published in @natcomms.nature.com 🎉
www.nature.com/articles/s41...
With Gillian Rodger, @nstoesser.bsky.social, @samlipworth.bsky.social, @stat-sarah.bsky.social, and many others!
www.nature.com/articles/s41...
With Gillian Rodger, @nstoesser.bsky.social, @samlipworth.bsky.social, @stat-sarah.bsky.social, and many others!
Reposted by Modernising Medical Microbiology
🧪 ♻️ Want to make lab and computational research more sustainable? Check out our Oxford Climate Society blog post:
oxfordclimatesociety.com/blog/from-pi...
Shout out to Green Team colleagues @modmedmicro.bsky.social for helping! #LEAFAward #GreenDiSC #GreenImpact #SustainableScience
oxfordclimatesociety.com/blog/from-pi...
Shout out to Green Team colleagues @modmedmicro.bsky.social for helping! #LEAFAward #GreenDiSC #GreenImpact #SustainableScience
September 30, 2025 at 5:00 PM
🧪 ♻️ Want to make lab and computational research more sustainable? Check out our Oxford Climate Society blog post:
oxfordclimatesociety.com/blog/from-pi...
Shout out to Green Team colleagues @modmedmicro.bsky.social for helping! #LEAFAward #GreenDiSC #GreenImpact #SustainableScience
oxfordclimatesociety.com/blog/from-pi...
Shout out to Green Team colleagues @modmedmicro.bsky.social for helping! #LEAFAward #GreenDiSC #GreenImpact #SustainableScience
From Pipettes to Pipelines: Greening a Multidisciplinary Research Lab.
@dotnagy.bsky.social writes about the experiences from the Modernising Medical Microbiology (MMM) research group on engaging wet lab, computer lab, and office teams on the #sustainability agenda.
#GreenLab #SustainableScience
@dotnagy.bsky.social writes about the experiences from the Modernising Medical Microbiology (MMM) research group on engaging wet lab, computer lab, and office teams on the #sustainability agenda.
#GreenLab #SustainableScience
From Pipettes to Pipelines — Oxford Climate Society
Dorottya Nagy writes about the experiences from the Modernising Medical Microbiology (MMM) Unit research group on engaging wet lab, computer lab, and office teams on the sustainability agenda.
oxfordclimatesociety.com
September 30, 2025 at 4:46 PM
From Pipettes to Pipelines: Greening a Multidisciplinary Research Lab.
@dotnagy.bsky.social writes about the experiences from the Modernising Medical Microbiology (MMM) research group on engaging wet lab, computer lab, and office teams on the #sustainability agenda.
#GreenLab #SustainableScience
@dotnagy.bsky.social writes about the experiences from the Modernising Medical Microbiology (MMM) research group on engaging wet lab, computer lab, and office teams on the #sustainability agenda.
#GreenLab #SustainableScience
Reposted by Modernising Medical Microbiology
Great new work from #DotNagy @modmedmicro.bsky.social - she tool 96 clinical isolates from the NEKSUS study and sequenced with both Illumina and Nanopore - question was, can we do away with hybrid sequencing for the rest of the study?
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
Nanopore long-read only genome assembly of clinical Enterobacterales isolates is complete and accurate
Whole bacterial genome sequence reconstruction using Oxford Nanopore Technologies ('Nanopore') long-read only sequencing may offer a lower-cost, higher-throughput alternative for pathogen surveillance...
www.biorxiv.org
September 18, 2025 at 11:38 AM
Great new work from #DotNagy @modmedmicro.bsky.social - she tool 96 clinical isolates from the NEKSUS study and sequenced with both Illumina and Nanopore - question was, can we do away with hybrid sequencing for the rest of the study?
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
Reposted by Modernising Medical Microbiology
Pleased to see this pre-printed, highlighting the completeness/accuracy of @nanoporetech.com long-read genome assembly for clinical Enterobacterales: www.biorxiv.org/content/10.1...
Thanks to colleagues @modmedmicro.bsky.social, @ukhsa.bsky.social, @genewiz.bsky.social and @oxfordbrc.bsky.social!
Thanks to colleagues @modmedmicro.bsky.social, @ukhsa.bsky.social, @genewiz.bsky.social and @oxfordbrc.bsky.social!
September 25, 2025 at 8:48 AM
Pleased to see this pre-printed, highlighting the completeness/accuracy of @nanoporetech.com long-read genome assembly for clinical Enterobacterales: www.biorxiv.org/content/10.1...
Thanks to colleagues @modmedmicro.bsky.social, @ukhsa.bsky.social, @genewiz.bsky.social and @oxfordbrc.bsky.social!
Thanks to colleagues @modmedmicro.bsky.social, @ukhsa.bsky.social, @genewiz.bsky.social and @oxfordbrc.bsky.social!
Reposted by Modernising Medical Microbiology
Come and work with Nicole Stoesser and I in Oxford with the fantastic team @modmedmicro.bsky.social - great opportunity for a postdoc in microbial genomics to do some creative research with great datasets as part of our HPRU.
my.corehr.com/pls/uoxrecru...
my.corehr.com/pls/uoxrecru...
Job Details
my.corehr.com
September 23, 2025 at 9:47 AM
Come and work with Nicole Stoesser and I in Oxford with the fantastic team @modmedmicro.bsky.social - great opportunity for a postdoc in microbial genomics to do some creative research with great datasets as part of our HPRU.
my.corehr.com/pls/uoxrecru...
my.corehr.com/pls/uoxrecru...
Reposted by Modernising Medical Microbiology
Great new opportunity to work with #Liamshaw and @mutantbug.bsky.social as part of our HPRU collaboration (www.expmedndm.ox.ac.uk/research/hpr...) - sinks, phages, wastewater genomes, novel threat detection bit.ly/45Wcv6I - deadline 14th Sept 👀
Details | Working at Bristol | University of Bristol
bit.ly
September 1, 2025 at 7:23 PM
Great new opportunity to work with #Liamshaw and @mutantbug.bsky.social as part of our HPRU collaboration (www.expmedndm.ox.ac.uk/research/hpr...) - sinks, phages, wastewater genomes, novel threat detection bit.ly/45Wcv6I - deadline 14th Sept 👀
'Linking life expectancy to the bacteria in our gut: A final year undergraduate project'.
Akika investigated how the gut microbiome influences longevity, with fieldwork in Nagano, Japan—home to the country’s longest-living population.
Read the blog post here ➡️
bashthebug.net/2025/08/22/l...
Akika investigated how the gut microbiome influences longevity, with fieldwork in Nagano, Japan—home to the country’s longest-living population.
Read the blog post here ➡️
bashthebug.net/2025/08/22/l...
Linking life expectancy to the bacteria in our gut: A final year undergraduate project
My name is Akika Altman-Chandler, and I just graduated from the University of Oxford with a degree in Human Sciences. For my undergraduate dissertation, I worked with Teresa Street at the Modernisi…
bashthebug.net
August 22, 2025 at 2:20 PM
'Linking life expectancy to the bacteria in our gut: A final year undergraduate project'.
Akika investigated how the gut microbiome influences longevity, with fieldwork in Nagano, Japan—home to the country’s longest-living population.
Read the blog post here ➡️
bashthebug.net/2025/08/22/l...
Akika investigated how the gut microbiome influences longevity, with fieldwork in Nagano, Japan—home to the country’s longest-living population.
Read the blog post here ➡️
bashthebug.net/2025/08/22/l...
Reposted by Modernising Medical Microbiology
More evidence to support best practice "water-safe" care in healthcare facilities is urgently needed. If you're interested please tap into the @hisinfection.bsky.social Wastewater and AMR Special Interest Collaborative (SPARC) - see you there!
Wastewater and AMR Special Interest Collaborative (SPARC)
www.his.org.uk
July 26, 2025 at 9:47 AM
More evidence to support best practice "water-safe" care in healthcare facilities is urgently needed. If you're interested please tap into the @hisinfection.bsky.social Wastewater and AMR Special Interest Collaborative (SPARC) - see you there!
Reposted by Modernising Medical Microbiology
More discussion about the JHI study with @emrsa15.bsky.social in the Infection Control Matters podcast series infectioncontrolmatters.com/2025/04/02/t...
The Sinkbug Survey: Antibiotics, AMR, Chemicals and Plumbing
In this episode of Infection Control Matters, Martin Kiernan speaks with Dr. Nicole Stoesser about a large-scale, multi-centre study exploring the role of hospital sink infrastructure in antimicrob…
infectioncontrolmatters.com
July 26, 2025 at 9:47 AM
More discussion about the JHI study with @emrsa15.bsky.social in the Infection Control Matters podcast series infectioncontrolmatters.com/2025/04/02/t...
Reposted by Modernising Medical Microbiology
This builds on the SinkBug group's earlier work in @thejhi.bsky.social www.journalofhospitalinfection.com/article/S019... where we showed that sink infrastructure in hospitals was common, highly varied, and that antibiotics were detected in a third of sink-traps.
Survey of healthcare-associated sink infrastructure, and sink trap antibiotic residues and biochemistry, in twenty-nine UK hospitals
Hospital sinks are linked to healthcare-associated infections. Antibiotics and chemicals
in sink traps can select for pathogens and antimicrobial resistance (AMR). Optimizing
sink design and usage can...
www.journalofhospitalinfection.com
July 26, 2025 at 9:47 AM
This builds on the SinkBug group's earlier work in @thejhi.bsky.social www.journalofhospitalinfection.com/article/S019... where we showed that sink infrastructure in hospitals was common, highly varied, and that antibiotics were detected in a third of sink-traps.