🚨 New Event 🚨 From Code to Crisis Response: Using #rstats for Public Health Impact at the CDC w/ @kcharniga.bsky.social 📅 July 1, 2025 ⏰ 16:00-17:00 CET 🔗 www.meetup.com/rladies-amst... Join us to learn practical R applications in crisis response and beyond! #rladies #EpiSky #IDSky @rladies.org

Nous recrutons un.e postdoc à @mesurs-cnam.bsky.social (Paris) pour modéliser des épidémies sur les réseaux de soins, dans le cadre du projet européen ARCANE ! 💻🦠 Début entre 09/25-01/26, contrat de 2 ans Intéressé par l'AMR, la recherche sur la santé & la modélisation mathématique? Plus d'infos ⬇️

Delighted to see this paper from danderson123.bsky.social 's PhD out. We have been building tools for AMR gene detection for over a decade now, but multicopy genes remain challenging. Dan shows that with a gene-space de Bruijn graph and long reads, you can do well www.biorxiv.org/content/10.1...

🧬 Out today 🧬 - our TyphiNET #AMR surveillance dashboard for #typhoid Use TyphiNET to view genome-derived data on global and national annual trends in AMR and circulating pathogen genotypes via any standard web browser. genomemedicine.biomedcentral.com/articles/10....

The TyphiNET data visualisation dashboard: unlocking Salmonella Typhi genomics data to support public health - Genome Medicine

Background Salmonella enterica subspecies enterica serovar Typhi (abbreviated as ‘Typhi’) is the bacterial agent of typhoid fever. Effective antimicrobial therapy reduces complications and mortality; ...

genomemedicine.biomedcentral.com

Abruptly terminating funding to tuberculosis programs is equivalent to cutting power and water to a hospital without warning. There is no excuse for the way this was done, and many people will die as a result. Those responsible for the decision know this and are doing it anyways.

The New York Times@nytimes.com · last yr.

The gutting of USAID has crippled tuberculosis programs, leaving hundreds of thousands of patients without tests or drugs and at risk of spreading the disease.

Join us tomorrow for a seminar on antimicrobial resistance (AMR) in low-prevalence settings. Dr. Gunnar Skov Simonsen will discuss AMR dynamics in Scandinavian countries, focusing on E. coli and S. aureus. 📅 11 March 📍 LSHTM | Online 🔗 bit.ly/3Ftbl95

Studies of AMR population dynamics in a low-prevalence setting | LSHTM

Scandinavian countries generally have a low level of antibiotic consumption, high infection control standards and low prevalences of antimicrobial resistance (AMR). National surveillance systems,

bit.ly

The sheer cruelty of the Trump administration is staggering Services to millions of people collapse as USAID cuts contracts worldwide www.reuters.com/business/hea...

Services collapsing as USAID cuts health contracts worldwide

U.S.-funded health projects around the world, including those providing lifesaving care, received termination notices from Washington on Thursday as President Donald Trump's administration neared completion of a review to ensure grants are aligned with its "America First" policy.

reuters.com

One month left to apply for our long-running Applied Genomic Epi Course in Latin America (back in lovely Costa Rica this year)! coursesandconferences.wellcomeconnectingscience.org/event/genomi...

Hope As one EIS is under attack, a new EIS rises in Africa africacdc.org/african-epid...

Africa Epidemic Service – Africa CDC

Public Health Informatics, Epidemiology, Laboratory Leadership

africacdc.org

Interested in predicting AMR in bacteria? We show ignoring phylogenetic structure in genome collections leads to overly optimistic evaluations of machine learning methods for AMR prediction. With @nwheeler443.bsky.social and former PhD student Yanying Yu. 🦠🧫🧬🖥️🧪 www.biorxiv.org/content/10.1...

Biased sampling confounds machine learning prediction of antimicrobial resistance

Antimicrobial resistance (AMR) poses a growing threat to human health. Increasingly, genome sequencing is being applied for the surveillance of bacterial pathogens, producing a wealth of data to train...

biorxiv.org

Does your team deposit and access pathogen genomic data via data-sharing platforms for public health use? Participate in WHO's online consultation on the critical features of pathogen genomic data-sharing platforms to meet public health needs. All info here: www.who.int/news-room/ar...

Nutritional care for TB-affected households is likely to be highly cost-effective & could avert a substantial amount of disease and death in India – our paper out now in Lancet Global Health @raclark18.bsky.social @reinhouben.bsky.social @lshtm-tbmod.bsky.social www.sciencedirect.com/science/arti...

💊🦠OUT NOW - comprehensive analysis of the propensity of ESKAPE pathogens to evolve resistance to new and in development antibiotics by Csaba Pal, Balint Kintses, Balazs Papp and colleagues. Dive in here... www.nature.com/articles/s41...

ESKAPE pathogens rapidly develop resistance against antibiotics in development in vitro - Nature Microbiology

An extensive experimental analysis of resistance to antibiotics in development or introduced post-2017 in ESKAPE bacteria reveals the dynamics of resistance acquisition, mutational targets and the pre...

nature.com

Climate change may fuel increasing prevalence of AMR, leading to a dual threat to global health. Rising temperatures, extreme weather, & environmental shifts may create conditions that enable drug-resistant infections to spread. Read @meganecarey.bsky.social ’s insights👇 bit.ly/4h0wO7a

Climate change and the escalating threat of Antimicrobial Resistance

bit.ly

Delighted to share the first peer-reviewed paper from our team @camvetschool.bsky.social where we investigate the ecological dynamics of Enterobacteriaceae in the human gut #microbiome: www.nature.com/articles/s41... @naturemicrobiol.bsky.social

Ecological dynamics of Enterobacteriaceae in the human gut microbiome across global populations - Nature Microbiology

Assessing more than 12,000 metagenomic samples from across the world using computational approaches, the authors determined interactions between species that co-colonize or co-exclude Enterobacteriace...

nature.com

Really excited to launch the new iteration of the Bakery as part of the Pathogen Dynamics Unit, co-led with @hsalje.bsky.social and @virologyhouldcroft.bsky.social Has been awesome working together this last year and really excited for things to come! Please follow and repost.

Pathogen Dynamics Unit@pducambridge.bsky.social · 2y ago

Hello world! After a year in the making, the Pathogen Dynamics Unit is ready to launch! Check out our website (pdu.gen.cam.ac.uk) and follow the team (bsky.app/profile/did:...) to keep up with the latest from our infectious disease supergroup based at @geneticscam.bsky.social

Really excited by the creation of this new Unit with @ksbakes.bsky.social and @virologyhouldcroft.bsky.social working on the emergence, spread and control of infectious diseases at the University of Cambridge

Pathogen Dynamics Unit@pducambridge.bsky.social · 2y ago

Hello world! After a year in the making, the Pathogen Dynamics Unit is ready to launch! Check out our website (pdu.gen.cam.ac.uk) and follow the team (bsky.app/profile/did:...) to keep up with the latest from our infectious disease supergroup based at @geneticscam.bsky.social

Undernutrition is a key driver of TB accounting for 1/5 cases, but relationship is poorly understood. New sys review of this based on 42 studies (>26 million people) by Matt Saunders et al: papers.ssrn.com/sol3/papers.... @reinhouben.bsky.social @raclark18.bsky.social @lshtm-tbmod.bsky.social

Congratulations Professor Gwen Knight @gmknght.bsky.social, co-Director of @lshtmamrcentre.bsky.social and MRC Fellow, on promotion to Professor @lshtm.bsky.social - very richly deserved! Read Gwen's latest work on AMR surveillance and modelling 🧫👩‍💻🌍 doi.org/10.1371/jour... doi.org/10.1371/jour...

Mathematical models of drug-resistant tuberculosis lack bacterial heterogeneity: A systematic review

Author summary The emergence of drug-resistant tuberculosis (DR-TB), where the causative bacterium Mycobacterium tuberculosis is resistant to key antibiotics such as rifampicin and isoniazid, poses a ...

doi.org

The #AMR2024 conference report is out! www.nature.com/articles/s44... Read to re-live a great meeting or see what you missed! Thanks @charlotteechong.bsky.social and the amazing ECR team who led on this, and pls bookmark Mar 23 - 25 2026 in your calendars for #AMR2026 by @eventswcs.bsky.social

Really scary - NDM-1-producing #Klebsiella pneumoniae and other essentially untreatable XDR pathogens are infecting injured soldiers. New antibiotics can't come fast enough. www.science.org/content/arti... #AMR

War-torn Ukraine has become a breeding ground for lethal drug-resistant bacteria

Urgent action underway to prevent dangerous microbes from spreading beyond country's borders

science.org

Please join us at 13:00 CET December 12th for the next edition of the IPSN webinar series 'Pathogen Genomics in Health Emergencies' to hear how genomics can contribute to the understanding of Cholera outbreaks. Register here:

Recent review on Shigella sonnei rdcu.be/d1DGx

Shigella sonnei: epidemiology, evolution, pathogenesis, resistance and host interactions

Nature Reviews Microbiology - In this Review, Scott et al. review our current knowledge of Shigella sonnei, highlighting recent insights into this globally disseminated antimicrobial-resistant...

rdcu.be

Word of the day is ‘librocubicularist’: one who loves nothing better than reading in bed. (Not easy to say, but I’m glad to know it exists).

Every year, >200K newborns die from sepsis. Our team used machine learning to develop a set of genes that can predict neonatal sepsis risk using at birth blood samples. www.thelancet.com/journals/ebi...

Predictive gene expression signature diagnoses neonatal sepsis before clinical presentation

Despite appearing healthy at birth, neonates who later developed EOS already had distinct whole blood gene expression changes at birth, which enabled the development of a 4-gene predictive signature f...

thelancet.com

Prof Keertan Dheda at @lshtm.bsky.social and University of Cape Town shares his insights on the alarming rise of bedaquiline resistance in South Africa, a major challenge for TB treatment. This #WAAW2024, let’s raise awareness and advocate for action! Read more: bit.ly/4fYqxrX

Ready for and starting on our dinner cruise along the Seine 🇫🇷 Incl. @meganecarey.bsky.social, Laura and Shaojie

A small history lesson in #Klebsiella genomics in honour of #KLEBS24… 2009 was a big year for Klebs! - First genome published - First description of ST258 KPC-producing clone pubmed.ncbi.nlm.nih.gov/19218573/ - First description of NDM-1 beta-lactamase pubmed.ncbi.nlm.nih.gov/19770275/

Our Co-Director @gmknght.bsky.social sheds light on the importance of understanding how AMR impacts different populations. This knowledge is vital for optimising interventions. Stay tuned for updates on this #WorldAntimicrobialAwarenessWeek as we #EducateAdvocateAct to combat #AMR.

What data should be reported in an outbreak situation report? That's the question my colleagues and I set out to answer in a new(ish) preprint. We developed consensus guidelines to promote accountability, transparency, and effective response www.medrxiv.org/content/10.1...

Public reporting guidelines for outbreak data: Enabling accountability for effective outbreak response by developing standards for transparency and uniformity

Currently, there are few standards for what essential information about an infectious disease outbreak should be reported to the public and when. The content and timeliness of public reporting (e.g. s...

medrxiv.org