Javier DelaFuente
@javierdelafuente.bsky.social
Microbiology and evolution of antibiotic resistance.
Reposted by Javier DelaFuente
New paper out! 🔈🔈📣📣
Plasmids promote antimicrobial resistance through Insertion Sequence-mediated gene inactivation.
Combining experimental and computational approaches, we unveil how two of the most prevalent bacterial MGE accelerate the evolution of AMR. 🧵👇🏻
www.biorxiv.org/content/10.1...
Plasmids promote antimicrobial resistance through Insertion Sequence-mediated gene inactivation.
Combining experimental and computational approaches, we unveil how two of the most prevalent bacterial MGE accelerate the evolution of AMR. 🧵👇🏻
www.biorxiv.org/content/10.1...
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...
www.biorxiv.org
August 13, 2025 at 6:26 AM
New paper out! 🔈🔈📣📣
Plasmids promote antimicrobial resistance through Insertion Sequence-mediated gene inactivation.
Combining experimental and computational approaches, we unveil how two of the most prevalent bacterial MGE accelerate the evolution of AMR. 🧵👇🏻
www.biorxiv.org/content/10.1...
Plasmids promote antimicrobial resistance through Insertion Sequence-mediated gene inactivation.
Combining experimental and computational approaches, we unveil how two of the most prevalent bacterial MGE accelerate the evolution of AMR. 🧵👇🏻
www.biorxiv.org/content/10.1...
If you're into plasmid biology, you can't miss this back-to-back by two inspiring teams!
🚨🚨New paper out in @natcomms.nature.com!!
Come for the first large-scale analysis of plasmid copy number across species,
stay for one of the most intriguing results of my lab: universal scaling laws in plasmid biology! 📈🧬
👉 www.nature.com/articles/s41...
Come for the first large-scale analysis of plasmid copy number across species,
stay for one of the most intriguing results of my lab: universal scaling laws in plasmid biology! 📈🧬
👉 www.nature.com/articles/s41...
Universal rules govern plasmid copy number - Nature Communications
Plasmids exhibit a broad range of sizes and copies per cell, and these two parameters appear to be negatively correlated. Here, Ramiro-Martínez et al. analyse the copy number of thousands of diverse b...
www.nature.com
July 2, 2025 at 3:51 PM
If you're into plasmid biology, you can't miss this back-to-back by two inspiring teams!
Reposted by Javier DelaFuente
🦠 Nuestro #articulodelmes habla sobre cómo los integrones móviles codifican sistemas de defensa contra fagos de la mano del grupo investigador liderado por el Dr. José Antonio Escudero
📄https://f.mtr.cool/qxwueostwp
📄https://f.mtr.cool/qxwueostwp
June 6, 2025 at 7:54 AM
🦠 Nuestro #articulodelmes habla sobre cómo los integrones móviles codifican sistemas de defensa contra fagos de la mano del grupo investigador liderado por el Dr. José Antonio Escudero
📄https://f.mtr.cool/qxwueostwp
📄https://f.mtr.cool/qxwueostwp
Reposted by Javier DelaFuente
Ceftazidime-avibactam (a last resort drug) use selects multidrug-resistance and prevents designing collateral sensitivity based therapies against P. aeruginosa (no robust patterns emerge). Happy to see it published! 🥳 @cnb-csic.bsky.social @idisba.bsky.social
www.nature.com/articles/s41...
www.nature.com/articles/s41...
Ceftazidime-avibactam use selects multidrug-resistance and prevents designing collateral sensitivity-based therapies against Pseudomonas aeruginosa - Nature Communications
Ceftazidime-avibactam is a β-lactam/β-lactamase inhibitor combination restricted for the treatment of multidrug-resistant infections of Pseudomonas aeruginosa non-susceptible to ceftazidime and resist...
www.nature.com
April 9, 2025 at 9:47 AM
Ceftazidime-avibactam (a last resort drug) use selects multidrug-resistance and prevents designing collateral sensitivity based therapies against P. aeruginosa (no robust patterns emerge). Happy to see it published! 🥳 @cnb-csic.bsky.social @idisba.bsky.social
www.nature.com/articles/s41...
www.nature.com/articles/s41...
Reposted by Javier DelaFuente
New paper: long-term trends in antibiotic resistance show signs of stabilisation (thread). journals.plos.org/plospathogen...
The evolution of antibiotic resistance in Europe, 1998–2019
Author summary Antibiotic resistance is an important public health threat: resistant infections are currently associated with 5 million deaths per year globally. This burden may increase further in th...
journals.plos.org
April 7, 2025 at 8:36 AM
New paper: long-term trends in antibiotic resistance show signs of stabilisation (thread). journals.plos.org/plospathogen...
Reposted by Javier DelaFuente
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 Javier DelaFuente
Join us in at #ESEB2025 Barcelona for our symposium on microbial adaptation to changing conditions. Organised by @mtoll8.bsky.social @javierdelafuente.bsky.social and me. Amazing invited speakers @saramitri.bsky.social and Itzik Mizrahi!! @eseb2025.bsky.social
March 13, 2025 at 5:30 PM
Join us in at #ESEB2025 Barcelona for our symposium on microbial adaptation to changing conditions. Organised by @mtoll8.bsky.social @javierdelafuente.bsky.social and me. Amazing invited speakers @saramitri.bsky.social and Itzik Mizrahi!! @eseb2025.bsky.social
Reposted by Javier DelaFuente
🚨 New preprint! We know that plasmids are associated with very variable fitness costs in their different bacterial hosts. But, what is the contribution of each of the plasmid-genes in these host-specific effects? Study led by @jorgesastred.bsky.social, @sanmillan.bsky.social and myself! 1/14
Dissecting pOXA-48 fitness effects in clinical enterobacteria using plasmid-wide CRISPRi screens
Conjugative plasmids are the main vehicle for the spread of antimicrobial resistance (AMR) genes in clinical bacteria. AMR plasmids allow bacteria to survive antibiotic treatments, but they also produ...
www.biorxiv.org
January 24, 2025 at 12:26 PM
🚨 New preprint! We know that plasmids are associated with very variable fitness costs in their different bacterial hosts. But, what is the contribution of each of the plasmid-genes in these host-specific effects? Study led by @jorgesastred.bsky.social, @sanmillan.bsky.social and myself! 1/14
Reposted by Javier DelaFuente
As of 2025 I am officially a junior PI at the Institute of Functional Biology & Genomics. My lab will focus on building quantitative models of eco-evo dynamics.
There is available funding for PhDs and postdocs — formal job announcements will come soon, but feel free to reach out in the meantime!
There is available funding for PhDs and postdocs — formal job announcements will come soon, but feel free to reach out in the meantime!
January 10, 2025 at 10:58 AM
As of 2025 I am officially a junior PI at the Institute of Functional Biology & Genomics. My lab will focus on building quantitative models of eco-evo dynamics.
There is available funding for PhDs and postdocs — formal job announcements will come soon, but feel free to reach out in the meantime!
There is available funding for PhDs and postdocs — formal job announcements will come soon, but feel free to reach out in the meantime!
Reposted by Javier DelaFuente
Chromosomal plasticity can drive rapid adaptation in bacteria by @mtoll8.bsky.social's lab
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
Chromosomal plasticity can drive rapid adaptation in bacteria
Understanding the molecular mechanisms underlying rapid adaptation to stress is a fundamental question in evolutionary biology. A common mechanism is copy number changes, which can affect single genes...
www.biorxiv.org
December 16, 2024 at 2:04 PM
Chromosomal plasticity can drive rapid adaptation in bacteria by @mtoll8.bsky.social's lab
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
Reposted by Javier DelaFuente
PhD opportunity in St Andrews on plasmids, antibiotics and defence systems, in collaboration with Helen Alexander in Edinburgh. Funding via BBSRC EastBio, please share & pass on to anyone interested! #microsky🦠🧫🧬
www.findaphd.com/phds/project...
www.findaphd.com/phds/project...
December 11, 2024 at 5:00 PM
PhD opportunity in St Andrews on plasmids, antibiotics and defence systems, in collaboration with Helen Alexander in Edinburgh. Funding via BBSRC EastBio, please share & pass on to anyone interested! #microsky🦠🧫🧬
www.findaphd.com/phds/project...
www.findaphd.com/phds/project...
Reposted by Javier DelaFuente
Thrilled to share our new article now out in Nature Reviews Microbiology! We review how bacterial #AMR evolves within patients during #antibiotic therapy, highlighting the complexity of the problem and how to improve understanding in future work. 1/7 #MicroSky
www.nature.com/articles/s41...
www.nature.com/articles/s41...
Ecological and evolutionary mechanisms driving within-patient emergence of antimicrobial resistance - Nature Reviews Microbiology
In this Review, Shepherd, Brockhurst and colleagues explore the clinical evidence in support of four major ecological and evolutionary mechanisms of within-patient antimicrobial resistance emergence i...
www.nature.com
May 1, 2024 at 10:35 AM
Thrilled to share our new article now out in Nature Reviews Microbiology! We review how bacterial #AMR evolves within patients during #antibiotic therapy, highlighting the complexity of the problem and how to improve understanding in future work. 1/7 #MicroSky
www.nature.com/articles/s41...
www.nature.com/articles/s41...
Reposted by Javier DelaFuente
Excellent paper by Dan Andersson's group
'Bacteria can compensate the fitness costs of amplified resistance genes via a bypass mechanism'
www.nature.com/articles/s41...
'Bacteria can compensate the fitness costs of amplified resistance genes via a bypass mechanism'
www.nature.com/articles/s41...
Bacteria can compensate the fitness costs of amplified resistance genes via a bypass mechanism - Nature Communications
Antibiotic heteroresistance, in which a susceptible bacterial population includes a small resistant subpopulation, can arise by tandem amplification of resistance genes, which often carry fitness cost...
www.nature.com
March 17, 2024 at 10:29 AM
Excellent paper by Dan Andersson's group
'Bacteria can compensate the fitness costs of amplified resistance genes via a bypass mechanism'
www.nature.com/articles/s41...
'Bacteria can compensate the fitness costs of amplified resistance genes via a bypass mechanism'
www.nature.com/articles/s41...
Reposted by Javier DelaFuente
Just one week left to apply for this eco-evo PDRA position working in a multidisciplinary team developing synthetic phage therapy 🧫 🧬 🫁 #microsky
BBSRC 2-year PDRA position to work on ecology & evolution of phage therapy with synthetically engineered phages. Part of an exciting multi-university consortium & UK’s Engineering Biology priority. Synthetic genomics; experimental evolution; AMR. www.jobs.manchester.ac.uk/Job/JobDetai... #microsky
March 15, 2024 at 12:32 PM
Just one week left to apply for this eco-evo PDRA position working in a multidisciplinary team developing synthetic phage therapy 🧫 🧬 🫁 #microsky
Reposted by Javier DelaFuente
First step in a community project to provide a uniformly assembled, annotated and searchable set of bacterial genomes, our preprint on our initial release of 1.9 million genome assemblies+taxonomic estimates. (figure compares with previous 661k dataset)
www.biorxiv.org/content/10.1...
#microsky
www.biorxiv.org/content/10.1...
#microsky
March 11, 2024 at 1:45 PM
First step in a community project to provide a uniformly assembled, annotated and searchable set of bacterial genomes, our preprint on our initial release of 1.9 million genome assemblies+taxonomic estimates. (figure compares with previous 661k dataset)
www.biorxiv.org/content/10.1...
#microsky
www.biorxiv.org/content/10.1...
#microsky
Reposted by Javier DelaFuente
BBSRC 2-year PDRA position to work on ecology & evolution of phage therapy with synthetically engineered phages. Part of an exciting multi-university consortium & UK’s Engineering Biology priority. Synthetic genomics; experimental evolution; AMR. www.jobs.manchester.ac.uk/Job/JobDetai... #microsky
March 8, 2024 at 3:30 PM
BBSRC 2-year PDRA position to work on ecology & evolution of phage therapy with synthetically engineered phages. Part of an exciting multi-university consortium & UK’s Engineering Biology priority. Synthetic genomics; experimental evolution; AMR. www.jobs.manchester.ac.uk/Job/JobDetai... #microsky
Reposted by Javier DelaFuente
Exciting chance to join our Wellcome Trust collaborative project understanding AMR evolution in human infections! Genomics, experimental evolution, Pseudomonas. Research Assistant 4-days per week for 2-years, deadline 18.03. www.jobs.manchester.ac.uk/Job/JobDetai... #microsky
March 5, 2024 at 9:22 PM
Exciting chance to join our Wellcome Trust collaborative project understanding AMR evolution in human infections! Genomics, experimental evolution, Pseudomonas. Research Assistant 4-days per week for 2-years, deadline 18.03. www.jobs.manchester.ac.uk/Job/JobDetai... #microsky
Reposted by Javier DelaFuente
Excited to share the first preprint from my lab, collaborating with the fantastic @sanmillan.bsky.social 's lab, led by the amazing Jorge Sastre. We've demonstrated how insertion sequences encoded in plasmids promote bacterial adaptation. This project has been incredibly fun!
New preprint in collaboration with @asantoslopez.bsky.social lab and led by Jorge Sastre. Combining experimental evolution and analyses of longitudinal samples from hospitalised patients, we unveiled a new mechanism of plasmid-mediated evolution beyond HGT 1/8
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
Plasmid-encoded insertion sequences promote rapid adaptation in clinical enterobacteria
bioRxiv - the preprint server for biology, operated by Cold Spring Harbor Laboratory, a research and educational institution
www.biorxiv.org
March 3, 2024 at 2:16 PM
Excited to share the first preprint from my lab, collaborating with the fantastic @sanmillan.bsky.social 's lab, led by the amazing Jorge Sastre. We've demonstrated how insertion sequences encoded in plasmids promote bacterial adaptation. This project has been incredibly fun!
Reposted by Javier DelaFuente
New preprint in collaboration with @asantoslopez.bsky.social lab and led by Jorge Sastre. Combining experimental evolution and analyses of longitudinal samples from hospitalised patients, we unveiled a new mechanism of plasmid-mediated evolution beyond HGT 1/8
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
Plasmid-encoded insertion sequences promote rapid adaptation in clinical enterobacteria
bioRxiv - the preprint server for biology, operated by Cold Spring Harbor Laboratory, a research and educational institution
www.biorxiv.org
March 2, 2024 at 7:53 PM
New preprint in collaboration with @asantoslopez.bsky.social lab and led by Jorge Sastre. Combining experimental evolution and analyses of longitudinal samples from hospitalised patients, we unveiled a new mechanism of plasmid-mediated evolution beyond HGT 1/8
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
Reposted by Javier DelaFuente
And its out! New paper for #integron aficionados. We found gene-less cassettes in superintegrons that express/silence other cassettes in the array. Here is a 🧵(if I know how to do this in Bluesky...😆)
academic.oup.com/nar/advance-...
academic.oup.com/nar/advance-...
Identification of promoter activity in gene-less cassettes from Vibrionaceae superintegrons
Abstract. Integrons are genetic platforms that acquire new genes encoded in integron cassettes (ICs), building arrays of adaptive functions. ICs generally encod
academic.oup.com
January 15, 2024 at 7:50 PM
And its out! New paper for #integron aficionados. We found gene-less cassettes in superintegrons that express/silence other cassettes in the array. Here is a 🧵(if I know how to do this in Bluesky...😆)
academic.oup.com/nar/advance-...
academic.oup.com/nar/advance-...
Reposted by Javier DelaFuente
New perspective paper with the amazing @asanchezlab.bsky.social @javierdelafuente.bsky.social and Juan Diaz-Colunga.
Can we use global epistasis patterns to predict/understand plasmid-mediated AMR evolution? www.embopress.org/doi/full/10....
Can we use global epistasis patterns to predict/understand plasmid-mediated AMR evolution? www.embopress.org/doi/full/10....
Global epistasis in plasmid-mediated antimicrobial resistance | Molecular Systems Biology
EMBO Press is an editorially independent publishing platform for the development of EMBO scientific publications.
www.embopress.org
February 26, 2024 at 4:02 PM
New perspective paper with the amazing @asanchezlab.bsky.social @javierdelafuente.bsky.social and Juan Diaz-Colunga.
Can we use global epistasis patterns to predict/understand plasmid-mediated AMR evolution? www.embopress.org/doi/full/10....
Can we use global epistasis patterns to predict/understand plasmid-mediated AMR evolution? www.embopress.org/doi/full/10....