Francesc Coll

Francesc Coll

@fcic.bsky.social

Computational biologist interested in bacterial genomics, bacterial adaptation and antibiotic resistance. @IBV_CSIC

400 followers120 following24 posts

Francesc Coll reposted

Instituto de Biomedicina de Valencia (IBV), CSIC
@ibv-csic.bsky.social

💙💛❤️ 𝗙𝗲𝗹𝗶𝗰̧ 𝟵 𝗱’𝗢𝗰𝘁𝘂𝗯𝗿𝗲! Hui celebrem la terra que compartim, la nostra cultura, la nostra llengua i tot allò que ens uneix. Des de l’IBV-CSIC, fem ciència des de València i contribuïm, amb coneixement, al futur de la nostra societat. #IBVCSIC #9dOctubre #comunitatvalenciana #ciència

Francesc Coll reposted

Paula
@paururo.bsky.social

Working with bacterial sequencing data and want to get more out of it? ONE-BAG 2026 is a hands-on course covering the full bacterial genomics workflow, from raw reads to phylogenetics. Valencia, 14–17 Dec 2026. Applications close 1 Oct. onebag.uv.es

Francesc Coll reposted

Kate Baker
@ksbakes.bsky.social

Our TARGet AMR genomics-comic is out now - check it out, share it, print it, use it in your lectures, PE events, or maybe even when trying to explain what you do to dinner guests! 🤓 🧬 🧫

TARGetAMR@target-amr.bsky.social

🧬 Explore our illustrated comic - an accessible entry point to genomic literacy and AMR across disciplines ✅ Free to use and adapt (CC BY 4.0) 👉 Read more: www.targetamr.org.uk/targetamr-la... 🔗 Access the comic: www.targetamr.org.uk/our-comic/ #GenomicDetectives

Francesc Coll
@fcic.bsky.social

We suggest that highly-adhesive, α-toxin-defective isolates promote inflammatory but self-limiting infections, whereas weakly adhesive, high-toxicity strains favour immune evasion and severe disease.

Francesc Coll
@fcic.bsky.social

Functional analyses reveal that high levels of SpA limit ClfA-dependent fibrinogen binding, CsbB interferes with ClfA exposure on bacterial surface, and GlcA enhances fibronectin binding via metabolic regulation.

Francesc Coll
@fcic.bsky.social

Our findings define adhesion as a polygenic and evolutionarily variable trait with genetic variants in known adhesins and novel loci all affecting adhesion capacity.

Francesc Coll
@fcic.bsky.social

We found that stronger fibrinogen-binding, particularly in strains lacking α-toxin, correlated with heightened systemic inflammation but lower mortality, linking bacterial adhesion to distinct clinical outcomes.

Francesc Coll
@fcic.bsky.social

We applied a bacterial GWAS to identify genetic variants in S. aureus associated with differences in bacterial adhesion. The GWAS identified genetic variants in genes encoding known adhesins (clfA, fnbA, fnbB, ebh), other surface factors (spa, sdrH), MGEs, and other loci (csbB, glcA).

Francesc Coll
@fcic.bsky.social

We characterised a collection of 236 S. aureus strains isolated from bloodstream infections, profiled for binding to fibrinogen and fibronectin and whole-genome sequencing, with matched patients' clinical data.

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Francesc Coll
@fcic.bsky.social

Our study describes the multiplicity and heterogeneity of adaptive genetic changes that M. tuberculosis undergoes during human infection, and provide indirect evidence of the selective pressures that MTBC encounters in host.

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Francesc Coll
@fcic.bsky.social

We observed that genes encoding regulators (phoR, whiB6 and mycP1) and effectors (espK and eccE1) of the virulence ESX-1 locus were frequently mutated in host.

Francesc Coll
@fcic.bsky.social

When using available drug treatment data, we found that fluoroquinolone resistance was acquired more frequently than resistance to any other drug, and particularly higher among MDR strains.

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Francesc Coll
@fcic.bsky.social

We identified 28 well-known drug resistance loci as hot spots of mutational adaptation in vivo, which demonstrates the robustness of our approach in detecting expected adaptations.

Francesc Coll
@fcic.bsky.social

We identified candidate drug resistance loci (prpR, Rv2571c, fadD11, helY, ndhA, Rv0139, fadE5, bioF2, and mce1 operon) identified elsewhere by independent GWAS and functional genomics studies.

Francesc Coll
@fcic.bsky.social

We used a dataset of 5,900 MTBC genomes from over 1,000 TB patients and applied a convergent evolution approach to identify heavily mutated loci across strains of multiple patients.

Francesc Coll reposted

CSIC
@csic.es

🦠Los fagos son los virus de las bacterias 🔬Se sabía que se comunicaban, pero se pensaba que solo lo hacían entre los de su especie 👨‍🔬El @ibv-csic.bsky.social revela que distintas especies de virus comparte un 'lenguaje común' para coordinar estrategias de supervivencia 👉 http://tiny.cc/rdx0101

Francesc Coll reposted

Teresa M. Coque
@tmcoque.bsky.social

We are pleased to share our last article rdcu.be/fabhM. It offers the most comprehensive analysis so far of Ab+non-Ab resistance genes in human gut microbiome, using an Indigenous population (low industrialization, chronic Hg exposure from gold mining) 6/6👇

rdcu.beThe antimicrobial gut resistome of the Wayampi reveals a shared background of antibiotic and metal resistance genes with industrialized populations, underscoring the “robust-yet-fragile” architecture ...

Francesc Coll reposted

Antimicrobianos Hub CSIC
@amrhubcsic.bsky.social

La resistencia a antimicrobianos es una amenaza global. Estos jóvenes talentos ya están trabajando en la solución 🧫✨ Conoce a los finalistas de los Premios CSIC–AEAC y sus proyectos: www.conexion-amr.csic.es/los-premios-...

conexion-amr.csic.esLos Premios de Investigación en Resistencia a Antimicrobianos CSIC–AEAC ya tienen finalistas | Conexión AMRLa iniciativa está organizada por la Conexión Resistencia Antimicrobianos del CSIC y la Asociación Española para el Avance de la Ciencia.

Francesc Coll reposted

Centre for Genomic Pathogen Surveillance
@thecgps.bsky.social

109 participants from 52 countries are convening at Africa CDC Headquarters in Addis Ababa for a focused, experience-led meeting on strengthening routine national antimicrobial resistance (AMR) surveillance systems, including the integration of pathogen genomic data. More at www.amrsurveillance.org

amrsurveillance.orgAMR Convening on Building Sustainable AMR Genomic SurveillanceA focused convening to identify practical pathways for strengthening routine national AMR surveillance systems, including the integration of genomic data.

Francesc Coll reposted

Kate Baker
@ksbakes.bsky.social

Are you interested in how your genomics work can meaningfully feed into addressing the UK National Action Plan on AMR? 🧬🧫 🦠💊 Then check out our handy personal view out today in Lancet Microbe … 🧵1/n www.sciencedirect.com/science/arti...

sciencedirect.comThe role of microbial genomics in delivering the UK’s national action plan for confronting antimicrobial resistance 2024–29Antimicrobial resistance (AMR) is a major threat to human and animal health, in addition to environmental resilience. Countries set the agenda on thei…

Francesc Coll reposted

Rafal Mostowy
@rafalmostowy.bsky.social

📢 Hiring a Postdoc in Computational Phage Biology (Kraków, Poland) We study the evolution & structural modularity of prophage-encoded glycan-degrading enzymes in Klebsiella pneumoniae — combining genomics and AlphaFold-based analyses. Details in attached PDF 👇

docs.google.comPostdoc AdPostdoctoral Position in Computational Phage Biology Microbial Genomics Group, Malopolska Centre of Biotechnology (MCB), Jagiellonian University, Kraków PL Summary We are seeking a postdoctoral rese...

Francesc Coll reposted

Ruth Massey
@masseylab.bsky.social

Super cool story from Sam Fenn. He developed a wound model where s. aureus & p. aerunginosa & c. albicans fight it out shows that copper is central to the outcome where Candida and pseudomonas take copper from human tissue to gang up on staph! But staph being staph is as always one step ahead….

bioRxiv Microbiology@biorxiv-microbiol.bsky.social

Copper as a central element critical to interkingdom interactions within a polymicrobial wound environment. https://www.biorxiv.org/content/10.64898/2026.02.10.705071v1

Francesc Coll reposted

Ruth Massey
@masseylab.bsky.social

The first of some rather chunky papers coming out of Sam Fenn’s work here at @uccmicrobiology.bsky.social Here we identify and characterise yet another way S. aureus survives life in the bloodstream, but remodelling a major part of its metabolism

eur01.safelinks.protection.outlook.comMetabolic reprogramming promotes Staphylococcus aureus serum resistance during bacteraemia.Staphylococcus aureus is a leading cause of bloodstream infections causing an estimated 300,000 deaths worldwide. Using a functional genomics approach, our group previously identified that adaptation ...

Francesc Coll reposted

Antimicrobianos Hub CSIC
@amrhubcsic.bsky.social

Replying to @amrhubcsic.bsky.social

Laura Díaz Sáez explicó las actividades que está realizando el Grupo de Trabajo de Difusión (Daniel López, Juan Hermoso, Rafael Molina, Lara Díaz, Sara Hernando-Amado, Jade Rivera, Alberto Marina, Ana de la Torre y Scienseed). Y participaron miembros de otras Conexiones del @CSIC.

Francesc Coll reposted

Antimicrobianos Hub CSIC
@amrhubcsic.bsky.social

Replying to @amrhubcsic.bsky.social

La otra mesa trató sobre "Adquisición y diseminación de resistencias a los antibióticos: del ecosistema natural al microbioma humano" (Junkal Gramendia, Jaime Villaverde, Pilar Truchado, Carol Ewbank, Francesc Coll, Sara Hernando-Amado, Carles Ubeda).

Francesc Coll reposted

Mat Beale
@typemat12.bsky.social

#microsky Pleased to share this work led by Cat Wilson as part of her PhD, tracking Salmonella transmission in low intensity agricultural settings in Malawi. TL;DR - lots of transmission between humans, animals and environment within households. www.nature.com/articles/s41...

nature.comCirculation of Salmonella spp. between humans, animals and the environment in animal-owning households in Malawi - Nature CommunicationsIn this work, Wilson et al., examined sharing of Salmonella between humans, animals and the environment using household samples from Malawi. They revealed an interconnected web of Salmonella circulati...

Francesc Coll reposted

Zoe Anne Dyson
@msmicrobiocode.bsky.social

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.

mrc-lid.lshtm.ac.uk2026-27 Project (Dyson & Mostowy & Knight) - MRC London Intercollegiate Doctoral Training Partnership StudentshipsPHACTS: Unravelling PHAge-baCTeria-host immune dynamicS to inform phage therapy SUPERVISORY TEAM Supervisor Dr Zoe Dyson...

Francesc Coll reposted

ESCMID
@escmid.bsky.social

We wrapped up #IMMEM XIV over the weekend and it was a fantastic success with over 250 participants from 35 countries. A big thank you to the organisers and specifically @esgem-sg.bsky.social our study group on epidemiological markers! The content will be available on ESCMID media soon. #clinmicro

Francesc Coll reposted

Zamin Iqbal
@zaminiqbal.bsky.social

Sometimes you meet absolutely incredible bioinfo-magicians. It was a huge privilege when @shenwei356.bsky.social joined our group for a year on an @embl.org sabbatical. While here, he developed a new way of aligning to millions of bacteria, called LexicMap 1/n www.nature.com/articles/s41...

nature.comEfficient sequence alignment against millions of prokaryotic genomes with LexicMap - Nature BiotechnologyLexicMap uses a fixed set of probes to efficiently query gene sequences for fast and low-memory alignment.