PathoGenOmics Lab

1/6 Our new paper is out in Emerging Infectious Diseases.We introduce Pathotypr, a free, alignment-free tool for lineage identification, drug resistance detection and mixed infection screening in the Mycobacterium tuberculosis complex (MTBC).A short thread on what it does.

Hoy comienzan las VI Jornadas Científicas PTI+ Salud Global @ptisg.bsky.social y de aperitivo, una entrevista a MargaDelVal sobre vacunas/antivacunas manuelnadal.com/margarita-de...

Aun estáis a tiempo de ver el espectáculo de danza contemporánea y circo que ha puesto en marcha Álvaro Chiner. Nos cuenta lo sucedido durante una gran epidemia de forma exquisita y sugerente. Vale mucho la pena.

New preprint on how drinking water treatment processes affect water-associated microbial communities, with a focus on opportunistic bacterial pathogens. Always great to work with the lab of @cbuch.bsky.social 😍. www.biorxiv.org/content/10.6...

Participaremos en el espectáculo de arte y ciencia VirArt organizado por Álvaro Chiner en @teatremusical.bsky.social. @gvafisabio.bsky.social @dicv.csic.es @cipfvalencia.bsky.social

Want to analyse bacterial genomes yourself? ONE-BAG 2026 at @i2sysbio.es takes you from raw reads to interpretable phylogenies, with hands-on training in QC, SNPs, assembly, annotation, pangenomes, outbreaks, AMR and typing. Learn more: onebag.uv.es

Back from #ESM2026 in Verona, grateful and proud. Two of my research contributions, co-authored with Mireia @pathogenomics.bsky.social, were presented. Honoured to receive the Travel Award and Best Oral Presentation. Thank you, Mireia, for your guidance and support. @i2sysbio.es @esmyco.bsky.social

🏅 Congratulations to Margo Diricks, winner of the Gertrud Meissner Award at #ESM2026! We're delighted to celebrate Margot's outstanding contribution to mycobacteriology, recognising the excellence and dedication she brings to our field. So well deserved 👏 #ESM2026 #ESMyco

Bouke's innovative thinking, rigorous pursuit of knowledge and colaborative way of conducting research make this recognition incredibly well-deserved. Thank you for your outstanding contributions to the field and your unique ability to inspire the mycobacterial community.

Personal #CIBERBBN en la @upv.es desarrolla un biosensor rápido y de bajo coste para detectar #tuberculosis activa 🔎🔬 Más info en ➡️ www.upv.es/noticias-upv... @cipfvalencia.bsky.social

🔬 El #CSIC e #ISGLOBAL firman un acuerdo de colaboración para reforzar la investigación en salud ➡️ Ambas entidades promoverán proyectos de investigación y asesoramiento, así como seminarios y jornadas especializadas 👉 http://tiny.cc/2ll1101

🧬 pathotypr is now on Bioconda! @pathogenomics.bsky.social conda install -c bioconda pathotypr Alignment-free lineage classification & drug resistance genotyping from WGS. Works with any pathogen bring your own SNP markers. ⚡ Rust, ~1s/sample 🖥️ CLI + GUI 🔗 github.com/PathoGenOmics-Lab/pathotypr

Un momento dulce compartiendo la mona de Pascua con los compañeros. Tradiciones que unen y alegran el día. @i2sysbio.es @paururo.bsky.social @ahmig.es

🔬 Hoy es el Día Mundial de la Tuberculosis. Esta imagen refleja algo que rara vez se ve: las horas dentro de un BSL-3, la bioseguridad, el trabajo silencioso detrás de cada avance. @i2sysbio.es @pathogenomics.bsky.social

The “curse of interdisciplinarity”: Fields like bioinformatics fall between the cracks in grant evaluation. 🧬 For bios: Too little mechanistic validation 🧮 For math: Not enough new theory 💻 For computing: “Just” applied computing Interdisciplinarity is essential, but evaluation hasn’t caught up.

🔬 World TB Day 2026 — Behind the mask, inside BSL-3. Our team works daily to understand M. tuberculosis evolution, resistance & transmission through genomics. TB still kills 1.25M people/year. Research matters. @i2sysbio.es #WorldTBDay #EndTB #Tuberculosis

El Instituto de Biología Integrativa de Sistemas celebra su décimo aniversario con un acto conmemorativo en el Parc Científic de la Universitat de València www.i2sysbio.es/communicatio... @i2sysbio.es

Happy Bioinformatics Day!🧬💻Celebrate the power of data for understanding life at every level. In @pathogenomics.bsky.social we combine experiments with bioinformatics to understand bacterial evolution, virulence, and infection dynamics. #SoyBioinformatica @paururo.bsky.social @ahmig.es @i2sysbio.es

@i2sysbio.es 10th Aniversary Celebration, science and fun!

Proud to celebrate 10th anniversary of @i2sysbio.es 🎉 Being part of a community dedicated to discovery, collaboration, and advancing science is truly inspiring. Grateful to contribute, learn, and grow alongside such passionate colleagues. Here’s to many more years of knwledge and impact! 🔬✨

¿Quieres un impulso a tu formacion investigadora🔬? En @i2sysbio.es ofertamos beca JAE Intro @amrhubcsic.bsky.social al. Plan formativo "Frenar la adquisición de resistencia en bacterias patógenas💊". 6 meses remuneración de 600 €/mes. Aplica antes del 10 marzo en www.convocatorias.csic.es/convoca/

🚀 #ESM2026 registration is open! 46th Annual Congress of the European Society of Mycobacteriology. 📍 Verona, Italy | 🗓️ 22–25 June 2026 🔗 www.esmycobacteriology.eu/event-home

🚨JOB ALERT Dr. Buceta at @i2sysbio.es welcome applications for 36-month postdocs on: 👉 Mechanical markers of tissue dysfunction due to ageing – digital twins & machine learning Details here: fgcsic.es/convocatoria... 📩 Contact javier.buceta@csic.es to shape your proposal! @epimechfc.bsky.social

Come and join us in Valencia next January for the meeting of the Spanish Society of Evolutionary Biology. Deadline for abstracts October 22nd. sesbe2026.es/registration/

Back from #MycoVLC2025 after presenting our M. tuberculosis work. Huge thanks to Mireia for stellar mentorship. Proud of my @pathogenomics.bsky.social mycolegas for standout posters. Energized to turn ideas into results. #TB #TBResearch @i2sysbio.es

Then, we Mireia Coscollà ( @pathogenomics.bsky.social ), from I2SysBio ( @i2sysbio.es ) talked about compatibility between hosts in bacterial infections.

From fàstic to fantastic population genetics with @pathogenomics.bsky.social :announcing Fstic a high-performance Rust CLI that computes N×N genetic distance matrices from VCFs or allele-frequency tables at scale. (fàstic=Valencian/Catalan for annoyance)Code: github.com/PathoGenOmic... @i2sysbio.es

El #I2SysBio (@csic.es - @uv.es) ha lanzado una serie de vídeos sobre los diferentes grupos de investigación en este centro. El nuevo video es sobre el grupo Orquestación transcripcional del metabolismo vegetal de Tomas Matús @jtmatus.bsky.social 🎥🌐 youtu.be/43V4MOtAf4k?... 🧪🧬🖥️ 🌾🌱🍇 #plantscience

Spanish Society Evolutionary Biology meeting January 2026 in the botanical Garden ‪@uv.es‬ in Spain. Registration 200-350€. Preliminary program with confirmed keynote speakers: sesbe2026.es/programme/. Abstract submission until September 15th. sesbe2026.es/abstract/. Come to Valencia and join us!

VIPERA v1.2.1 is here!! 🐍🐍🐍 Our workflow for SARS-CoV-2 intra-patient evolution analysis now fully supports Snakemake 8/9 (with dedicated CI tests), BIONJ trees, richer reports, added config parameters, modular Snakefiles and more! 🧪👉 github.com/PathoGenOmics-Lab/VIPERA

‪@ahmig.es‬ presented the poster "Expanding the scope of evolution reporting and analysis: from intra patient dynamics to outbreaks" at MCEB 2025 in Granada thanks to the funding @bcbhubcsic.bsky.social and ‪@ageinves.bsky.social‬.

Just back from MCEB 2025 in Granada! I presented our year-long work expanding VIPERA🐍 to help us better track pathogen evolution, here at @pathogenomics.bsky.social - @i2sysbio.bsky.social. I learned so much and returned full of ideas! Thanks to @bcbhubcsic.bsky.social for funding my attendance! 🧪

Today, I2SysBio researchers were busy with #scienceoutreach activities at #Expociencia. Here are photos of the Pathogenomics lab @pathogenomics.bsky.social explaning in a playful way how our immune system works 🧬🖥🦠🧫🧪

Nuestro 4to año superado con creces, #expociencia2025 @pathogenomics.bsky.social @i2sysbio.bsky.social

🔬 Beca JAE Intro en Bioinformática Desarrolla HaploScope, una pipeline híbrida (Illumina + Nanopore/PacBio) para reconstrucción de haplotipos bacterianos y virales en @i2sysbio.bsky.social Código: JAEINT25_EX_1603 🗓️ Solicita hasta 2 mayo 🔗 rb.gy/c6c8p2 #Bioinformática #Nextflow #JAEIntro #CSIC #TFM

Today: Online link for World TB Day symposium 9-5 GMT: lshtm.zoom.us/j/92519123639. Programme information at ucl.ac.uk/tb/events/wo...

🧬 Estudiamos la genética tras la compatibilidad patógeno-hospedador en tuberculosis (laboratorios BSL2/BSL3). Dale play al vídeo: ¡que lo contagioso sea la ciencia! #EndTB #DíaMundialTuberculosis, Desde @csic.es, @ptisg.bsky.social, @i2sysbio.bsky.social y @paururo.bsky.social

🦠 ¿Amigos o enemigos? La infección por tuberculosis depende de la compatibilidad patógeno-hospedador. Si encajan bien, la bacteria prospera; si no, fracasa. ¡Cuestión de genética! #EndTB #DíaMundialTuberculosis

🦠 Friends or foes? Tuberculosis infection depends on host-pathogen compatibility. If they're genetically compatible, bacteria thrive; if not, they fail. It’s all about matching genes! #EndTB #WorldTBDay

🔬 On World TB Day, we show you how we study tuberculosis genomes safely in BSL2/BSL3 labs to understand and stop its spread. Hit play—spread science, not TB! #EndTB #WorldTBDay @i2sysbio.bsky.social & @paururo.bsky.social,

Visit to I2SysBio by ESTALMAT, the programme of mathematical talent promotion www.i2sysbio.es/communicatio...

#ESTALMAT is a project of the Spanish Royal Academy of Sciences @raciencias.bsky.social for detection and encouragement of mathematical talent in 12-13 years old students. They visited our research institite to learn about #DNA 🧪💻🧬 #outreach @javierbuceta.bsky.social @pathogenomics.bsky.social