Preprint out for myloasm, our new nanopore / HiFi metagenome assembler! Nanopore's getting accurate, but 1. Can this lead to better metagenome assemblies? 2. How, algorithmically, to leverage them? with co-author Max Marin @mgmarin.bsky.social, supervised by Heng Li @lh3lh3.bsky.social 1 / N

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

🎉The EVBC Newsletter 95 - July/Aug 2025 - includes the newest EVBC publications, virus bioinformatics tools, members, upcoming events and more! 🔗 evbc.uni-jena.de/evbc-newslet...

Our R package, mycolorsTB, has officially landed on CRAN! We created mycolorsTB to provide easy-to-use, standardized color palettes for visualizing Mycobacterium tuberculosis complex data. install.packages("mycolorsTB") @pathogenomics.bsky.social github.com/PathoGenOmic...

🚨 Abstract submission is open for Pangenome2025 in Valencia! #microsky #bioinformatics 🧪🦠🧬🖥️ I’m one of the invited speakers. Looking forward to the talks by my @i2sysbio.es colleague Pilar Domingo-Calap @pilardomingoc.bsky.social, and many other great researchers. www.alocongress.com/pangenome2025 🧵

Some great new features and updates from the awesome Pathoplexus project. This is a new open pathogen genome database that can provide access to your sequences under a use-restricted license but also feed directly in to INSDC (EBI, Genbank etc) when you are ready. pathoplexus.org/news/2025-07...

🗓️As we close in on 11 months of Pathoplexus, we’re pleased to announce many new direct sequence uploads and some exciting new features that expand Pathoplexus’ utility! 📰 You can see our full News Item here: pathoplexus.org/news/2025-07-14-july-update 1/9

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!

Stop searching, start researching! My new 3D printable slide holder keeps your samples safe, accessible, and perfectly organized. It's a cost-effective and eco-friendly solution for any lab. Download the files for free! makerworld.com/en/models/15... #Scicomm #Lab #3Ddesign #Freebie #DIYscience

El #I2SysBio (@csic.es[email protected]) ha lanzado una serie de vídeos sobre los diferentes grupos de investigación en este centro. El nuevo video es sobre el grupo PatoGenÓmica @pathogenomics.bsky.social de Mireia Coscolla 🌐 youtu.be/0jj9iCCw3ww?... 🧪🧬🖥️ 🦠👩‍🔬 #microsky #WomenInSTEM #tuberculosis

BEAST X v10.5.0 finally released – you can't just do beta releases forever. github.com/beast-dev/be... Details and instructions for installing on the BEAST website: beast.community

A huge moment for our lab at #ESM2025, with Mireia Coscolla presenting our work on host-pathogen interactions. She did a brilliant job—fantastic science from a fantastic scientist! So proud of her and the entire team. @pathogenomics.bsky.social @i2sysbio.es @esmyco.bsky.social 👏✨

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

"Conèixer els màsters" is an informational event of the @uv.es 😀 Representing the Master's in Bioinformatics its director @vicentarnau.bsky.social and PhD student Celeste Moya attended. Registration for UV master's programs is open until June 13. Sign up now! @i2sysbio.bsky.social #bioinformatics

Pathoplexus News Updates always feel like 💃 ! So many cool things to report, including amazing uploads from users! 🕺

Iñaki Comas del @ibv-csic.bsky.social junto a Mariana López y su grupo, ganadores del Premio en la categoría de Transferencia de conocimiento, con mención especial a la candidatura Genómica para políticas públicas: control de pandemias, epidemias y enfermedades del Sur Global @csic.es ¡Enhorabuena!

By mining GISAID, researchers from I2SysBio uncover sequencing artifacts in SARS-CoV-2. Many repair mutations in the spike protein were due to errors in data processing. #covid19 #viruses #microsky🧪🦠💻🧬 More info: www.i2sysbio.es/communicatio... ⬇️

Original article published in Virus Evolution: academic.oup.com/ve/advance-a... Congratulations, @paururo.bsky.social @fgonzalef.bsky.social @rongellerlab.bsky.social @pathogenomics.bsky.social and others!

It's finally out!!!! Our review on long-reads transcriptomics was published in @natrevgenet.bsky.social!! You can have a look at the paper here rdcu.be/efugl! We hope you like it 😀

Yes, #Tuberculosis (TB) is curable! TB is treated with antibiotics taken daily for 4–6 months. ⚠️ Stopping treatment early can lead to drug-resistant TB. Funding cuts & rising drug resistance put the most vulnerable at risk. Sustained support is crucial to #EndTB 👉 bit.ly/4ilkK1h #WorldTBDay

It's World Tuberculosis Day,let's unite to stop TB in its tracks! 🚫🦠 Join us at the vibrant 45th Annual Congress of the European Society of Mycobacteriology in Lisbon (22-25 June 2025). Save the date, register today! 🎯 www.esmycobacteriology.eu/event-home #EndTB

🔬La Unidad de Genómica de la Tuberculosis del IBV-CSIC se centra en comprender la diversidad genómica y la evolución de la 'M. tuberculosis', bacteria que transmite la enfermedad, para: ➡️Epidemiología ➡️Diagnóstico ➡️Tratamientos ➡️Vacunas 👉https://www.ibv.csic.es/project/genomica-de-la-tuberculosis/

🦠 World TB Day! At @pathogenomics.bsky.social (@csic.es, @i2sysbio.bsky.social) we crack TB's genomic secrets safely locked inside our BSL2/BSL3 labs. Press play, help spread science instead of TB. Knowledge is contagious the bacteria shouldn't be! #EndTB #ScienceInAction youtube.com/shorts/eGNLL...

🔬 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,

🧬 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

🦠🐄🧬 En el grupo Pathogenomics del i2SysBio investigan qué hace que ciertas cepas de tuberculosis infecten más a humanos y animales 👉Entender esta compatibilidad ayuda a prevenir contagios entre especies y a controlar mejor la enfermedad ⬇️ https://www.i2sysbio.es/

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

#ESTALMAT ha visitado nuestro instituto en su proyecto para la detección, orientación y estímulo del talento matemático de estudiantes escolares @raciencias.bsky.social #matemáticas #divulgación #OVS #FECYT @javierbuceta.bsky.social @pathogenomics.bsky.social 💻🧬

This is an image of a human immune cell called a macrophage (purple) connecting with the bacteria Mycobacterium tuberculosis (green), which causes TB. #microscopy 🧪🔬 Image credit: Tony Fearns and Beren Aylan

Mark your calendars 📅! Registration for the 45th Annual Congress of the European Society of Mycobacteriology in Lisbon 🇵🇹 (22–25 June 2025) opens on 15 Feb 2025. Don’t miss out—join us to connect, share groundbreaking research, and drive innovation 🦠🔬 #ESM2025 www.esmycobacteriology.eu/event-home

It's all gone. They've taken down all the CDC datasets from data.cdc.gov Data that's critical for public health & research. Data paid for by citizens. That the government now censors. "Do not fear those who tell the truth. Fear those who try to hide it. They are willing to sacrifice other things."

Hello @bsky.app 🦋! We’re the European Society of Mycobacteriology (ESM) on a mission to decode the mysteries of mycobacteria 🦠🔬. Stay tuned for exciting research, TB updates, and more. Let’s shape the future of global health together!

The illustration on the holiday card of our institute @i2sysbio.bsky.social is inspired by #nudibranch , beautiful drawing by @paururo.bsky.social . This is a big honour for my research group and also makes us to put finishing of our big nudibranch manuscript🦑 as the first thing to do in 2025🧪

40 years ago all of Genbank was published in print form by NAR. The same format today would require over 4 light seconds of shelf space. To a year of progress in 2025.

Re-sharing this H5N1 Tableau dashboard 2.0: bit.ly/H5N1_Dashboard Includes freq. updated: • CDC H1/H3 Flu A WW levels • WastewaterSCAN H1 Flu A WW levels • H5 WW detections • H5N1 poultry outbreaks • H5N1 wild bird detections • H5N1 dairy cattle outbreaks • Human H5N1 cases by state/source/date

Phylogenetics methods announcement: piqtree is out! It exposes selected IQ-TREE2 capabilities within Python, using the cogent3 library as the interface, better enabling pipelines. piqtree is an addition to, not a replacement of, IQ-TREE2. Full announcement at github.com/iqtree/piqtr...

New release of Canu - first one in over 3 years! github.com/marbl/canu/r... The notes say this will be the very last release. Many thanks to its devs Brian Walenz and @sergek.bsky.social. Canu may be a bit old and it's certainly not fast, but it makes good assemblies and so I still use it!

Hi #MicroSky community can u help us to detect this bacteria (? ) #microbiology 🧫 @pathogenomics.bsky.social

It was thrilling to see Mireia @pathogenomics.bsky.social present our team’s work on “Host pathogen interactions in 𝘔. 𝘵𝘶𝘣𝘦𝘳𝘤𝘶𝘭𝘰𝘴𝘪𝘴” at @GVAfisabio . Even as part of this research, hearing it come together was so inspiring. Stay tuned for what’s next! @i2sysbio.bsky.social #tuberculosis

First post on Bluesky, let’s share some websites offering many free illustrations for scientific figures 🖼️ 🧪 🌍 : scidraw.io bioart.niaid.nih.gov www.phylopic.org More well known but very nice though: www.freepik.com

#PopGen 🖥️ 🧬 🧪

Check out our tools for genomic analisis at github.com/PathoGenOmic... • get_MNV: Reclassifies SNVs as MNVs and predicts amino acid changes. • snpick: SNP extraction for large alignments. • VIPERA: Workflow for SARS-CoV-2 evolution. • mycolorsTB: R color palette for M. tuberculosis.

And PathoGenOmics lab re-publish a video interview highlighting the problem of drug resistance in Mycobacterium tuberculosis youtu.be/VqSWUJmP01w

I2SysBio joins World Antimicrobial Resistance Awareness Week www.uv.es/institute-in...

checkout SNPick A fast and memory-efficient tool for SNP extraction from genomic alignments. @i2sysbio.bsky.social available as well in bioconda bioconda.github.io/recipes/snpi... @pathogenomics.bsky.social

🚀 Introducing SNPick! • Fast, memory-efficient SNP extraction from massive FASTA alignments • Handles ambiguous nucleotides (IUPAC) • Outputs ready for RAxML & IQ-TREE Overcome snp-sites limitations! 🔗 github.com/PathoGenOmic... #Genomics #BioinfoGenomics #Bioinformatics @pathogenomics.bsky.social

🦠🧬💻 Bakta v1.10 - largest update so far: Highlights: - user-provided HMMs: --hmms - output file recovery from JSON files: bakta_io - export of inference metrics: inference.tsv - bypass overlap filters: --skip-filter - improved genome plots github.com/oschwengers/... 👇 (1/11)