@justjocv.bsky.social
Reposted
Detection and isolation of H5N1 clade 2.3.4.4b high pathogenicity avian influenza virus from ticks (Ornithodoros maritimus) recovered from a naturally infected slender-billed gull (Chroicocephalus genei) https://www.biorxiv.org/content/10.1101/2025.11.28.689408v1
November 29, 2025 at 2:15 AM
Detection and isolation of H5N1 clade 2.3.4.4b high pathogenicity avian influenza virus from ticks (Ornithodoros maritimus) recovered from a naturally infected slender-billed gull (Chroicocephalus genei) https://www.biorxiv.org/content/10.1101/2025.11.28.689408v1
Reposted
Many of the most complex and useful functions in biology emerge at the scale of whole genomes.
Today, we share our preprint “Generative design of novel bacteriophages with genome language models”, where we validate the first, functional AI-generated genomes 🧵
Today, we share our preprint “Generative design of novel bacteriophages with genome language models”, where we validate the first, functional AI-generated genomes 🧵
September 17, 2025 at 3:03 PM
Many of the most complex and useful functions in biology emerge at the scale of whole genomes.
Today, we share our preprint “Generative design of novel bacteriophages with genome language models”, where we validate the first, functional AI-generated genomes 🧵
Today, we share our preprint “Generative design of novel bacteriophages with genome language models”, where we validate the first, functional AI-generated genomes 🧵
Reposted
New online! Viromics approaches for the study of viral diversity and ecology in microbiomes
Viromics approaches for the study of viral diversity and ecology in microbiomes
Nature Reviews Genetics, Published online: 21 July 2025; doi:10.1038/s41576-025-00871-wIn this Review, Roux and Coclet outline current viromics approaches and discuss how they have contributed to our growing understanding of viral genomic diversity, focusing on uncultivated viruses of microorganisms.
www.nature.com
July 21, 2025 at 6:34 PM
New online! Viromics approaches for the study of viral diversity and ecology in microbiomes
Reposted
Comparative benchmarking of viral phylogeography methods reveals how different models reconstruct spatial spread under varied outbreak scenarios
#Phylogeography #ViralEvolution #BioinformaticsMethods
👤EVBC: Simon Dellicour, Philippe Lemey, Sebastian Lequime
🔗
#Phylogeography #ViralEvolution #BioinformaticsMethods
👤EVBC: Simon Dellicour, Philippe Lemey, Sebastian Lequime
🔗
Comparative performance of viral landscape phylogeography approaches | PNAS
The rapid evolution of RNA viruses implies that their evolutionary and ecological processes occur on the same time scale. Genome sequences of these...
doi.org
August 22, 2025 at 5:44 AM
Comparative benchmarking of viral phylogeography methods reveals how different models reconstruct spatial spread under varied outbreak scenarios
#Phylogeography #ViralEvolution #BioinformaticsMethods
👤EVBC: Simon Dellicour, Philippe Lemey, Sebastian Lequime
🔗
#Phylogeography #ViralEvolution #BioinformaticsMethods
👤EVBC: Simon Dellicour, Philippe Lemey, Sebastian Lequime
🔗
Reposted
Recent advances in the inference of deep viral evolutionary history journals.asm.org/doi/10.1128/...
Recent advances in the inference of deep viral evolutionary history | Journal of Virology
Phylogenetic studies examining the origins, emergence, and spread of viruses have
arguably been one of the most active and successful areas of evolutionary biology
and form the bedrock of the flourish...
journals.asm.org
August 22, 2025 at 1:43 PM
Recent advances in the inference of deep viral evolutionary history journals.asm.org/doi/10.1128/...
Reposted
A mathematical theory of evolution: phylogenetic models dating back 100 years—a new #PhilTransB theme issue describes recent developments in models of #evolutionary trees and networks, and in #phylogenetic modeling for applications in biology: https://buff.ly/41r1wkR @tanjastadler.bsky.social
buff.ly
February 21, 2025 at 8:33 AM
A mathematical theory of evolution: phylogenetic models dating back 100 years—a new #PhilTransB theme issue describes recent developments in models of #evolutionary trees and networks, and in #phylogenetic modeling for applications in biology: https://buff.ly/41r1wkR @tanjastadler.bsky.social
Reposted
🚨Out now!
Genetic diversity of H9N2 avian influenza viruses across China in poultry and implications for zoonotic transmission
#MicroSky #VirusSky
www.nature.com/articles/s41...
Genetic diversity of H9N2 avian influenza viruses across China in poultry and implications for zoonotic transmission
#MicroSky #VirusSky
www.nature.com/articles/s41...
Genetic diversity of H9N2 avian influenza viruses in poultry across China and implications for zoonotic transmission - Nature Microbiology
The H9N2 avian influenza viruses (AIVs) remain dominant in live poultry markets in China, and H9N2 AIVs with HA-Q226L, PB2-V/K627 and NP-N52 mutations can be transmitted between guinea pigs and betwee...
www.nature.com
June 3, 2025 at 4:25 PM
🚨Out now!
Genetic diversity of H9N2 avian influenza viruses across China in poultry and implications for zoonotic transmission
#MicroSky #VirusSky
www.nature.com/articles/s41...
Genetic diversity of H9N2 avian influenza viruses across China in poultry and implications for zoonotic transmission
#MicroSky #VirusSky
www.nature.com/articles/s41...
Reposted
dnaudit + Pydnaweb: A lightweight text-based planning and documentation workflow for genetic cloning with automatic verification https://www.biorxiv.org/content/10.1101/2025.05.31.657172v1
June 3, 2025 at 5:47 PM
dnaudit + Pydnaweb: A lightweight text-based planning and documentation workflow for genetic cloning with automatic verification https://www.biorxiv.org/content/10.1101/2025.05.31.657172v1
Reposted
I'm thinking of organising a meeting on endogenous viral elements (RNA, DNA and retroviral) - if you'd potentially be interested, please fill out the form here - forms.gle/wrCiWMw4yXZe... - so I can gauge interest. Please RT or share with anyone maybe interested! 🧪🧬🖥️🦠 #virology #bioinformatics
EVE Meeting Expression of Interest
forms.gle
May 27, 2025 at 11:53 AM
I'm thinking of organising a meeting on endogenous viral elements (RNA, DNA and retroviral) - if you'd potentially be interested, please fill out the form here - forms.gle/wrCiWMw4yXZe... - so I can gauge interest. Please RT or share with anyone maybe interested! 🧪🧬🖥️🦠 #virology #bioinformatics
Reposted
Hidden viral players: Diversity and ecological roles of viruses in groundwater microbiomes https://www.biorxiv.org/content/10.1101/2025.05.30.656956v1
May 31, 2025 at 12:17 AM
Hidden viral players: Diversity and ecological roles of viruses in groundwater microbiomes https://www.biorxiv.org/content/10.1101/2025.05.30.656956v1
Reposted
Happy to share this interview with Weijie Zhao from NSR at #OxfordUniversityPress. It covers questions I’m often asked—why I chose Korea, AlphaFold2, my unconventional journey into academia, and research insights. Thanks again for the fun conversation.
📄 academic.oup.com/nsr/article/...
📄 academic.oup.com/nsr/article/...
New methods are revolutionizing biology: an interview with Martin Steinegger
Martin Steinegger, who is the only non-DeepMind-affiliated author of the AlphaFold2 Nature paper, offers unique insights and personal reflections.
academic.oup.com
May 19, 2025 at 12:08 PM
Happy to share this interview with Weijie Zhao from NSR at #OxfordUniversityPress. It covers questions I’m often asked—why I chose Korea, AlphaFold2, my unconventional journey into academia, and research insights. Thanks again for the fun conversation.
📄 academic.oup.com/nsr/article/...
📄 academic.oup.com/nsr/article/...
Reposted
suvtk is now available on GitHub!
github.com/LanderDC/suvtk
github.com/LanderDC/suvtk
GitHub - LanderDC/suvtk: Tool to submit viral sequences to Genbank.
Tool to submit viral sequences to Genbank. Contribute to LanderDC/suvtk development by creating an account on GitHub.
github.com
May 11, 2025 at 2:18 PM
suvtk is now available on GitHub!
github.com/LanderDC/suvtk
github.com/LanderDC/suvtk
Reposted
In our latest review, we explore 12 deep-learning tools for metagenomic analysis, covering their strengths, limitations, and key applications. We hope it serves as both a resource and inspiration for new ways to analyze metagenomic data. Great work by Eli Levy Karin!
📄 doi.org/10.1093/nsr/...
📄 doi.org/10.1093/nsr/...
February 22, 2025 at 5:47 AM
In our latest review, we explore 12 deep-learning tools for metagenomic analysis, covering their strengths, limitations, and key applications. We hope it serves as both a resource and inspiration for new ways to analyze metagenomic data. Great work by Eli Levy Karin!
📄 doi.org/10.1093/nsr/...
📄 doi.org/10.1093/nsr/...
Reposted
If an #H5N1 pandemic starts tomorrow or in three months, there will be little mystery as to how it happened. The conditions are all there. They have been for a while.
So in some ways the more interesting question to me at the moment is: Why aren’t we in a pandemic yet?
Story here, 🧵 to come:
🧪#IDSky
So in some ways the more interesting question to me at the moment is: Why aren’t we in a pandemic yet?
Story here, 🧵 to come:
🧪#IDSky
Why hasn’t the bird flu pandemic started?
Some scientists examining mutations found in H5N1 viruses fear major outbreak is imminent but others says pathogen remains unpredictable
www.science.org
December 6, 2024 at 12:54 PM
If an #H5N1 pandemic starts tomorrow or in three months, there will be little mystery as to how it happened. The conditions are all there. They have been for a while.
So in some ways the more interesting question to me at the moment is: Why aren’t we in a pandemic yet?
Story here, 🧵 to come:
🧪#IDSky
So in some ways the more interesting question to me at the moment is: Why aren’t we in a pandemic yet?
Story here, 🧵 to come:
🧪#IDSky