Dominik Lücking
@dominikluecking.bsky.social
GVs, Phages, MGEs and Bioinf :)
Reposted by Dominik Lücking
In capitalism, we cannot expect companies to do anything else than maximise profits. Doing so is not only naive but harmful
For-profit journals are supposed to improve research quality, yet they're perversely incentivized to churn out whatever they can monetize. This was happening before AI (see Strain: bit.ly/43gJPUM), and AI will make it worse.
It's insane that we volunteer our time to help them do so.
4/n
It's insane that we volunteer our time to help them do so.
4/n
November 12, 2025 at 8:45 AM
In capitalism, we cannot expect companies to do anything else than maximise profits. Doing so is not only naive but harmful
Reposted by Dominik Lücking
I think you're thinking of these! graphics.wsj.com/infectious-d...
Battling Infectious Diseases in the 20th Century: The Impact of Vaccines
The number of infected people, measured over 70-some years and across all 50 states and the District of Columbia, generally declined after vaccines were introduced.
graphics.wsj.com
November 10, 2025 at 12:09 PM
I think you're thinking of these! graphics.wsj.com/infectious-d...
I'm looking for a specific figure I saw on bsky recently on here: It was a heatmap-like plot showing the effectiveness of vaccines. X axis was time, Y axis was different viruses / diseases and you could easily see how each of them disappeared after a vaccine was developed. Any ideas?
November 10, 2025 at 10:34 AM
I'm looking for a specific figure I saw on bsky recently on here: It was a heatmap-like plot showing the effectiveness of vaccines. X axis was time, Y axis was different viruses / diseases and you could easily see how each of them disappeared after a vaccine was developed. Any ideas?
Reposted by Dominik Lücking
After 5 years of waiting, the new #CRISPR classification by Makarova et al. is out @natmicrobiol.nature.com www.nature.com/articles/s41...
An updated evolutionary classification of CRISPR–Cas systems including rare variants - Nature Microbiology
An exploration of previously undescribed variants from the long tail of the CRISPR–Cas distribution.
www.nature.com
November 6, 2025 at 1:49 PM
After 5 years of waiting, the new #CRISPR classification by Makarova et al. is out @natmicrobiol.nature.com www.nature.com/articles/s41...
Reposted by Dominik Lücking
The average nucleotide identity (ANI) underpins how we map microbial diversity, compare species, and connect genomes to ecology.
I wrote a short piece reflecting on the discovery and significance of this metric (and really enjoyed digging into the context and story behind it!) #microsky 🧬
I wrote a short piece reflecting on the discovery and significance of this metric (and really enjoyed digging into the context and story behind it!) #microsky 🧬
Average nucleotide identity — the backbone of modern ecological genomics - Nature Reviews Genetics
In this Journal Club, Luis Orellana recalls a 2005 publication by Konstantinidis and Tiedje that introduced average nucleotide identity as a sequence-based metric to determine the relatedness between ...
www.nature.com
October 30, 2025 at 9:11 PM
The average nucleotide identity (ANI) underpins how we map microbial diversity, compare species, and connect genomes to ecology.
I wrote a short piece reflecting on the discovery and significance of this metric (and really enjoyed digging into the context and story behind it!) #microsky 🧬
I wrote a short piece reflecting on the discovery and significance of this metric (and really enjoyed digging into the context and story behind it!) #microsky 🧬
Reposted by Dominik Lücking
Congratulations @lqueiss.bsky.social 👏🎉😀
Lauren won the Best Poster Award at the Women in Electron Microscopy (#WeM) – Exchange and Networking event @fz-juelich.de
Pic: FZJülich/Kurt Steinhausen
www.mpi-bremen.de/en/Lauren-Qu...
#WomeninSTEM #marinescience #MachMINT @maxplanck.de #FemaleScience
Lauren won the Best Poster Award at the Women in Electron Microscopy (#WeM) – Exchange and Networking event @fz-juelich.de
Pic: FZJülich/Kurt Steinhausen
www.mpi-bremen.de/en/Lauren-Qu...
#WomeninSTEM #marinescience #MachMINT @maxplanck.de #FemaleScience
October 27, 2025 at 7:59 AM
Congratulations @lqueiss.bsky.social 👏🎉😀
Lauren won the Best Poster Award at the Women in Electron Microscopy (#WeM) – Exchange and Networking event @fz-juelich.de
Pic: FZJülich/Kurt Steinhausen
www.mpi-bremen.de/en/Lauren-Qu...
#WomeninSTEM #marinescience #MachMINT @maxplanck.de #FemaleScience
Lauren won the Best Poster Award at the Women in Electron Microscopy (#WeM) – Exchange and Networking event @fz-juelich.de
Pic: FZJülich/Kurt Steinhausen
www.mpi-bremen.de/en/Lauren-Qu...
#WomeninSTEM #marinescience #MachMINT @maxplanck.de #FemaleScience
Reposted by Dominik Lücking
Just published an interactive article about a magical algorithm known as the Burrows-Wheeler Transform, which powers sequence alignment tools like bowtie and bwa: sandbox.bio/concepts/bwt
It's also notoriously unintuitive so I'm hoping this article helps you build that intuition.
It's also notoriously unintuitive so I'm hoping this article helps you build that intuition.
October 9, 2025 at 5:05 PM
Just published an interactive article about a magical algorithm known as the Burrows-Wheeler Transform, which powers sequence alignment tools like bowtie and bwa: sandbox.bio/concepts/bwt
It's also notoriously unintuitive so I'm hoping this article helps you build that intuition.
It's also notoriously unintuitive so I'm hoping this article helps you build that intuition.
Reposted by Dominik Lücking
Proud moment to see the first Master student of the team (Lotte Mayer) successfully defend her Master's thesis work digging into viral factories of #giantViruses.
A link to part of her work:
doi.org/10.1101/2025...
@erc.europa.eu @univie.ac.at @cemess.bsky.social @dome-vienna.bsky.social
A link to part of her work:
doi.org/10.1101/2025...
@erc.europa.eu @univie.ac.at @cemess.bsky.social @dome-vienna.bsky.social
September 9, 2025 at 3:11 PM
Proud moment to see the first Master student of the team (Lotte Mayer) successfully defend her Master's thesis work digging into viral factories of #giantViruses.
A link to part of her work:
doi.org/10.1101/2025...
@erc.europa.eu @univie.ac.at @cemess.bsky.social @dome-vienna.bsky.social
A link to part of her work:
doi.org/10.1101/2025...
@erc.europa.eu @univie.ac.at @cemess.bsky.social @dome-vienna.bsky.social
Reposted by Dominik Lücking
Last week #ESEB2025 wrapped up. It was a great opportunity to chat with colleagues, hear about great evolutionary research, present the group's work, and be a proud PI of Laura, who did a great job presenting her PhD work! Two years to go until next ESEB!
@eseb2025.bsky.social
@eseb2025.bsky.social
August 26, 2025 at 8:56 PM
Last week #ESEB2025 wrapped up. It was a great opportunity to chat with colleagues, hear about great evolutionary research, present the group's work, and be a proud PI of Laura, who did a great job presenting her PhD work! Two years to go until next ESEB!
@eseb2025.bsky.social
@eseb2025.bsky.social
Reposted by Dominik Lücking
A really great review written by @simrouxvirus.bsky.social and Clement Coclet on the state of the field of viromics and viral ecology. Well worth a look, and provides a solid reading list for those entering the field wanting more background on how it has developed and what tools are available.
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 22, 2025 at 11:08 AM
A really great review written by @simrouxvirus.bsky.social and Clement Coclet on the state of the field of viromics and viral ecology. Well worth a look, and provides a solid reading list for those entering the field wanting more background on how it has developed and what tools are available.
Reposted by Dominik Lücking
I'm happy to announce the latest release of the GlobDB, available at globdb.org.
The GlobDB is a database of "species dereplicated" microbial genomes, and as of release 226 contains twice the number of species-representative genomes (306,260) than the latest GTDB release.
The GlobDB is a database of "species dereplicated" microbial genomes, and as of release 226 contains twice the number of species-representative genomes (306,260) than the latest GTDB release.
home | GlobDB
globdb.org
June 10, 2025 at 11:20 AM
I'm happy to announce the latest release of the GlobDB, available at globdb.org.
The GlobDB is a database of "species dereplicated" microbial genomes, and as of release 226 contains twice the number of species-representative genomes (306,260) than the latest GTDB release.
The GlobDB is a database of "species dereplicated" microbial genomes, and as of release 226 contains twice the number of species-representative genomes (306,260) than the latest GTDB release.
Reposted by Dominik Lücking
New work out!
Spearheaded by Lotte, we have developed a single-molecule messenger RNA fluorescence in situ hybridisation (smFISH) protocol for #giantViruses in an #Acanthamoeba host.
doi.org/10.1101/2025...
1/4
#ProtistsOnSky #MicroSky @dome-vienna.bsky.social @cemess.bsky.social @erc.europa.eu
Spearheaded by Lotte, we have developed a single-molecule messenger RNA fluorescence in situ hybridisation (smFISH) protocol for #giantViruses in an #Acanthamoeba host.
doi.org/10.1101/2025...
1/4
#ProtistsOnSky #MicroSky @dome-vienna.bsky.social @cemess.bsky.social @erc.europa.eu
May 8, 2025 at 11:35 AM
New work out!
Spearheaded by Lotte, we have developed a single-molecule messenger RNA fluorescence in situ hybridisation (smFISH) protocol for #giantViruses in an #Acanthamoeba host.
doi.org/10.1101/2025...
1/4
#ProtistsOnSky #MicroSky @dome-vienna.bsky.social @cemess.bsky.social @erc.europa.eu
Spearheaded by Lotte, we have developed a single-molecule messenger RNA fluorescence in situ hybridisation (smFISH) protocol for #giantViruses in an #Acanthamoeba host.
doi.org/10.1101/2025...
1/4
#ProtistsOnSky #MicroSky @dome-vienna.bsky.social @cemess.bsky.social @erc.europa.eu
Reposted by Dominik Lücking
Our new study in @naturecomms.bsky.social showing the recurrent assembly of microbial modules over polar day and night, based on four years of autonomous sampling in the Arctic www.nature.com/articles/s41...
Fantastic teamwork by #AWI @mpimarinemicrobio.bsky.social @hhu.bsky.social & many others 🙂
Fantastic teamwork by #AWI @mpimarinemicrobio.bsky.social @hhu.bsky.social & many others 🙂
February 4, 2025 at 5:02 PM
Our new study in @naturecomms.bsky.social showing the recurrent assembly of microbial modules over polar day and night, based on four years of autonomous sampling in the Arctic www.nature.com/articles/s41...
Fantastic teamwork by #AWI @mpimarinemicrobio.bsky.social @hhu.bsky.social & many others 🙂
Fantastic teamwork by #AWI @mpimarinemicrobio.bsky.social @hhu.bsky.social & many others 🙂
Reposted by Dominik Lücking
🚨 🌟 Submissions & Registrations Open for #ViBioM2025! 🌟 🚨
Join us 13–15 May 2025 in Lisbon, Portugal! 🦠💻 Present your research, connect with global experts, and shape the future of #Virology & #Bioinformatics.
📅 Details & links: evbc.uni-jena.de/events/vibio...
Join us 13–15 May 2025 in Lisbon, Portugal! 🦠💻 Present your research, connect with global experts, and shape the future of #Virology & #Bioinformatics.
📅 Details & links: evbc.uni-jena.de/events/vibio...
January 19, 2025 at 6:05 PM
🚨 🌟 Submissions & Registrations Open for #ViBioM2025! 🌟 🚨
Join us 13–15 May 2025 in Lisbon, Portugal! 🦠💻 Present your research, connect with global experts, and shape the future of #Virology & #Bioinformatics.
📅 Details & links: evbc.uni-jena.de/events/vibio...
Join us 13–15 May 2025 in Lisbon, Portugal! 🦠💻 Present your research, connect with global experts, and shape the future of #Virology & #Bioinformatics.
📅 Details & links: evbc.uni-jena.de/events/vibio...
Reposted by Dominik Lücking
What is the diversity of antiphage systems out there ?
We used protein and genomic language models (and defense score!) to start bringing some answers: >45 000 protein families.
Leb by E. Mordret.
www.biorxiv.org/content/10.1...
Interactive UMAP to have fun
mdmparis.github.io/antiphage-la...
We used protein and genomic language models (and defense score!) to start bringing some answers: >45 000 protein families.
Leb by E. Mordret.
www.biorxiv.org/content/10.1...
Interactive UMAP to have fun
mdmparis.github.io/antiphage-la...
January 9, 2025 at 1:18 PM
What is the diversity of antiphage systems out there ?
We used protein and genomic language models (and defense score!) to start bringing some answers: >45 000 protein families.
Leb by E. Mordret.
www.biorxiv.org/content/10.1...
Interactive UMAP to have fun
mdmparis.github.io/antiphage-la...
We used protein and genomic language models (and defense score!) to start bringing some answers: >45 000 protein families.
Leb by E. Mordret.
www.biorxiv.org/content/10.1...
Interactive UMAP to have fun
mdmparis.github.io/antiphage-la...
Reposted by Dominik Lücking
We are very happy to announce a free-to-attend #anvio workshop and ECR symposium in Oldenburg to discuss integrated microbial 'omics and learn applications of anvi'o.
More information and application link (application deadline is Jan 10): anvio.org/workshops/20...
Please apply and/or circulate 😇
More information and application link (application deadline is Jan 10): anvio.org/workshops/20...
Please apply and/or circulate 😇
December 16, 2024 at 10:38 AM
We are very happy to announce a free-to-attend #anvio workshop and ECR symposium in Oldenburg to discuss integrated microbial 'omics and learn applications of anvi'o.
More information and application link (application deadline is Jan 10): anvio.org/workshops/20...
Please apply and/or circulate 😇
More information and application link (application deadline is Jan 10): anvio.org/workshops/20...
Please apply and/or circulate 😇
Reposted by Dominik Lücking
🚨 Save the Date! 🚨
We're excited to announce #ViBioM2025, the International Virus Bioinformatics Meeting, happening 13–15 May 2025 in Lisbon, Portugal! 🦠💻
Stay tuned for further details: evbc.uni-jena.de/vibiom2025/
#VirusBioinformatics
We're excited to announce #ViBioM2025, the International Virus Bioinformatics Meeting, happening 13–15 May 2025 in Lisbon, Portugal! 🦠💻
Stay tuned for further details: evbc.uni-jena.de/vibiom2025/
#VirusBioinformatics
December 3, 2024 at 10:14 AM
🚨 Save the Date! 🚨
We're excited to announce #ViBioM2025, the International Virus Bioinformatics Meeting, happening 13–15 May 2025 in Lisbon, Portugal! 🦠💻
Stay tuned for further details: evbc.uni-jena.de/vibiom2025/
#VirusBioinformatics
We're excited to announce #ViBioM2025, the International Virus Bioinformatics Meeting, happening 13–15 May 2025 in Lisbon, Portugal! 🦠💻
Stay tuned for further details: evbc.uni-jena.de/vibiom2025/
#VirusBioinformatics
Reposted by Dominik Lücking
Congratulations @dominikluecking.bsky.social for successfully defending his #PhD thesis on "Mechanisms of genetic transfer between archaea and bacteria via membrane vesicles, plasmid vesicles and viruses"!! 🎓🎉
www.mpi-bremen.de/en/Max-Planc...
www.mpi-bremen.de/en/Max-Planc...
February 5, 2024 at 6:39 AM
Congratulations @dominikluecking.bsky.social for successfully defending his #PhD thesis on "Mechanisms of genetic transfer between archaea and bacteria via membrane vesicles, plasmid vesicles and viruses"!! 🎓🎉
www.mpi-bremen.de/en/Max-Planc...
www.mpi-bremen.de/en/Max-Planc...