Adrià Auladell
@adriaula.bsky.social
Bioinformatics and marine microbial ecology. Right now focused mainly protists + metatranscriptomics! Open science. He/Him/His.
Reposted by Adrià Auladell
Looking for something new to integrate into an #evolution or #microbiology course? Useful for lectures, labs, homework?
Have a look at our STEPS program, which simulates bacterial evolution, including the #LTEE. Easy web-based interface & lab manual w/ exercises to help develop students' intuition.
Have a look at our STEPS program, which simulates bacterial evolution, including the #LTEE. Easy web-based interface & lab manual w/ exercises to help develop students' intuition.
Excited to share new #program, STEPS, which can simulate #dynamics of the E. coli Long-Term Evolution Experiment (#LTEE) or other microbes in serial transfer regime.
telliamedrevisited.wordpress.com/2025/08/12/s...
STEPS developed by @devinmlake.bsky.social, Zachary Matson, Minako Izutsu, and me.
telliamedrevisited.wordpress.com/2025/08/12/s...
STEPS developed by @devinmlake.bsky.social, Zachary Matson, Minako Izutsu, and me.
STEPS To It
Announcing a new program, called STEPS, to simulate the dynamics of evolving microbial populations.
telliamedrevisited.wordpress.com
January 20, 2026 at 4:12 PM
Looking for something new to integrate into an #evolution or #microbiology course? Useful for lectures, labs, homework?
Have a look at our STEPS program, which simulates bacterial evolution, including the #LTEE. Easy web-based interface & lab manual w/ exercises to help develop students' intuition.
Have a look at our STEPS program, which simulates bacterial evolution, including the #LTEE. Easy web-based interface & lab manual w/ exercises to help develop students' intuition.
Reposted by Adrià Auladell
We're excited to release metaTraits.embl.de! 🦠 Interactively explore 140+ 𝗺𝗶𝗰𝗿𝗼𝗯𝗶𝗮𝗹 𝗽𝗵𝗲𝗻𝗼𝘁𝘆𝗽𝗶𝗰 𝘁𝗿𝗮𝗶𝘁𝘀, harmonized & integrated from culture-derived collections 🔬 & genome-based predictions 🧬 for >2M MAGs & genomes.
Publication at NAR: doi.org/10.1093/nar/... @narjournal.bsky.social #microsky 🧵 1/8
Publication at NAR: doi.org/10.1093/nar/... @narjournal.bsky.social #microsky 🧵 1/8
December 2, 2025 at 5:52 PM
We're excited to release metaTraits.embl.de! 🦠 Interactively explore 140+ 𝗺𝗶𝗰𝗿𝗼𝗯𝗶𝗮𝗹 𝗽𝗵𝗲𝗻𝗼𝘁𝘆𝗽𝗶𝗰 𝘁𝗿𝗮𝗶𝘁𝘀, harmonized & integrated from culture-derived collections 🔬 & genome-based predictions 🧬 for >2M MAGs & genomes.
Publication at NAR: doi.org/10.1093/nar/... @narjournal.bsky.social #microsky 🧵 1/8
Publication at NAR: doi.org/10.1093/nar/... @narjournal.bsky.social #microsky 🧵 1/8
Reposted by Adrià Auladell
I woke up to some very sad news...
Peer was a giant of bioinformatics and computational biology and an inspiring mentor to everyone who had been in his group. I find myself repeating things he said all the time and will probably keep doing so for the rest of my life
www.embl.org/news/embl-an...
Peer was a giant of bioinformatics and computational biology and an inspiring mentor to everyone who had been in his group. I find myself repeating things he said all the time and will probably keep doing so for the rest of my life
www.embl.org/news/embl-an...
In remembrance of Peer Bork | EMBL
EMBL and its community are deeply saddened by the death of Peer Bork, the organisation’s Interim Director General.
www.embl.org
January 17, 2026 at 12:10 AM
I woke up to some very sad news...
Peer was a giant of bioinformatics and computational biology and an inspiring mentor to everyone who had been in his group. I find myself repeating things he said all the time and will probably keep doing so for the rest of my life
www.embl.org/news/embl-an...
Peer was a giant of bioinformatics and computational biology and an inspiring mentor to everyone who had been in his group. I find myself repeating things he said all the time and will probably keep doing so for the rest of my life
www.embl.org/news/embl-an...
Reposted by Adrià Auladell
With the release of anvi'o v9, the 300k+ contigs databases available for download on the GlobDB website are now compatible with both the development version and the latest stable release (v9) of anvi'o.
More info:
globdb.org/news
Thanks #anvio team!
🖥️🧬🦠
More info:
globdb.org/news
Thanks #anvio team!
🖥️🧬🦠
January 26, 2026 at 1:27 PM
With the release of anvi'o v9, the 300k+ contigs databases available for download on the GlobDB website are now compatible with both the development version and the latest stable release (v9) of anvi'o.
More info:
globdb.org/news
Thanks #anvio team!
🖥️🧬🦠
More info:
globdb.org/news
Thanks #anvio team!
🖥️🧬🦠
amazing work!
Models and co-culture experiments assess four mechanisms of phytoplankton–bacteria interactions www.nature.com/articles/s41...
Models and co-culture experiments assess four mechanisms of phytoplankton–bacteria interactions - Nature Microbiology
Mathematical representations of overflow metabolism, mixotrophy, exoenzymes and reactive oxygen species detoxification recapitulate dynamics in co-cultures of Prochlorococcus and eight heterotrophic b...
www.nature.com
January 23, 2026 at 5:40 PM
amazing work!
Reposted by Adrià Auladell
Excited to see this published! A big part of why SAR11 is so tricky to grow like "normal" microbes.
January 22, 2026 at 4:05 PM
Excited to see this published! A big part of why SAR11 is so tricky to grow like "normal" microbes.
Reposted by Adrià Auladell
How did eukaryotic cells with complex architecture evolve from simpler prokaryotic cells? DNA analyses offer possible answers
go.nature.com/4sEMwLH
go.nature.com/4sEMwLH
Genomic clues to the origin of eukaryotic cells
How did eukaryotic cells with complex architecture evolve from simpler prokaryotic cells? DNA analyses offer possible answers.
go.nature.com
January 14, 2026 at 4:51 PM
How did eukaryotic cells with complex architecture evolve from simpler prokaryotic cells? DNA analyses offer possible answers
go.nature.com/4sEMwLH
go.nature.com/4sEMwLH
Reposted by Adrià Auladell
I just finished a three-year term as an editor at an international relations journal. I began at the start of the LLM era but ended right in the middle of it. Our volume of submissions tripled and our desk reject rate rose to 75%. I have some thoughts.
open.substack.com/pub/hegemon/...
open.substack.com/pub/hegemon/...
The Age of Academic Slop is Upon Us
what happens when AI automates "normal science"?
open.substack.com
January 13, 2026 at 3:38 PM
I just finished a three-year term as an editor at an international relations journal. I began at the start of the LLM era but ended right in the middle of it. Our volume of submissions tripled and our desk reject rate rose to 75%. I have some thoughts.
open.substack.com/pub/hegemon/...
open.substack.com/pub/hegemon/...
damnnnnnn
Want to get the data out of a PDF figure? As in, the actual data – not a rough trace-along-the-lines version?
I made an app you might like: adamkucharski.github.io/pdf2plot/
It all started a few years ago... 🧵
I made an app you might like: adamkucharski.github.io/pdf2plot/
It all started a few years ago... 🧵
January 14, 2026 at 10:02 AM
damnnnnnn
Reposted by Adrià Auladell
It's that time of year again! I'm looking for suggestions of 'emerging' model organisms for my #CellBio course's final proj:
Organism nomination form here (links to blog on proj info): forms.office.com/r/v8zYgqVe8W
#cellbiology #biology #academicsky #microsky #archaeasky #protistsonsky 🧪 (1/n)
Organism nomination form here (links to blog on proj info): forms.office.com/r/v8zYgqVe8W
#cellbiology #biology #academicsky #microsky #archaeasky #protistsonsky 🧪 (1/n)
January 11, 2026 at 5:36 PM
It's that time of year again! I'm looking for suggestions of 'emerging' model organisms for my #CellBio course's final proj:
Organism nomination form here (links to blog on proj info): forms.office.com/r/v8zYgqVe8W
#cellbiology #biology #academicsky #microsky #archaeasky #protistsonsky 🧪 (1/n)
Organism nomination form here (links to blog on proj info): forms.office.com/r/v8zYgqVe8W
#cellbiology #biology #academicsky #microsky #archaeasky #protistsonsky 🧪 (1/n)
Reposted by Adrià Auladell
January 13, 2026 at 8:31 AM
Reposted by Adrià Auladell
Thought I would share an SEM image of a Meringosphaera I picked at Klubban (West Coast of Sweden) for my first post on Bluesky :) #protistsonsky
January 8, 2026 at 1:33 PM
Thought I would share an SEM image of a Meringosphaera I picked at Klubban (West Coast of Sweden) for my first post on Bluesky :) #protistsonsky
Reposted by Adrià Auladell
New preprint out! Using ~75k environmental OTUs + 77 fossil calibrations, we reconstructed a Proterozoic timeline of eukaryote evolution. Our results show crown eukaryotes were already diversifying >1.6 Ga, long before the first undisputed fossils (~1.05 Ga).
🔗 DOI: www.biorxiv.org/content/10.6...
🔗 DOI: www.biorxiv.org/content/10.6...
December 15, 2025 at 8:19 AM
New preprint out! Using ~75k environmental OTUs + 77 fossil calibrations, we reconstructed a Proterozoic timeline of eukaryote evolution. Our results show crown eukaryotes were already diversifying >1.6 Ga, long before the first undisputed fossils (~1.05 Ga).
🔗 DOI: www.biorxiv.org/content/10.6...
🔗 DOI: www.biorxiv.org/content/10.6...
Reposted by Adrià Auladell
New paper up - inspired by the periodic table of the elements, we attempted to organize bacterial diversity in genome-inferred trait space academic.oup.com/ismej/advanc...
Constructing a “periodic table” of bacteria to map diversity in trait space
Abstract. Despite an ever-expanding number of bacterial taxa being discovered, many of these taxa remain uncharacterized with unknown traits and environmen
academic.oup.com
January 6, 2026 at 7:31 PM
New paper up - inspired by the periodic table of the elements, we attempted to organize bacterial diversity in genome-inferred trait space academic.oup.com/ismej/advanc...
Reposted by Adrià Auladell
🖥🧬🦠
💾 Shovill 1.4.1 has been released!
The best way to de novo assemble microbial genomes from Illumina FASTQ.
Major fixes to the SKESA module, plasmid mode for the Spades module, and more error checking.
#bioinformatiocs #genomics #microbiology
github.com/tseemann/sho...
The best way to de novo assemble microbial genomes from Illumina FASTQ.
Major fixes to the SKESA module, plasmid mode for the Spades module, and more error checking.
#bioinformatiocs #genomics #microbiology
github.com/tseemann/sho...
Releases · tseemann/shovill
⚡♠️ Assemble bacterial isolate genomes from Illumina paired-end reads - tseemann/shovill
github.com
December 20, 2025 at 10:16 PM
🖥🧬🦠
Reposted by Adrià Auladell
🚀 New in @natmicrobiol.nature.com
EMCG — droplet-based single-particle genomics method 🧬⚠️Sequencing marine microbes one by one — in nL of seawater!
Ultra-high resolution — no culture, no bulk averaging. A new way to see the invisible 🫥 🌊 rdcu.be/eOsUF #protistsonsky @bigelowlab.bsky.social
EMCG — droplet-based single-particle genomics method 🧬⚠️Sequencing marine microbes one by one — in nL of seawater!
Ultra-high resolution — no culture, no bulk averaging. A new way to see the invisible 🫥 🌊 rdcu.be/eOsUF #protistsonsky @bigelowlab.bsky.social
Single-particle genomics uncovers abundant non-canonical marine viruses from nanolitre volumes
Nature Microbiology - Environmental micro-compartment genomics provides efficient and high-throughput single-particle DNA sequencing that captures overlooked members of microbial communities.
rdcu.be
November 5, 2025 at 8:34 PM
🚀 New in @natmicrobiol.nature.com
EMCG — droplet-based single-particle genomics method 🧬⚠️Sequencing marine microbes one by one — in nL of seawater!
Ultra-high resolution — no culture, no bulk averaging. A new way to see the invisible 🫥 🌊 rdcu.be/eOsUF #protistsonsky @bigelowlab.bsky.social
EMCG — droplet-based single-particle genomics method 🧬⚠️Sequencing marine microbes one by one — in nL of seawater!
Ultra-high resolution — no culture, no bulk averaging. A new way to see the invisible 🫥 🌊 rdcu.be/eOsUF #protistsonsky @bigelowlab.bsky.social
Reposted by Adrià Auladell
A Novel Protistan Trait Database Reveals Functional Redundancy and Complementarity in Terrestrial Protists(Amoebozoa and Rhizaria)
#protists #eukaryotes #amoeba
onlinelibrary.wiley.com/doi/10.1111/...
#protists #eukaryotes #amoeba
onlinelibrary.wiley.com/doi/10.1111/...
November 9, 2025 at 9:57 AM
A Novel Protistan Trait Database Reveals Functional Redundancy and Complementarity in Terrestrial Protists(Amoebozoa and Rhizaria)
#protists #eukaryotes #amoeba
onlinelibrary.wiley.com/doi/10.1111/...
#protists #eukaryotes #amoeba
onlinelibrary.wiley.com/doi/10.1111/...
Reposted by Adrià Auladell
Our new paper on what heterotrophic nanoflagellates do in nature doi.org/10.1111/1462... or www.biorxiv.org/cgi/content/.... Data available at doi.org/10.5281/zeno.... Funded by @ncn.gov.pl #ProtistsOnSky
High‐Temporal Resolution of Microbial Food Web Dynamics and Structure During Phytoplankton Blooms in the Baltic Sea
Heterotrophic nanoflagellates are typically considered to be bacterial grazers, but some are actually omnivores and predators, both eating also other eukaryotes. Thanks to a high-frequency sampling c...
doi.org
October 31, 2025 at 7:55 PM
Our new paper on what heterotrophic nanoflagellates do in nature doi.org/10.1111/1462... or www.biorxiv.org/cgi/content/.... Data available at doi.org/10.5281/zeno.... Funded by @ncn.gov.pl #ProtistsOnSky
Reposted by Adrià Auladell
I had the honor of designing a field guide that spotlights 222 species of pollinators in Portugal. These creatures play a vital role in our ecosystems, supporting over 75% of agricultural crops. Yet, their populations are declining, a reality that makes this guide more urgent than ever.
October 28, 2025 at 11:43 AM
I had the honor of designing a field guide that spotlights 222 species of pollinators in Portugal. These creatures play a vital role in our ecosystems, supporting over 75% of agricultural crops. Yet, their populations are declining, a reality that makes this guide more urgent than ever.
Reposted by Adrià Auladell
Applications for MCSA are up 64%! 50% now come from outside the EU. Trump effect?
The European Research market just got a hell of a lot more crowded.
EU should turn on the tap
marie-sklodowska-curie-actions.ec.europa.eu/news/msca-po...
The European Research market just got a hell of a lot more crowded.
EU should turn on the tap
marie-sklodowska-curie-actions.ec.europa.eu/news/msca-po...
MSCA Postdoctoral Fellowships 2025 receives record number of 17,058 proposals
This year’s annual MSCA Postdoctoral Fellowships call has attracted considerable interest from the research community with 17,058 proposals submitted.
marie-sklodowska-curie-actions.ec.europa.eu
October 22, 2025 at 2:11 PM
Applications for MCSA are up 64%! 50% now come from outside the EU. Trump effect?
The European Research market just got a hell of a lot more crowded.
EU should turn on the tap
marie-sklodowska-curie-actions.ec.europa.eu/news/msca-po...
The European Research market just got a hell of a lot more crowded.
EU should turn on the tap
marie-sklodowska-curie-actions.ec.europa.eu/news/msca-po...
a huge effort and a huge service!
Great to see this finally published!
Metalog: curated and harmonised contextual data for global metagenomics samples
now out in @narjournal.bsky.social
academic.oup.com/nar/advance-...
Metalog: curated and harmonised contextual data for global metagenomics samples
now out in @narjournal.bsky.social
academic.oup.com/nar/advance-...
Metalog: curated and harmonised contextual data for global metagenomics samples
Abstract. Metagenomic sequencing enables the in-depth study of microbes and their functions in humans, animals, and the environment. While sequencing data
academic.oup.com
November 3, 2025 at 8:39 AM
a huge effort and a huge service!
Reposted by Adrià Auladell
Great to see this finally published!
Metalog: curated and harmonised contextual data for global metagenomics samples
now out in @narjournal.bsky.social
academic.oup.com/nar/advance-...
Metalog: curated and harmonised contextual data for global metagenomics samples
now out in @narjournal.bsky.social
academic.oup.com/nar/advance-...
Metalog: curated and harmonised contextual data for global metagenomics samples
Abstract. Metagenomic sequencing enables the in-depth study of microbes and their functions in humans, animals, and the environment. While sequencing data
academic.oup.com
October 31, 2025 at 3:16 PM
Great to see this finally published!
Metalog: curated and harmonised contextual data for global metagenomics samples
now out in @narjournal.bsky.social
academic.oup.com/nar/advance-...
Metalog: curated and harmonised contextual data for global metagenomics samples
now out in @narjournal.bsky.social
academic.oup.com/nar/advance-...
Reposted by Adrià Auladell
Maybe my favorite Food Map, ever.
April 11, 2024 at 3:13 PM
Maybe my favorite Food Map, ever.
