Daniel Tamarit
Evolutionary biologist studying archaeal and bacterial genomes | Assistant Prof @BinfUtrecht.bsky.social 🇳🇱
- Reposted by Daniel Tamarit“A process which led from the amoeba to man appeared to the philosophers to be obviously a progress - though whether the amoeba would agree with this opinion is not known" - Bertrand Russell, 1976. Time-lapse video of Vampyrella lateritia eating Spirogyra algae from Science Source/Oliver Skibbe. 🦠
- Reposted by Daniel TamaritMy lab is hiring a postdoc (ERC funded)! If you're interested, get in touch!
- Reposted by Daniel TamaritOrganelles do NOT have a single uniform pH. And if you think they must, because “protons diffuse fast,” this paper is for you. A thread on why that assumption is wrong; and what we found instead. 🧵 1/n
- Organelles harbour pH gradients biorxiv.org/content/10.64898/20…
- Reposted by Daniel TamaritAre you a long-time fan of Archaea, an extremophile-phile, or are you simply curious? Either way, we have good news. We’re delighted to announce the 2026 EMBO Workshop on Archaea, 6–10 July. Sign up: meetings.embo.org/event/26-arc... We look forward to seeing you in Cambridge, UK. Please repost!
- Reposted by Daniel TamaritWith our old friends Sergey, Luis and Guifré, we have published a minireview in @currentbiology.bsky.social about aphelids, the sister group to fungi, including why we think they are not fungi but, nevertheless, key to understand early fungal evolution. authors.elsevier.com/a/1mH793QW8S...
- Reposted by Daniel TamaritVaults. They are cell biology's greatest puzzle! This preprint from Martin Beck's lab shows them docked on ER membranes with a ribosome inside. What on earth is going on there?? #CellBiology #WTFology www.biorxiv.org/content/10.6...
- Reposted by Daniel TamaritSave the date! The next instalment of Comparative Genomics of Unicellular Eukaryotes is a GO! Join us next year for a programme of talks, posters, ECR/networking activities. Website and registration details to follow in the coming weeks. See you October 5-10 2026 in beautiful San Feliu!!
- Reposted by Daniel TamaritMicrobial eukaryotes keep challenging assumptions about eukaryotic cell and genome biology. Our upcoming workshop explores the frontier of protist genomics and how it shapes cell biology, ecology and evolution. Please save the date! Talks, posters and ECR events Websites and details coming soon
- Reposted by Daniel TamaritInterested in applying for a postdoc on wildlife #microbiomes in my lab at Uppsala University, Sweden? The local Birgitta Sintring Foundation gives out generous 2-year postdoc scholarships to early-career researchers who apply with a PI at the department. Deadline Feb 9. www.uu.se/en/departmen...
- Reposted by Daniel TamaritThe scikit-bio paper in online in Nature Methods! Many thanks to our collaborators, community contributors and reviewers! We couldn’t have done it without you. www.nature.com/articles/s41... #Bioinformatics #OpenSource
- Welcome to Bluesky, @pieterhart.bsky.social! Pieter just joined my group as a PhD student studying bacterial genome evolution—exciting years ahead! Here he is enjoying a chat about his MSc work (w/ @kassipan.bsky.social & @ettema.bsky.social) at Science4Life @utrechtuniversity.bsky.social 🧬🦠✨
- Reposted by Daniel TamaritThose interested in performing maximum likelihood phylogenomic analysis on data sets made up of eukaryotic nuclear genes using site heterogeneous mixture models like C60, I suggest you use the ELM model in IQ-TREE instead of the LG model /1
- Reposted by Daniel Tamarit🔥 A lottery-first system 🎲 makes research grants allocation cheaper, faster, and boosts funding for women, while "traditional" (patriarcal?) peer review drags everyone down. 🤔 Maybe randomness is fairer than the experts. 🔄 Time to rethink the whole game! 💣 www.nature.com/articles/s41... 🧪
- Reposted by Daniel Tamarit
- Reposted by Daniel TamaritNow out in @currentbiology.bsky.social ! Screening over a thousand fungal genomes, @jromeijn.bsky.social, Iñigo Bañales Belaunde and @mfseidl.bsky.social find that horizontal transfer shapes the fungal mobilome 🍄🔄✈️🧬 @ubc-uu.bsky.social Don't miss Josje's thread for a summary of the findings! 👇
- Reposted by Daniel TamaritOur story on the kinetochore composition of the ciliate Tetrahymena thermophila is out now on bioRxiv! We find surprisingly many orthologs of conventional kinetochore components, but also components that have very different evolutionary origins. A 🧵 (1/11) Check it out here: tinyurl.com/4ectm9x4
- Reposted by Daniel TamaritVery happy to share our recent work @cultivarium.bsky.social on genetic tools for Ideonella sakaiensis, a (Betaproteo-)bacterium that degrades PET plastic. We identified a plasmid vector for the strain and generated a large RB-TnSeq library, screening for genes impacting plastic degradation.
- Functional genomics in a microbe that degrades and metabolizes PET plastic biorxiv.org/content/10.1101/202…
- Reposted by Daniel TamaritIt’s exciting to see converging evidence across systems! 😀 Alongside the new work on gutless worms, our study shows that organosulfur cycling is also essential in lucinid holobionts. Lucinid host provides DMSP to its symbionts, sulphur-oxidising Thiodiazotropha and, a new member, Endozoicomonas.
- Reposted by Daniel TamaritMetaPointFinder: A new approach for detecting mutation-driven antimicrobial resistance directly from metagenomic reads. Fills a major gap in current resistome profiling by capturing chromosomal AMR mutations that metagenome tools miss. github.com/aldertzomer/...
- Reposted by Daniel TamaritExtensive horizontal transfer of transposable elements shapes fungal mobilomes @currentbiology.bsky.social by @jromeijn.bsky.social et al from @mfseidl.bsky.social www.cell.com/current-biol...
- Reposted by Daniel TamaritOne more week to apply to this PhD position on working out an endosymbiosis relationship in a protist. Please share widely to prospective PhD student #protistsonsky
- We are looking for a PhD student to work on an exciting plastid endosymbiosis in microbial eukaryotes. This position involves sampling, exciting microscopy such as CARDFISH, ExM and FIBSEM, single-cell transcriptomics and more. #protistsonsky 1/2
- Reposted by Daniel TamaritCome join us! Soon I will be advertising a postdoc vacancy in my group as part of my @erc.europa.eu AdG project 'DARK ROOTS'. Focus of the project will be on phylo- and metagenomic mining of novel prokaryotic lineages. I will soon post a link here - stay tuned, and please repost! #asgardarchaea
- Reposted by Daniel Tamarit📢 Interested in #chromosomes 🧬 & #archaea thriving at the edge of life? PhD project in York,UK on how archaea pass on their genome to daughter cells.Friendly supervisors: me, @steve-quinn-lab.bsky.social & @georgerheath.bsky.social www.findaphd.com/phds/project... 📅 January 7, 2026 Please RP🙏thx!
- Reposted by Daniel Tamarit🧬 Registration is open for the Phylogenomics Workshop in Český Krumlov! Fantastic training opportunity for anyone working with genomic data and evolutionary questions. Highly recommended - amazing course, great community, and a fantastic setting!
- The 2026 Workshop on Phylogenomics will take place between the 25th of January and 7th of February, in Cesky Krumlov, Czechia. 🧬🌳 Applications are now open! Deadline: 15th of November, 2025. Do not miss the chance to attend! Spread the word among colleagues! 🤗 evomics.org/apply-worksh...
- Reposted by Daniel TamaritDelighted to be awarded NWO VIDI grant! We will study how microbes shape root cells to enhance plant stress resilience - so exciting!!!! www.nwo.nl/en/news/149-... Fantastic to see several plant projects granted🌽🌱
- Reposted by Daniel TamaritIncredibly exited to see @dorotakawa.bsky.social be awarded the "Dutch starting grant" (VIDI)! 🎉 And what a cohort, so many plant biologists awarded! Including @andrekuhn.bsky.social @charlieunderwood.bsky.social @kinpanchung.bsky.social - what a boost to the community and exciting science planned!
- Delighted to be awarded NWO VIDI grant! We will study how microbes shape root cells to enhance plant stress resilience - so exciting!!!! www.nwo.nl/en/news/149-... Fantastic to see several plant projects granted🌽🌱
- Reposted by Daniel TamaritThe mystery deepens: how did all complex life on Earth originate? In this intriguing VPRO Tegenlicht episode (in Dutch), PhD student Max Raas from the @kopslab.bsky.social talks about his collaboration with Berend Snel. They study the evolution of cell division machinery in single-celled organisms.
- Reposted by Daniel TamaritOur review is out in Nature Reviews Genetics! rdcu.be/d5AY2 We show how phylogeny-based methods can resolve the problem of non-independence in genomic datasets. These methods must be considered an essential part of the comparative genomics toolkit. @lauriebelch.bsky.social @stuwest.bsky.social
- Reposted by Daniel TamaritS. Braichenko, @ruiborges23.bsky.social and C. Kosiol publish a new GBE Perspective on the potential applications of deep learning approaches in phylogenetics. 🔗 doi.org/10.1093/gbe/evaf177 #genome #evolution #phylogenetics
- Reposted by Daniel Tamarit📢 We have an open position for a postdoc to join my lab. It's a great position @animecol-uu.bsky.social, fully salaried for 2.5 years with all benefits. www.uu.se/en/about-uu/... The project is about transmission patterns of bacteria and antimicrobial resistance (AMR) in aquatic insects. 🧬🦠 (1/3)
- Reposted by Daniel TamaritGlad to share our paper out today @NatureEcoEvo: “Serial innovations by Asgard archaea shaped the DNA replication machinery of the early eukaryotic ancestor”. www.nature.com/articles/s41... #microsky #archaeasky
- This is a beautiful study. Congrats Jose and all authors!
- One of the most exciting works of my career, years in the making. We used high-throughput precision genome editing to test the fitness effects of thousands of natural variants. Our findings challenge the long-held assumption that common variants are inconsequential. www.biorxiv.org/content/10.1...
- Exultant to have been awarded a Vidi grant by the Dutch Research Council (NWO)! Can't wait to get started! Stay tuned for two upcoming (PhD student & postdoc) positions to study archaeal genome evolution. Also huge congrats to my colleague @dorotakawa.bsky.social! www.uu.nl/en/news/21-v...
- Reposted by Daniel TamaritScientists need more time to think and so do I. So do you. Emails and messaging are the OG brainrot, and scrolling makes it so much worse. I've spent a lot of coaching time with clients on creating more distance from their phone, literally and figuratively. Much benefit.
- Reposted by Daniel TamaritEdgeHOG reconstructs ancestral gene order at Tree-of-Life scale in linear time. 2,845 genomes → 1,133 ancestors. Vontigs for LECA (~1.8 Ga). Also dates gene adjacencies & rearrangements. Sexual chroms stand out! Led by Charles Bernard (research.pasteur.fr/fr/member/ch...) doi.org/10.1038/s415...
- Reposted by Daniel TamaritTesting the "least-diverged ortholog” conjecture on >1M structs + expression across 16 animals & 20 plants, the LDO tends to retain ancestral function while the other copy specialises. Work led by @irenejulca.bsky.social. Paper: doi.org/10.1101/gr.2... Free preprint: www.biorxiv.org/content/10.1...
- Reposted by Daniel TamaritStructure-informed phylogenetic inference with FoldTree outperforms sequence-only trees on divergent proteins, and untangles RRNPPA quorum-sensing receptors across Gram-positive bacteria & phages. Work led by David Moi (www.linkedin.com/in/david-moi) Paper: doi.org/10.1038/s415...
- Reposted by Daniel TamaritOur @narjournal.bsky.social manuscript is out! It explores the growth of the GTDB (gtdb.ecogenomic.org) since its inception, as well as updates to the website, methodology, policies, and major taxonomic and nomenclatural changes over the past three years. academic.oup.com/nar/advance-...
- Reposted by Daniel TamaritOne of the most exciting works of my career, years in the making. We used high-throughput precision genome editing to test the fitness effects of thousands of natural variants. Our findings challenge the long-held assumption that common variants are inconsequential. www.biorxiv.org/content/10.1...
- Reposted by Daniel TamaritFeaturing Paulien Hogeweg (2nd from the right), founder and lifelong colleague at @binfutrecht.bsky.social @utrechtuniversity.bsky.social Very well deserved, Paulien!
- Reposted by Daniel TamaritA fun little side project I've been working on with @stepadenisov.bsky.social , Mato Lagator, and Andreas Wagner: "Strong promoters are mutationally robust". Briefly... www.biorxiv.org/content/10.1...
- Reposted by Daniel TamaritLunch today halfway around the world in Hangzhou and met a new asst professor who was very thankful for this resource. Please help out folks like them and other early career scientists with examples of job apps. Submit yours! github.com/RILAB/statem...
- Reposted by Daniel TamaritJOB ALERT! We are looking for a LAB MANAGER (7-year position!) to help us build the MOLECULAR BIODIVERSITY lab in our @terra-cluster.org at @unituebingen.bsky.social. Are you a NGS wet lab expert, and you like the idea of supporting research on natural biodiversity, then apply! Please re-post!
- Reposted by Daniel TamaritHot off the press! Our latest work on the evolution of facultative symbiosis in stony corals, focusing on a remarkable Mediterranean species: Oculina patagonica. 🪸 🌊 #evobio #corals #coralbiology www.nature.com/articles/s41...
- Reposted by Daniel TamaritHello everyone, take a look at my cool bugs from the Microbial Dark Matter phylum Saccharibacteria! These ultrasmall bacteria (in green) track down Actinobacteria hosts (not in green) and grow on the host cell envelope.
- For the first time, scientists have performed targeted mutations on an episymbiosis-determining pathway. In a new study on Saccharibacteria, AFI researchers used advanced techniques to observe pili that drive motility and host attachment. @batbilegbor.bsky.social forsyth.org/saccharibact...
- Reposted by Daniel TamaritWe are happy to share our latest work in @nature.com . We study the genomic and cellular basis of facultative symbiosis in Oculina patagonica - a Mediterranean coral remarkable for its ability to survive long periods without algal symbionts. Led by Shani Levy and @xgrau.bsky.social rdcu.be/eLbaZ
- Reposted by Daniel TamaritExcited to share our new work on nanopore metabarcoding — showing how it can be used for protists and combined with short reads! Led by my PhD student Małgorzata Chwalińska, with our team at @ibe-warszawa.bsky.social and @fabnot.bsky.social & Sarah Romac at @sbroscoff.bsky.social #ProtistsOnSky
- "Want to start using Nanopore technology to research protistan diversity? Check out our paper introducing a pipeline for creating OTUs from Nanopore metabarcodes — bridging the gap between short- and long-read metabarcoding." - Anna Karnkowska doi.org/10.3897/mbmg...
- Reposted by Daniel TamaritPretty excited to share our new preprint! Non-photosynthetic Plastid Replacement by a Primary Plastid in the Making www.biorxiv.org/content/10.1...
- Reposted by Daniel TamaritMEEhubs is back in 2026, a highly recommended conference to follow online without a need to travel. I really enjoyed the talks during previous meetings, stayed awake for some talk until midnight (even with recorded talk) it will be 3-5 August 2026, middle of vacation time in Europe 😭
- We’re back! ✨ The next #MeeHubs26 is coming with 7 hubs across the globe and incredible lineups at each. Can’t wait to share more soon! meehubs.org
- Reposted by Daniel TamaritVery nice documentary about the origins of complex life with my PhD advisor Berend Snel @binfutrecht.bsky.social!
- Reposted by Daniel TamaritYesterday, members of the Westerdijk Institute joined the BioSB HotTopics & NIME Symposium: Microbial Ecology, held right here at Utrecht Science Park Our researchers showcased the exciting breadth of microbial ecology studied at the institute:
- Yesterday the @biosb.bsky.social and Netherlands Integrative Microbial Ecology initiative organised a symposium on #MicrobialEcology. We hosted 80+ researchers, with 10 talks and 10 posters at @utrechtuniversity.bsky.social. A beautiful chance to hear more about exciting research across the country!
- Reposted by Daniel Tamarit🎙️ Ja podeu escoltar l’entrevista a @julipereto.bsky.social, investigador del #I2SysBio, en «L’Hora de la Cultura» d'@apuntmedia.es. Peretó presenta la investigació publicada a la revista Philosophical Transactions, signada juntament amb @pablocarb.bsky.social. www.apuntmedia.es/programes/l-...
- Reposted by Daniel TamaritTo save people the reading time: the "some" making this prediction are people who don't understand the limits of current LLM technology and the ones questioning it are people who do. It is, yet again, a "both sides" article where one side has no fucking idea what they're talking about.
- Researchers question whether autonomous AI scientists are possible or even desirable. Read the full story: www.nature.com/articles/d41...
