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Daniela Barillà

@danielabarilla.bsky.social
1.3K followers 1.1K following 304 posts

Microbial geneticist interested in large and small DNA 🧬 rings in bacteria and archaea. Living in Brontë country and based at the University of Old York. barillalabyork.weebly.com

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Reposted by Daniela Barillà
The Guardian @theguardian.com · 1h
No 10 gathering evidence on public support for rejoining the EU
theguardian.com
No 10 gathering evidence on public support for rejoining the EU
Senior Downing Street officials reach out to thinktanks and pollsters as they look to test backing for reversing Brexit Senior Downing Street officials have been reaching out to thinktanks and pollsters as they look to test public support for the UK rejoining the EU. Aides to Andy Burnham have been talking to EU experts in a range of organisations about how the public would view a promise to rejoin, as momentum builds behind including such a pledge in the next Labour manifesto. Continue reading...
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Cameron Thrash @jcamthrash.bsky.social · 4h
Dynamic protrusions mediate crawling motility in Asgard archaea www.nature.com/articles/s41... #jcampubs
nature.com
Dynamic protrusions mediate crawling motility in Asgard archaea - Nature
Anoxic live-cell imaging shows actin-dependent crawling motility and dynamic protrusions in Asgard archaea, providing insights into cellular innovations that may have contributed to eukaryotic evoluti...
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Reposted by Daniela Barillà
Svetlana Dodonova @dodonova-sveta.bsky.social · 8h
New preprint from Dodonova lab 🔔! Capturing multiple states by cryo-EM❄️, we show for the first time how archaeal RNA Polymerase engages a nucleosome and forms direct contacts with histones! 🧬 Great work by Gabriele & a fantastic collaboration with Dina Grohmann! 🧵 www.biorxiv.org/content/10.6...
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Reposted by Daniela Barillà
European Research Council (ERC) @erc.europa.eu · 29/09/2026
Research evaluation faces growing pressure: demand for competitive research funding is rising, while AI is rapidly changing how proposals can be written and assessed. In this context, the ERC & Science Europe had a workshop with research funding and performing organisations from 5 continents.
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Adam Golberg @cash4questions.bsky.social · 28/09/2026
Good summary article on mis/use of AI in research grant assessment from Research Agenda, a new venture from the WonkHe team. Bonus points for "Reviewer 2.0" headline... www.researchagenda.news/articles/rev...
researchagenda.news
Reviewer 2.0
To misquote Douglas Hofstadter: the backlash against AI in the research system will be bigger than you’re expecting, even once you take into account that it…
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Reposted by Daniela Barillà
Dina Grohmann @curiousdina.bsky.social · 28/09/2026
🌙 Bringing Archaea to moon! Our latest study with the Orsi lab shows that M. okinawensis can survive, perform methanogenesis, and grow under simulated Enceladus conditions. Yet another reminder of how astonishingly adaptable Archaea are. www.science.org/doi/10.1126/...
science.org
Enceladus-like geochemistry fuels methanogenesis under extreme CO2 limitation
Saturn’s icy moon Enceladus features chemical signatures consistent with an alkaline soda ocean with H2 production via hydrothermal water-rock reactions. Chemolithoautotrophic methanogenesis is thermo...
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Reposted by Daniela Barillà
Brian Stevenson Ph.D. spirochete lab @bstevensonlab.bsky.social · 28/09/2026
MinD-like ATPase FlhG synchronizes flagellation and cell division in spirochetes Brilliant new paper from C. Li, J. Liu, and colleagues mBio: journals.asm.org/doi/10.1128/... #MicroSky
Fig 9 Model for FlhGBb-mediated coordination of flagellation and cell division in B. burgdorferi. In nascent cells, the ATPase FlhGBb localizes predominantly at the cell poles, where it recruits and spatially organizes FlhF and the MS-ring protein FliF to establish sites of basal body assembly. These events initiate the formation of polar PFs that assemble into ribbon-like bundles along the cell cylinder. As the cell cycle progresses, FlhGBb redistributes toward the midcell division zone, where it likely contributes to proper septum placement and coordination of cytokinesis with ongoing flagellar morphogenesis. In the absence of FlhGBb, FlhF and FliF become delocalized, basal bodies assemble at aberrant positions, and organized PF ribbon formation is disrupted, leading to defects in motility, cell morphology, and division. Through this ATPase-dependent spatial regulation, FlhGBb synchronizes flagellar assembly with cell division to maintain the distinctive architecture and motility of spirochetes.
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Reposted by Daniela Barillà
@ArteCalabria @artecalabria.bsky.social · 27/09/2026
Anima bizantina in #Calabria: Le tante immagini di un capolavoro bizantino del X sec. d.C., architettura che ci lascia un'eredità oltre che spirituale e culturale anche una unica configurazione tipologica. #arte #beauty #heritage
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Daniela Barillà @danielabarilla.bsky.social · 27/09/2026
I support Wikipedia, where information is still human-created, fact-checked, and 100% free. Join me! donate.wikimedia.org
donate.wikimedia.org
Make your donation now - Wikimedia Foundation
Donate to the Wikimedia Foundation, the nonprofit that hosts Wikipedia and other crucial free knowledge projects. Each year, the generosity of the 2% of readers who donate allows us to expand the reac...
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Reposted by Daniela Barillà
Nature Microbiology @natmicrobiol.nature.com · 25/09/2026
Out Now! Systematic mapping of bacteriophage gene essentiality with HIDEN-SEQ #MicroSky
go.nature.com
Systematic mapping of bacteriophage gene essentiality with HIDEN-SEQ
Nature Microbiology, Published online: 25 September 2026; doi:10.1038/s41564-026-02455-8HIDEN-SEQ (hidden Acr-enabled transposon-insertion sequencing) is a transposon-insertion sequencing method for phages that systematically links their genes to selectable phenotypes.
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Maya Voichek @mayavoichek.bsky.social · 24/09/2026
Super excited to share my postdoctoral work at @imbavienna.bsky.social @viennabiocenter.bsky.social - We discovered that some retrotransposons, or "jumping genes" 🧬, are able to spread from cell to cell via a new viral infectivity route. A short thread: 🧵👇 (1/7)
AI-generated illustration of the soma-to-germline transmission of retrotransposons described in our work
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Javier del Campo @fonamental.bsky.social · 23/09/2026
A genomic catalog of Earth’s bacterial and archaeal symbionts #symbiosis www.nature.com/articles/s41...
nature.com
A genomic catalog of Earth’s bacterial and archaeal symbionts - Nature Biotechnology
Symbiotic relationships of microorganisms are predicted and cataloged with a machine learning tool.
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Reposted by Daniela Barillà
Duerkop Lab @duerkoplab.bsky.social · 23/09/2026
Better late than never. Congrats to former PhD trainee Shelby Andersen on the publication of RADS. RADS identifies antiphage defense systems connected to small serine recombinases. The question remains, why are defense systems often placed in this context? 🤔 journals.plos.org/plosbiology/...
journals.plos.org
Small serine recombinases are markers for antiphage defense system discovery
Identifying antiphage defense systems is challenging for bacterial species where such systems are understudied. This study describes a bioinformatic pipeline that uses a small serine recombinase as a ...
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Simonetta Gribaldo @sgribaldo.bsky.social · 23/09/2026
Interested in #archaea, #methane, #cell-envelopes? New paper out @nature.com ! We discovered an enzyme that specifically cleaves the cell wall of methanogens, revealing a new chemical structure of archaeal peptidoglycan, 50 yrs after its first description www.nature.com/articles/s41... #MicroSky 🧵👇
nature.com
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Nika Pende @nikapende.bsky.social · 23/09/2026
So happy to see this paper finally out 🥳 it took only seven years after the first purification of archaeal peptidoglycan 🤣 Congrats to all the people involved 🥂🍾 And here is the story behind the paper: communities.springernature.com/posts/cracki...
communities.springernature.com
Cracking the Archaeal Cell Wall: How a hydrolase overturned a 50-year-old paradigm
Using bioinformatics, biochemistry, NMR, as well as the newly characterized enzyme ArmA from methanogenic archaea, we revised the existing knowledge on archaeal peptidoglycan structure. At the same ti...
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Nature Portfolio @natureportfolio.nature.com · 22/09/2026
Active chromatin is usually described as open and accessible. The authors of a paper in Nature Genetics write in this Behind the paper post how their live-cell imaging shows instead that euchromatin forms condensed domains, and that cohesin helps keep neighboring domains from mixing. 🧬🧪
go.nature.com
Active chromatin is not simply open: it forms compact domains that cohesin keeps from mixing
Active chromatin is usually described as open and accessible. Our live-cell imaging shows instead that euchromatin forms condensed domains, and that cohesin helps keep neighboring domains from mixing.
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Daniela Barillà @danielabarilla.bsky.social · 21/09/2026
@plasmidsociety.bsky.social
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Reposted by Daniela Barillà
Tominaga K. (tomiken) @pacyc184.bsky.social · 31/07/2026
pLAST - a tool for rapid comparison and classification of bacterial plasmid sequences | Bioinformatics | Oxford Academic
dx.doi.org
pLAST - a tool for rapid comparison and classification of bacterial plasmid sequences
AbstractMotivation. The increasing number of fully sequenced bacterial plasmids being annotated and catalogued has prompted the development of computationa
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Reposted by Daniela Barillà
Cameron Thrash @jcamthrash.bsky.social · 21/09/2026
Domain classification of archaeal proteomes reveals conserved fold repertoire journals.plos.org/ploscompbiol... #jcampubs
journals.plos.org
Domain classification of archaeal proteomes reveals conserved fold repertoire
Author summary Archaea are the least-studied of the three domains of life, yet they matter enormously: they flourish in extreme environments, drive global nutrient cycles, and are closely tied to the ...
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Reposted by Daniela Barillà
Malcolm White @mfwhite2.bsky.social · 21/09/2026
New preprint from PhD student Yu Sun. TSR1 is a TIR effector specialised for CRISPR defence. It is an obligate dimer activated by cA3 and degrades its own activator using a ring nuclease domain. Perhaps the first confirmed dimeric TIR effector? www.biorxiv.org/content/10.6...
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Reposted by Daniela Barillà
uofytechs.bsky.social @uofytechs.bsky.social · 17/09/2026
#job for a Lead Technical Specialist on @aria-research.bsky.social funded project in Alphey lab @biologyatyork.bsky.social: specific and targeted gene editing in insect species (micro-injection delivery methods & molecular aspects of gene editing). Apply by 23/9/2026 jobs.york.ac.uk/internal/vac...
jobs.york.ac.uk
Jobs - The University of York
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Reposted by Daniela Barillà
Richard Sever @richardsever.bsky.social · 20/09/2026
"All corners of academia will soon be flooded with AI-generated research....Maths and CS go first because their entire output is symbol manipulation...Biology comes later not because biologists are cleverer but because the rate-limiting step is physical" giorgio.gilest.ro/the-weimar-o...
giorgio.gilest.ro
The Weimar of knowledge – la bottega
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Lopes_Lab @lopeslab.bsky.social · 16/09/2026
Thrilled to share a new important study from the lab, published today in @nature.com, showing how cohesin mediates efficient replication fork plasticity and stress response, using its loop extrusion activity to promote 3D contacts on replicating DNA: www.nature.com/articles/s41...
nature.com
Cohesin reshapes replication fork contacts to aid fork slowing and reversal - Nature
Cohesin-mediated loop extrusion limits sister-fork coupling and tethers nearby replication forks under replication stress, promoting fork reversal and slowing fork progression to safeguard genome...
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Reposted by Daniela Barillà
Anthony Vecchiarelli @cellforganized.bsky.social · 19/09/2026
Applications are now being accepted for the 2027 Bacterial Cell Biology & Development GRC, June 6–11! GRS will be on June 5-6, 2027 We’ll likely be oversubscribed, so please apply early!
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Maria Hondele @mariahondele.bsky.social · 18/09/2026
Now on bioRxiv 👇 www.biorxiv.org/content/10.6...
biorxiv.org
A bacterial nucleolus for cold adaptation
Compartmentalisation enables cells to spatially organise essential biochemical processes. This is exemplified by the eukaryotic nucleolus, which concentrates the machinery for ribosome biogenesis. Bac...
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Reposted by Daniela Barillà
Ideas Roadshow @ideasroadshow.bsky.social · 19/09/2026
The Recanati Annunciation by Lorenzo Lotto, c. 1534. 🐈‍⬛ This version portrays a rather cat-astrophic situation with Mary turning her back on the Archangel Gabriel and instead turning towards the viewer while a black cat is running away in fear. 🗃️ #arthistory #skystorians #caturday #cat #animalart
The Recanati Annunciation by Lorenzo Lotto, c. 1534. his version portrays a rather cat-astrophic situation with Mary turning her back on the Archangel Gabriel and instead turning towards the viewer while a black cat is running away in fear.
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Reposted by Daniela Barillà
Kazuhiro Maeshima @kazu-maeshima.bsky.social · 18/09/2026
🧬 Our “Behind the Paper” is now online at Nature Communities: “Active chromatin is not simply open—it forms compact domains that cohesin keeps from mixing.” 📖 A short story behind our recent @natgenet.nature.com paper. communities.springernature.com/posts/active... www.nature.com/articles/s41...
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Times Higher Education (THE) @timeshighered.bsky.social · 18/09/2026
Mark Carney calls for closer ties between Canada and Europe in both research and education. @seher-education.bsky.social reports
timeshighereducation.com
Canada seeks to join Erasmus+ as EU ties deepen
Prime minister Mark Carney calls for closer ties between Canada and Europe in both research and education
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PLOS Biology @plosbiology.org · 18/09/2026
#Phages can evade #bacterial #immunity by disrupting #antiviral signals like cA3, triggering Panoptes defense systems. @mfwhite2.bsky.social &co show that Type II Panoptes detects cA3 loss and activates a CARF-TM effector to disrupt membranes & stop infection @plosbiology.org 🧪 buff.ly/1ixwg9v
Left: Organisation and mechanism of the Panoptes System. In type I Panoptes systems, mCpol is constitutively active, generating signalling molecules that inactivate the cognate effector, 2TMβ. When an infecting phage expresses a sponge protein, the cyclic oligonucleotide pool is depleted. The Panoptes effector oligomerises, leading to membrane disruption and growth arrest or cell death. Right: CARF-TM model structure and cA3 binding. Alphafold3 model of CARF-TM in complex with cA3, including POPG molecules to simulate the membrane bilayer. The position mutated to generate the truncated CARF protein is shown by black arrows.
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Gavin Thomas (he/him) @gavinhthomas.bsky.social · 16/09/2026
Next Wednesday we're running a live webinar on examining the genomes of examples of the 6 ESKAPE pathogens, using tools available in MORF Genomes. Come & learn about AMR gene and genomes using our visual browser-based tools. www.eventbrite.co.uk/e/how-superb...
eventbrite.co.uk
How Superbugs Escape: Comparative Genomics of ESKAPE Pathogens with MORF
Dive into the sneaky world of superbugs and see how the MORF platform helps crack the code on ESKAPE pathogens' escape tricks.
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Malcolm White @mfwhite2.bsky.social · 16/09/2026
Our paper on type II Panoptes is now published at PLOS Biology with new data on phage escapers - quite a step up in microbiology for our lab, led by Sabine Gruschow. Thanks to @erc.europa.eu for funding dx.plos.org/10.1371/jour...
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Nature @nature.com · 16/09/2026
Asgard archaea, named for the realm of the Norse gods, changed scientists' views on the origins of eukaryotes go.nature.com/4h8rgZP
go.nature.com
These bizarre, much-coveted microbes are revealing the origins of complex life
Researchers are racing to culture a menagerie of exotic organisms and finding lots of surprises along the way.
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Martin Steinegger 🇺🇦 @martinsteinegger.bsky.social · 13/09/2026
Fold Spacer lets you fly through protein structures (Weekend project #2). It’s my first game: I originally set out to build a racer with structures as the tracks, but was a little too crazy. So it became this instead. You can upload your own structures. 🌐 martin-steinegger.github.io/Fold-Spacer/
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Zeynep Baharoglu @zeynepbaharoglu.bsky.social · 12/09/2026
Acquisition and erosion of toxin-antitoxin systems in bacterial chromosomes 🦠 academic.oup.com/mbe/advance-...
academic.oup.com
Validate User
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Mart Krupovic @mkrupovic.bsky.social · 11/09/2026
Why did some #viruses evolve to be #giants while others did not? Our perspective piece on this topic with Eugene Koonin. www.pnas.org/doi/10.1073/...
pnas.org
Why did some viruses evolve to be giants while others did not? | PNAS
Viruses are ubiquitous mobile genetic elements that are obligate symbionts of cellular life forms and replicate exclusively within host cells. The ...
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Martial Marbouty @mmarbout.bsky.social · 30/08/2026
🚨 ‼️ NEW PUBLICATION ‼️ While we start to know a lot about how bacterial genomes are organized in 3D, almost nothing is known about phage genome once it enters a bacterial cell. read the paper here: www.science.org/doi/10.1126/...
science.org
Bacteriophage PAK_P3 genome structuration and dynamics during infection of Pseudomonas aeruginosa reveal specific interaction patterns
While the dynamic changes in genome organization in cellular organisms have been well described, the three-dimensional (3D) folding of phage genomes during the infection of their host is extremely lim...
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Dr Dr Oona Snoeyenbos-West @oonawest.bsky.social · 29/08/2026
academic.oup.com/ismecommun/a...
academic.oup.com
An enhanced domestication method for uncultured bacteria
Abstract. When environmental bacteria transition to laboratory conditions, a process termed domestication, the shift from the native habitat to a culture m
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Reposted by Daniela Barillà
Gabriel Oka @okagu.bsky.social · 28/08/2026
🧬 Happy to share our new preprint: ppigFinder, a desktop tool integrating bacterial genome analysis with large-scale AlphaFold 3 protein–protein interaction screening. We showcase it by exploring the VirD4 interactome of Xanthomonas citri. 💻 github.com/leepusp/ppig...
github.com
GitHub - leepusp/ppigfinder
Contribute to leepusp/ppigfinder development by creating an account on GitHub.
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Agnes Noy @agnesnoy.bsky.social · 27/08/2026
How do DNA duplexes recognize and pair with each other? Thomas Catley, Victor Velasco Berrelleza, @alicepyne.bsky.social and myself present the first direct visualization of DNA-DNA pairing mediated by divalent cations, confirming the decade-old DNA zipper model! doi.org/10.1093/nar/...
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Nature Reviews Molecular Cell Biology @natrevmcb.nature.com · 27/08/2026
ICYMI: New Online! The use of homology-directed repair in a complex landscape of genome editors
dlvr.it
The use of homology-directed repair in a complex landscape of genome editors
Nature Reviews Molecular Cell Biology, Published online: 24 August 2026; doi:10.1038/s41580-026-01018-3This Comment discusses the uses of Cas-induced homology-directed repair in the evolving landscape of highly specialized genome editing tools.
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Mart Krupovic @mkrupovic.bsky.social · 26/08/2026
Check out our paper on ESCRTs in large DNA viruses. Most enveloped viruses use the host #ESCRT for envelopment, but only mirusviruses and nucleocytoviricots encode it! Congrats @sonaida.bsky.social, @tomdelmont.bsky.social, Ulysse Guyet & Eugene Koonin. @pasteur.fr www.nature.com/articles/s41...
nature.com
Large eukaryotic DNA viruses encode ESCRT machinery for membrane remodelling - Nature Microbiology
A genomic screen reveals homologues of ESCRT components in mirusviruses that infect unicellular aquatic eukaryotes.
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Martin Steinegger 🇺🇦 @martinsteinegger.bsky.social · 26/08/2026
Foldseek-Interface enables fast search/clustering of the protein interface universe! We clustered 3.1M PDB dimers into 77,167 groups and found new interfaces keep appearing even as fold discovery plateaus. 🧵 📄 www.biorxiv.org/content/10.6... 🔎 search.foldseek.com/interface 🌐 interface.foldseek.com
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Tominaga K. (tomiken) @pacyc184.bsky.social · 25/08/2026
Why are archaea not pathogenic? A hypothesis based on metabolism-habitat covariation | mBio
journals.asm.org
Why are archaea not pathogenic? A hypothesis based on metabolism-habitat covariation | mBio
Pathogenicity—the ability to cause infectious disease—is widespread among bacteria and eukaryotes but conspicuously absent from archaea, the third domain of life. To understand why archaea are non-pathogenic, we performed comparative analyses of thousands of bacterial and archaeal isolates. We found that the absence of pathogenic archaea can be explained by a combination of metabolic and environmental factors. Specifically, archaea living within eukaryotic, multicellular hosts lack a metabolic capability correlated with pathogenicity—chemo-organo-heterotrophy—whereas those possessing this metabolism typically live under extreme conditions, such as high temperature, and therefore lack the environmental opportunity to interact with eukaryotic hosts. These findings advance our understanding of microbes by revealing important links between their metabolism, habitats, and pathogenicity.
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Nature @nature.com · 25/08/2026
How early-career researchers can strengthen their track record, boost their research proposal and assess institutional fit go.nature.com/4zDYEA1
go.nature.com
A guide to securing your first research fellowship: what reviewers are looking for
How early-career researchers can strengthen their track record, boost their research proposal and assess institutional fit.
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Teddy Zartler @quantumtessera.bsky.social · 24/08/2026
@bagphos.bsky.social Well, here it is...
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Tanmay Bharat @tbharat-lab.bsky.social · 23/08/2026
Molecular architecture of colossal surface layers from hyperthermophilic archaea Led by @idocaspy.bsky.social (Ido) In collaboration with @mkrupovic.bsky.social and @vikramalva.bsky.social labs doi.org/10.64898/202...
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Evgenii Protasov @evgenii-protasov.bsky.social · 21/08/2026
Assessing transporter systems of methanogens to boost archaea biotechnology #microbiology #methanogens #archaea #MicroSky www.sciencedirect.com/science/arti...
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Tobias Warnecke @tobiaswarnecke.bsky.social · 22/08/2026
Who needs chromatin anyway...? NOT THIS GUY! www.biorxiv.org/content/10.6... 1/n
biorxiv.org
Chromatin is dispensable for bacterial life
Inside cells, DNA is intimately associated with proteins, forming chromatin. The protein constituents of chromatin vary across the tree of life: histones are the principal building blocks of chromatin...
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Cameron Thrash @jcamthrash.bsky.social · 22/08/2026
Polyphosphate acts as an architectural regulator of carbon fixation and nucleoid structure in cyanobacteria journals.asm.org/doi/full/10.... #jcampubs
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Trends in Microbiology @cp-trendsmicrobiol.bsky.social · 22/08/2026
The narrowing prokaryote–eukaryote divide reveals a complexity spectrum
dlvr.it
The narrowing prokaryote–eukaryote divide reveals a complexity spectrum
Cellular organisms can be divided into two basic types of cells: the prokaryotic cells of Bacteria and Archaea and the eukaryotic cells. The rapidly expanding knowledge of the diversity and ultrastructure of prokaryotic cells has revealed cellular intricacies that warrant a critical reappraisal of the profundity of the prokaryote–eukaryote divide.
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