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Daniela Barillà

@danielabarilla.bsky.social

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. https://barillalabyork.weebly.com/

296 Posts1310 Follower1085 Folgt
Sternberg Lab@sternberglab.bsky.social · 2d ago

Out now! In collaboration with Hiroshi Nishimasu's lab, we uncover how a dual reverse transcriptase immune system builds double-stranded DNA from both RNA and protein templates. www.cell.com/cell/abstrac... Previous thread for the preprint: bsky.app/profile/ster...

Coordinated RNA- and protein-templated synthesis of double-stranded DNA by a dual reverse transcriptase immune system

Bacterial reverse transcriptases defend against viruses, yet how their DNA products stop infection remains unknown. Bacteriophage inhibition of a host recombination enzyme activates the DRT3 defense s...

cell.com

Aaron Straight@astraight.bsky.social · 2d ago

These two reviews on centromeres and kinetochores in @natrevmcb.nature.com cap off @andrea-musacchio.bsky.social sabbatical at @stanfordbiochem.bsky.social from @valleefoundation.bsky.social. Long time in the making! Non-paywall versions rdcu.be/fxD9V, rdcu.be/fxEar

Structure and function of the centromere and inner kinetochore

Nature Reviews Molecular Cell Biology - The kinetochore is a macromolecular complex that assembles on centromeric chromatin and connects spindle microtubules to the chromosome. This Review...

rdcu.be

John Heathershaw@jheathershaw.bsky.social · 4d ago

I never thought that I would have to write this piece about my university. But after weeks of demonstrating privately to senior managers that their case is based on a false prospectus, that their data are inaccurate and their claims misleading, there was little choice. substack.com/@lucasamin/n...

Inside Britain's university crisis

As teaching staff face job loss, their bosses have netted pay rises and bought advice from a “vampiric” management consultancy, writes Prof. John Heathershaw of the University of Exeter

substack.com

Tominaga K. (tomiken)@pacyc184.bsky.social · 6d ago

Expansion of the Asgard archaeal virome and defensome provides insights into virus-host interactions | Microbiome | Springer Nature Link

Expansion of the Asgard archaeal virome and defensome provides insights into virus-host interactions - Microbiome

Background Asgard archaea, broadly considered as a group of archaea that exhibit the closest evolutionary relationship with eukaryotes, encode diverse defense systems and are infected by distinct viruses. However, the diversity of Asgard archaeal viruses and their interactions with the hosts remain poorly explored. Results Here, using CRISPR spacer-protospacer matching, we predict 23 viruses associated with Asgard archaea from various habitats. Apart from clusters with known viruses, we report three previously undescribed groups of Asgard viruses with predicted head-tailed virions of the realm Duplodnaviria and filamentous virions characteristic of the archaea-specific realm Adnaviria. Mapping of metagenomic reads to viral and host genomes suggested that most Asgard viruses display relatively low virus-to-host ratios, typically below 10. In addition, we considerably expanded the known defensome of Asgard archaea, among others, detecting putative PARIS and Prometheus defense systems. Finally, the diversity of anti-defense proteins and putative archaeal type IV pilins encoded by some Asgard viruses provide additional insights into the interactions between Asgard archaea and their viruses. Conclusions Overall, this work sheds new light on the Asgard archaeal virome and defensome, and virus-host interactions. Video Abstract

link.springer.com

Alex Holehouse@alexholehouse.bsky.social · last wk.

Huge congrats to the many authors who over MANY years worked on this (but especially @karaehunt.bsky.social , @trevorbrandt.bsky.social, Karina, @shaharsu.bsky.social and @remenecker.bsky.social. www.nature.com/articles/s41...

Rational design of disordered proteins for sequence–function investigation - Nature

GOOSE enables the design and testing of thousands of disordered protein region sequences to reveal distinct sequence-to-function relationships.

nature.com

Alex Holehouse@alexholehouse.bsky.social · 5mo ago

New (well, very old, but 100% updated) preprint: Rational design of disordered proteins for systematic sequence-to-function investigation Work done in collaboration with @shaharsu.bsky.social lab - check out the three (3) threads from the folks who did the work!

Tobias Warnecke@tobiaswarnecke.bsky.social · last wk.

Bacteriocins in archaea and archaeocins in bacteria. @romainstrock.bsky.social surveys the the exchange of molecular weaponry between archaea and bacteria. www.biorxiv.org/content/10.6...

Bacteriocins in archaea and archaeocins in bacteria

Archaea and bacteria routinely live side by side in microbial communities and must interact at least on occasion. Whether such cross-Domain interactions are dominated by mutual disregard, co-operation...

biorxiv.org

Pedro Leão@pedroleao.bsky.social · last wk.

The manuscript introducing ArchaeaHQ is still under review😴 As science can't wait... I'm making available a version of the dashboard we use. vee-lab.eu/archaeahq Here the user can have quick access to the information in the database, and select specific genomes of interest. Enjoy 🎉

Pedro Leão@pedroleao.bsky.social · 2mo ago

I'm happy to share the first pre-print of out Lab! 🎉 Introducing ArchaeaHQ www.biorxiv.org/content/10.6... We curated 21,644 genomes across all 4 archaeal kingdoms to bridge the gap in public datasets for computational biology What is inside ArchaeaHQ... (1/2)

@hollensteinlab.bsky.social · 2w ago

Very happy to share a preprint on our contribution to identifying a polymerase capable of accepting heavily modified nucleotides. Great collaboration with Marc Delarue and John Chaput. Congrats to Maria! @pasteur.fr @ipdbsc.bsky.social @chem4life.bsky.social www.biorxiv.org/content/10.6...

Polymerase Evolution Enables Access to Glycosylated Xeno-Nucleic Acids with Expanded Chemical Functionality

Chemical modifications expand the functional repertoire of nucleic acids, but the extent to which complex glycans can be integrated into genetic polymers remains largely unexplored. Glycosylated nucle...

biorxiv.org

Yo Akiyama@yoakiyama.bsky.social · 2w ago

Excited to share our now published paper @cp-cell.bsky.social highlighting advances in modeling the evolution of protein-protein interactions with MSA Pairformer. Big thanks to Zhidian Zhang, Olivia Tang, @eunbelivable.bsky.social @milot.bsky.social @martinsteinegger.bsky.social and @sokrypton.org!

Expanding the scope of protein language modeling to protein-protein interactions with MSA Pairformer

Protein language models have excelled at modeling individual proteins, but extending these capabilities to protein complexes remains a major challenge. MSA Pairformer, a parameter-efficient protein la...

cell.com

Miloš Tišma@tismaa.bsky.social · 2w ago

I just still cannot help myself from looking that these beautiful real-time dynamics videos from @anjbadri.bsky.social lab! thanks to all the authors from @joeloparo.bsky.social / @anjbadri.bsky.social and TJ Ha labs.

Miloš Tišma@tismaa.bsky.social · 2w ago

I'm happy to share the first paper from my postdoc work: www.biorxiv.org/content/10.6... How does RecA find one homologous sequence in an entire chromosome -and what turns that encounter into a repair-competent one? We find that DNA topology is the gatekeeper !! 1/10

César de la Fuente@delafuentelab.bsky.social · 2w ago

Biology has plenty of data—the challenge is making it usable. AllTheBacteria transforms 2.44 million public bacterial and archaeal genomes into an open, uniformly processed, searchable, AI-ready resource. www.biorxiv.org/content/10.1...

AllTheBacteria: a community resource empowers biology and discovers novel peptide antibiotics

Public microbial genomes encode an immense record of biological diversity, evolution and molecular function, but much of this information remains difficult to reuse because raw sequencing data are not...

biorxiv.org

History and Heritage Yorkshire@handhyorkshire.bsky.social · 2w ago

🧵Detail from Nathaniel Whittock’s 1850s view of the city of York clearly showing the "old" railway station within the city walls. A temporary station initially operated just outside the walls for a couple of years before it opened on 4 January 1841. It was designed by George Townsend Andrews and

A detail from Nathaniel Whittock’s 1850s view of the city of York clearly showing the "old" railway station within the city walls. Image courtesy of York Museums Trust (YORAG_R1946-1 )
Fabai Wu@fabaiwu.bsky.social · 3w ago

Systematic identification of cell division proteins in haloarchaea and the discovery of a membrane anchor for the Z ring. www.biorxiv.org/content/10.6...

Systematic identification of cell division proteins in haloarchaea and the discovery of a membrane anchor for the Z ring

Most archaea rely on the tubulin-like protein FtsZ for division. In the last decade, several novel cell division proteins have been discovered in the model haloarchaeon Haloferax volcanii which contai...

biorxiv.org