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Mart Krupovic

Mart Krupovic

@mkrupovic.bsky.social

2.5K followers 430 following 80 posts

Virus origins/diversity/evolution; mobilome; Archaea.
Head of the Cell Biology and Virology of Archaea Unit at Institut Pasteur:
https://research.pasteur.fr/en/team/archaeal-virology/

Biology 41%

Environmental science 29%

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Posts Replies Media Videos

Reposted by Simon Roux, Mart Krupovìč, José R. Penadés

Sorek Lab @soreklab.bsky.social · 4d

Preprint: Bacteria sense virus-induced genome degradation via methylated mononucleotides

tinyurl.com/ch3damp

We show how molecular byproducts released during virus-induced cell exploitation are used as signals to trigger host immunity

Revealed by the amazing Ilya Osterman. See his thread below👇

Reposted by Mart Krupovìč

Fengbin (Jerry) Wang @jerryknowsnothing.bsky.social · 7d

Check out the fancy anti-parallel cytochrome nanowire bundles structure we've solved. This structure originates from a bacterium, strain name WTL (well-to-live), isolated by the Bond group from the Soudan Underground Iron Mine, located 713 m below the surface. www.biorxiv.org/content/10.1...

A Bundled Antiparallel Cytochrome Nanowire Structure Suggests Roles in Cell-Cell Electron Transfer and Biofilm Formation

Long-range extracellular electron transfer enables respiring microbes to use minerals, other organisms, or electrodes as electron acceptors by transporting electrons microns away from the cell surface...

www.biorxiv.org

Reposted by Mart Krupovìč

Romain Villa @romain-villa.bsky.social · 7d

Curious about the top methane-maker in your gut? Meet this month's featured microbe and find out! 🦠💨🔥 in @cp-trendsmicrobiol.bsky.social #archaeasky
@sgribaldo.bsky.social @pasteur.fr
🔗 Full article linked in reply👇
www.sciencedirect.com/science/arti...

Methanobrevibacter smithii

www.sciencedirect.com

Reposted by Mart Krupovìč, Maria Faticov

DEEMteam_Orsay @deemteam.bsky.social · 8d

This paper has been a must! Great collaboration with @mkrupovic.bsky.social and @yifanzhou.bsky.social, a N&V by a legend of halophilic archaea tinyurl.com/yc3dcv72, and one picture of one of our expeditions to Dallol making the cover of the November issue of @natmicrobiol.nature.com

rdcu.be/eLtCH

Reposted by Mart Krupovìč, Jason Williams

Svetlana Dodonova @dodonova-sveta.bsky.social · 13d

Lab’s first paper is out!! We show the first structures of #Asgard #chromatin by #cryo-EM 🧬❄️
Asgard histones form closed and open hypernucleosomes. Closed are conserved across #Archaea, while open resemble eukaryotic H3–H4 octasomes and are Asgard-specific. More here: www.cell.com/molecular-ce...

Reposted by Mart Krupovìč

Fengbin (Jerry) Wang @jerryknowsnothing.bsky.social · 18d

First time posting on Bluesky! 🥳 We discovered a new pilus family in cyanobacteria. The pilin has a novel protein fold that forms a super-tight double-layer tube. Similar gene clusters exist in a few cyanobacterial orders. A great collaboration with John and others! www.nature.com/articles/s41...

A family of tubular pili from harmful algal bloom forming cyanobacterium Microcystis aeruginosa - Nature Communications

Ricca et al discover a new family of tubular pili in Microcystis aeruginosa, a harmful algal bloom-forming cyanobacterium. These pili are crucial for buoyancy by forming cell micro-colonies, which inc...

Reposted by Mart Krupovìč

Soil Microbial Ecology Group @soilmicrobes.bsky.social · 20d

📣 PhD Scholarship Opportunity for International Students!
Are you looking to do a PhD in soil microbial and viral ecology?
✍️ Get in touch now!!
✅ Requirements: Masters degree, Distinguished CV, Highly motivated
⏳ Application deadline: November 24
www.univ-lyon1.fr/recherche/fo...

www.univ-lyon1.fr

Reposted by Mart Krupovìč

Fabai Wu @fabaiwu.bsky.social · 20d

Glad 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

Serial innovations by Asgard archaea shaped the DNA replication machinery of the early eukaryotic ancestor - Nature Ecology & Evolution

Phylogenetic and biochemical analyses show a diversity of components of the DNA replication machinery in different Asgard archaea that contributed to the eukaryotic DNA replication machinery.

Reposted by Mart Krupovìč, David Moreira

Nature Microbiology @natmicrobiol.nature.com · 21d

Viruses and virus satellites of haloarchaea and their nanosized DPANN symbionts reveal intricate nested interactions

Out now in Nature Microbiology, by Yifan Zhou, Mart Krupovic & colleagues.
@mkrupovic.bsky.social
@yifanzhou.bsky.social
@deemteam.bsky.social

www.nature.com/articles/s41...

Viruses and virus satellites of haloarchaea and their nanosized DPANN symbionts reveal intricate nested interactions - Nature Microbiology

An exploration of the viromes of haloarchaea and their ultra-small DPANN symbionts reveals plasmid-derived satellites of viruses from both archaeal groups, highlighting the complexity of nested symbio...

Reposted by David Moreira

Mart Krupovic @mkrupovic.bsky.social · 21d

A nice N&V article by Mike Dyall-Smith on our recent paper
( www.nature.com/articles/s41... ):

www.nature.com/articles/s41...

Archaeal symbioses all the way down - Nature Microbiology

Ethiopian salt lakes feature unique microbial communities with nesting layers of symbioses, where haloarchaea and their ultra-small archaeal symbionts are prey to viruses, which are in turn hijacked b...

Reposted by Mart Krupovìč

Simon Roux @simrouxvirus.bsky.social · 24d

Now published: EnVhogDB, a large database of viral protein family HMM profiles to help functional annotation of new phage genomes - peercommunityjournal.org/articles/10....

EnVhogDB: an extended view of the viral protein families on Earth through a vast collection of HMM profiles

peercommunityjournal.org

Reposted by Simon Roux, David Moreira

Mart Krupovic @mkrupovic.bsky.social · 24d

Check out our paper on intricate nested interactions between viruses and virus satellites of haloarchaea and their nanosized DPANN symbionts. Excellent collaboration with @deemteam.bsky.social, @anagtz.bsky.social and Michail Yakimov
Free access link: rdcu.be/eLtCH
🧵 by @yifanzhou.bsky.social 👇

Yifan ZHOU @yifanzhou.bsky.social · 24d

Our work on viruses and virus satellites of haloarchaea and their DPANN symbionts is out today in Nature Microbiology!
@mkrupovic.bsky.social @deemteam.bsky.social @anagtz.bsky.social
www.nature.com/articles/s41...

Viruses and virus satellites of haloarchaea and their nanosized DPANN symbionts reveal intricate nested interactions - Nature Microbiology

An exploration of the viromes of haloarchaea and their ultra-small DPANN symbionts reveals plasmid-derived satellites of viruses from both archaeal groups, highlighting the complexity of nested symbio...

Reposted by Mart Krupovìč

Yifan ZHOU @yifanzhou.bsky.social · 24d

Our work on viruses and virus satellites of haloarchaea and their DPANN symbionts is out today in Nature Microbiology!
@mkrupovic.bsky.social @deemteam.bsky.social @anagtz.bsky.social
www.nature.com/articles/s41...

Viruses and virus satellites of haloarchaea and their nanosized DPANN symbionts reveal intricate nested interactions - Nature Microbiology

An exploration of the viromes of haloarchaea and their ultra-small DPANN symbionts reveals plasmid-derived satellites of viruses from both archaeal groups, highlighting the complexity of nested symbio...

Reposted by Mart Krupovìč

Stefan Rothenburg @stefanrothenburg.bsky.social · 25d

Now with the correct link:
We reviewed the "Molecular Mechanisms of Poxvirus Evolution"
We show that poxviruses have highly adaptable genomes, and are not sluggishly evolving, as often described.
journals.asm.org/doi/10.1128/...

Reposted by Jonathan A. Eisen, Simon Roux, Mart Krupovìč

Jeremy Barr @jeremyjbarr.bsky.social · 26d

Very excited to share the latest work from our lab, which was published today in Nature!
nature.com/articles/s41...

PhD graduate and now post-doc Sofia Dahlman, along with co-senior author Sam Forster from The Hudson and other researchers from our lab and others.

Isolation, engineering and ecology of temperate phages from the human gut - Nature

Human host-associated cellular products may act as induction agents for bacteriophages.

Reposted by Mart Krupovìč

Archaea.bio @archaeabio.bsky.social · 26d

Live cell imaging of Ca. Nha. antarcticus and Hrr. lacusprofundi using agarose pads. Protocol now live!
www.archaea.bio/protocols/li...

Live Cell Imaging of Ca. Nha. antarcticus and Hrr. lacusprofundi using agarose pads

This protocol is an adapted form of the protocol developed for imaging haloarchaea (Liao et al., 2021) and subsequently applied to co-cultures containing nanohaloarchaea and haloarchaea (Hamm et al., ...

www.archaea.bio

Reposted by Mart Krupovìč

Hugo Bisio @molbiolgv.bsky.social · 27d

The latest preprint from the lab is out!
Here we used structural clustering and immunoprecipitations to uncover some networks in our knowledge of giant virons proteomes. An interesting story by Hela Safi and @ambsch.bsky.social.
www.biorxiv.org/content/10.1...

Elucidating the interaction network of one of the largest icosahedral capsids in the virosphere

Giant viruses challenge traditional boundaries of virology with their large particle sizes, complex genomes, and unique replication strategies. Yet, despite its 750 nm diameter and incorporation of do...

www.biorxiv.org

Reposted by Mart Krupovìč

Vikram Alva @vikramalva.bsky.social · 27d

Our Pyrodictium cannulae paper is out in its final form! Cannulae assemble into calcium-stabilized tubular filaments stable at 100 °C—a unique archaeal cell–cell connection. Led brilliantly by @mikesleutel.bsky.social & @vinceconticello.bsky.social.

www.nature.com/articles/s41467-025-64120-8

Reposted by Mart Krupovìč

Instruct-ERIC @instruct-eric.bsky.social · 28d

We are delighted to be at the FINstruct meeting today in Helsinki - dedicated to the memory of Dennis Bamford

instruct-eric.org/news/in-memo... @helsinki.fi @oulu.fi

Reposted by Mart Krupovìč

Clément Madru @cryoclem.bsky.social · 28d

Our work on ribosome hibernation in archaea is out!
We identified Hib, a new hibernation factor broadly distributed across archaea.
Check out the preprint 👉 biorxiv.org/content/10.1101/2025.10.11.676729v1
(1/🧵)

Reposted by Mart Krupovìč

Yann Moalic @drym.bsky.social · 28d

www.biorxiv.org/content/10.1...

A new family of ribosome hibernation factors in Archaea

Ribosome hibernation preserves translation machinery during stress, yet its mechanisms in Archaea remain poorly defined. Here we identify Hib, a previously unrecognized family of archaeal hibernation ...

www.biorxiv.org

Reposted by Jesse M. Shapiro, Simon Roux, Mart Krupovìč

Frédérique Le Roux @fredoleroux.bsky.social · 29d

Phages evolve fast, or do they?
In oysters, some stay identical for years.
With >1,200 phages & 600 Vibrio genomes, we reveal long-term stability and new mobile elements.
Proud of this collaborative work across our teams (Roscoff-UdeM and @epcrocha.bsky.social www.biorxiv.org/cgi/content/...

Ecological constraints foster both extreme viral-host lineage stability and mobile element diversity in a marine community

Phages are typically viewed as very rapidly evolving biological entities. Little is known, however, about whether and how phages can establish long-term genetic stability. We addressed this eco-evolut...

www.biorxiv.org

Reposted by Mart Krupovìč

Carmen San Martín @carmensmp.bsky.social · Oct 10

Pleased to share our latest publication on #adenovirus structure: dx.plos.org/10.1371/jour...

Aviadenovirus structure: A highly thermostable capsid in the absence of stabilizing proteins

Author summary The International Committee for Virus Taxonomy currently recognizes over 120 adenovirus species, grouped in six genera, with host range covering all kinds of vertebrates. Although all a...

Reposted by Mart Krupovìč

Evelien Adriaenssens @evelienadri.bsky.social · Oct 10

For those of you working on tailed #phages, this is the virus realm for you!
#Duplodnaviria #virus #taxonomy

The Profile in #JGenVirol provides the citable reference. More details in the chapter on the ICTV website: ictv.global/report/chapt...

Reposted by Mart Krupovìč

Satoshi Kawato 川戸智 @kawatosatoshi.bsky.social · Oct 9

🚀 Released gbdraw v0.6.0!

- Added dinucleotide skew plotting to linear mode. Fixed the bug where only GC skew could be drawn.

- Added links to relevant sections of the documentation throughout the web app help menu.

Try out:👉 gbdraw.streamlit.app

A grid of 12 circular E. coli genome maps showing dinucleotide skew plots for GC, CG, AG, GA, CT, TC, TG, GT, CA, AC, AT, and TA. Each circle displays color-coded genome annotations (CDS, rRNA, tRNA, etc.) around the outer ring, with inner line plots showing positive and negative dinucleotide skew values.
Below the grid, a linear representation of two E. coli genomes shows annotated tracks, GC content, and GC skew plots, with two genomes linked with ribbons representing BLASTN hits. Note that the lower track (pathogenic strain O157:H7 Sakai) has multiple prophage insertions (shaded with orange) that are absent from the upper track (the laboratory strain K-12). Further below are five linear genome comparison diagrams of Hepatoplasmataceae mollicutes, each with colored gene annotations, GC content and GC skew plots, and gray ribbons indicating TBLASTX hits across genomes.

Reposted by Mart Krupovìč

Cascales Lab @cascaleslab.bsky.social · Oct 9

Open position to work on Type IX secretion (#T9SS) in our lab, in collaboration withe the group of Eric Reynolds at the Dental School of the University of Melbourne. Please spread the word, and forward to anyone potentially interested ! Apply here:
emploi.cnrs.fr/Offres/Docto...

Portail Emploi CNRS - Offre d'emploi - Thèse en Microbiologie-Biochimie (H/F)

Reposted by Mart Krupovìč, Curtis A. Suttle

Asher Leeks @asherleeks.bsky.social · Oct 7

I gave a talk last year at TEDxNewEngland aimed at introducing the idea of viral sociality to a general audience, including implications for evolution & virology. Video now available online below.

#socialviruses #evosky #virosky 🧪

The social lives of viruses | Asher Leeks | TEDxNewEngland

YouTube video by TEDx Talks

www.youtube.com

Reposted by Simon Roux, Mart Krupovìč

The Daum Lab @daumlab.bsky.social · Oct 6

Out in Science Advances: Our #cryoEM structure of HFTV1, a virus infecting the halophile #archaea. *First full atomic structure (containing all structural proteins) of any tailed virus!* Congrats and thanks to all co-authors and our fantastic collaborators! www.science.org/doi/10.1126/...

Cryo-EM resolves the structure of the archaeal dsDNA virus HFTV1 from head to tail

This structure of an archaeal tailed virus (arTV) provides detailed insights into arTV assembly and infection mechanisms.

www.science.org

Reposted by Mart Krupovìč, Jean-Yves Tinévez

Thibaut Brunet @thibautbrunet.bsky.social · Oct 5

Latest from ours: www.cell.com/cell-reports...

This is two stories in one: a case study/cautionary tale on developing genetic tools in new organisms, and the first hint at a gene regulatory network for choanoflagellate multicellular development (which turn out to involve a Hippo/YAP/ECM loop!) A 🧵

Reposted by Mart Krupovìč

Jozef Nissimov @jinoceanvir.bsky.social · Oct 3

(1/9) Latest preprint from our lab at
@uwaterloo.ca conceived predominantly by our very talented #PhD #student Isaac Meza-Padilla:

www.biorxiv.org/content/10.1...