Asaf Levy
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asaflevylab.bsky.social
Asaf Levy
@asaflevylab.bsky.social
Interested in computational biology, microbial toxins, plant microbiome, and microbial adaptation to different hosts.
PI at the Hebrew University of Jerusalem.
https://www.asaflevylab.com/
Expressing my personal opinions.
Pinned
A new paper from the lab on virus-like particles called eCISs www.nature.com/articles/s41...

How bacteria evolved thousands of precision nanoinjectors?

Some bacteria don’t secrete toxins — they inject them using phage-derived machines called extracellular contractile injection systems (eCISs).
A comprehensive catalogue of receptor-binding domains in extracellular contractile injection systems - Nature Communications
Extracellular contractile injection systems (eCISs) are bacteriophage tail-derived toxin delivery complexes that are present in many prokaryotes. Here, the authors present an analysis of eCIS tail fib...
www.nature.com
A nice spot to check exams
February 6, 2026 at 12:44 PM
Reposted by Asaf Levy
#ProtistsOnSky
no 'swimming' by 𝘝𝘢𝘮𝘱𝘺𝘳𝘦𝘭𝘭𝘢, definitively no 'staying still'. just a relaxed walk towards the lunch...
February 2, 2026 at 12:00 AM
Reposted by Asaf Levy
It is widely accepted that #T6SS -mediated intoxication occurs only on solid surfaces, where prolonged cell-cell interactions are forced, and not in liquid environments. But is this generalization true? Our new preprint says it isn't. A 🧵 ...
biorxiv.org/content/10.6...
🦠
Aeromonas adhesins facilitate kin and non-kin attachment to enable T6SS-mediated antagonism in liquid
Bacterial ability to deploy the type VI secretion system (T6SS) against rivals requires prolonged cell-cell interactions. Such interactions are facilitated on solid surfaces but are assumed to be absent in liquid, leading to the conventional dismissal of T6SS-mediated competition in liquid environments. Here, we find that Aeromonas jandaei employs its T6SS to eliminate diverse bacterial competitors in liquid media. Using a workflow that monitors interbacterial competition via prey luminescence, we demonstrate that auto-aggregation and co-aggregation, facilitated by distinct adhesins, enable kin and non-kin recognition and intoxication in a T6SS-dependent manner. Furthermore, we show that another marine bacterium, Vibrio coralliilyticus , employs T6SS to intoxicate rivals in liquid media. Collectively, our results indicate that T6SS-mediated competition in liquid is more common in marine bacteria than previously anticipated, and can be facilitated by diverse molecular mechanisms that govern cell aggregation. ### Competing Interest Statement The authors have declared no competing interest. Israel Science Foundation, https://ror.org/04sazxf24, 1362/21, 2174/22 Swiss National Science Foundation, 51NF40_180541
biorxiv.org
January 28, 2026 at 12:37 PM
Lab trip
February 1, 2026 at 7:58 AM
10 years ago today was one of craziest moments in world sports. The 2016 National Hockey League All-Star Game.

Listen to the great story over here wonderfully told by RadioLab @latif.bsky.social

www.wnycstudios.org/story/the-pu...
The Punchline
One of the worst players in the NHL gets voted into the All-Star Game.
www.wnycstudios.org
January 31, 2026 at 9:55 AM
Reposted by Asaf Levy
FoldMason is out now in @science.org. It generates accurate multiple structure alignments for thousands of protein structures in seconds. Great work by Cameron L. M. Gilchrist and @milot.bsky.social.
📄 www.science.org/doi/10.1126/...
🌐 search.foldseek.com/foldmason
💾 github.com/steineggerla...
Multiple protein structure alignment at scale with FoldMason
Protein structure is conserved beyond sequence, making multiple structural alignment (MSTA) essential for analyzing distantly related proteins. Computational prediction methods have vastly extended ou...
www.science.org
January 30, 2026 at 6:11 AM
Reposted by Asaf Levy
Great new story from Sophie Helaine and Molly Sargen!

www.helainelab.com
January 28, 2026 at 11:01 PM
A new paper from the lab on virus-like particles called eCISs www.nature.com/articles/s41...

How bacteria evolved thousands of precision nanoinjectors?

Some bacteria don’t secrete toxins — they inject them using phage-derived machines called extracellular contractile injection systems (eCISs).
A comprehensive catalogue of receptor-binding domains in extracellular contractile injection systems - Nature Communications
Extracellular contractile injection systems (eCISs) are bacteriophage tail-derived toxin delivery complexes that are present in many prokaryotes. Here, the authors present an analysis of eCIS tail fib...
www.nature.com
January 26, 2026 at 1:26 PM
Daniel Kordan is an amazing photographer
January 25, 2026 at 3:31 PM
Spent some time in the desert with good friends on a lovely winter day.
@idane.bsky.social
@jfriedman.bsky.social
@shlezingerlab.bsky.social
January 23, 2026 at 3:03 PM
Reposted by Asaf Levy
very sad news. Peer Bork was one of the leaders of our field, a wonderful scientist, and he's much too young to be gone. 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 16, 2026 at 6:33 PM
They selected my best paper for presentation this time
January 14, 2026 at 6:45 AM
Some virologists will miss the Covid times like the deserts miss the rain
December 24, 2025 at 8:21 AM
Are you looking for a reason for optimism in 2026?

The International Energy Agency (IEA) reports that global coal production and consumption levels flatten.
www.iea.org/reports/coal...
December 21, 2025 at 2:34 PM
Happy holidays to our friends, collaborators, and even to reviewer #2 from the Levy Lab
December 20, 2025 at 3:01 PM
Inconceivable!
R.I.P Rob Reiner.
You brought rare magic to life.
December 15, 2025 at 10:12 AM
Once a year or so flashfloods carry rain water to the Judea desert, below sea level. If you're lucky enough, as my kids and I were yesterday, you can watch them 'live streaming'.

The majestic Tze'elim waterfall with its natural upper infinity pool Birkat Zfira.
December 13, 2025 at 3:25 PM
Pretty cool!
Interkingdom sensing of fungal tyrosol promotes Yersinia pseudotuberculosis antifungal T6SS activity in the murine gut. The effector acts as a chitinase.
Tyrosol acts as a quorum sensing molecule in species like Candida albicans,

From Xihui Shen's lab.
www.nature.com/articles/s41...
Interkingdom sensing of fungal tyrosol promotes bacterial antifungal T6SS activity in the murine gut - Nature Microbiology
Yersinia pseudotuberculosis senses fungal tyrosol signalling through EnvZ–OmpR which triggers T6SS activation and antifungal effector release to reduce fungal competitors in the mouse gut.
www.nature.com
December 8, 2025 at 2:42 PM
The dead sea with old friends
December 6, 2025 at 12:25 PM
Sequencing >1000 breast cancer tissues!!

This has not been done since...
probably last month's Nature issue

www.nature.com/articles/s41...
Whole-genome landscapes of 1,364 breast cancers - Nature
Whole-genome and transcriptome analysis of 1,364 cases of breast cancer from South Korea broadens our understanding of breast cancer biology and reveals genomic features that connect tumour ...
www.nature.com
December 4, 2025 at 3:44 PM
Fantastic and exciting work of Lianet and Dekel from our department on plastic eating bacteria!!

(Image credit: Getty Images)
December 1, 2025 at 10:17 AM
Marathon #18.
This time in Eilat mountains.
November 29, 2025 at 5:11 PM
When I grow up I promise to beocme the guy who is the 1st to fill out a doodle form with 200 scheduling options
(and not the last one, who selects from 3 consensus options)
November 19, 2025 at 5:21 PM
Me to the students in the seminar course:
divide a multi-panel figures to several simple slides (a paper and a talk are not the same), use only large fonts also for people in the back (axes included), clear titles.

Me in conferences: I wish I could recruit professors to attend my undergrad seminar
November 10, 2025 at 4:47 AM
www.biorxiv.org/content/10.1...

@soreklab.bsky.social Sorek lab does it again! Such a cool signal to specifically detect the event of genome degradation by a phage
Bacteria sense virus-induced genome degradation via methylated mononucleotides
Phages often degrade the genome of their bacterial host to individual nucleotides and use these nucleotides to build their own genome. In this study, we describe a bacterial defense system that direct...
www.biorxiv.org
November 8, 2025 at 5:22 PM