Aude Bernheim
@audeber.bsky.social
PI at Institut Pasteur
Evolution, immunity, genomics, microbiolgy.
Into immunity in bacteria and its conservation in eukaryotes.
Advocate for more inclusive sciences
https://research.pasteur.fr/en/team/molecular-diversity-of-microbes/
Evolution, immunity, genomics, microbiolgy.
Into immunity in bacteria and its conservation in eukaryotes.
Advocate for more inclusive sciences
https://research.pasteur.fr/en/team/molecular-diversity-of-microbes/
Pinned
Labs in bacterial immunity
docs.google.com
Hi everyone, a few years ago, we started a list of labs studying bacterial immunty for students, editors, conference organizers... (currently n=79).
Update time ! Send me a message to 1) add your lab or others 2) Correct info
docs.google.com/spreadsheets...
#Phagesky #Microsky
Update time ! Send me a message to 1) add your lab or others 2) Correct info
docs.google.com/spreadsheets...
#Phagesky #Microsky
Reposted by Aude Bernheim
🚨Preprint alert - this is a big one! We transfer the revolutionary power of TnSeq to bacteriophages.
Our HIDEN-SEQ links the "dark matter" genes of your favorite phage to any selectable phenotype, guiding the path from fun observations to molecular mechanisms.
A thread 1/8
Our HIDEN-SEQ links the "dark matter" genes of your favorite phage to any selectable phenotype, guiding the path from fun observations to molecular mechanisms.
A thread 1/8
November 20, 2025 at 8:40 PM
🚨Preprint alert - this is a big one! We transfer the revolutionary power of TnSeq to bacteriophages.
Our HIDEN-SEQ links the "dark matter" genes of your favorite phage to any selectable phenotype, guiding the path from fun observations to molecular mechanisms.
A thread 1/8
Our HIDEN-SEQ links the "dark matter" genes of your favorite phage to any selectable phenotype, guiding the path from fun observations to molecular mechanisms.
A thread 1/8
Reposted by Aude Bernheim
Bacterial networks #BacNet26 in September 2026 will be chaired by @lalouxlab.bsky.social and co-chaired by @s-lab.bsky.social with @coralietesseur.bsky.social
Sneak peak on invited speakers and preliminary program:
meetings.embo.org/event/26-bac...
Sneak peak on invited speakers and preliminary program:
meetings.embo.org/event/26-bac...
November 20, 2025 at 8:47 AM
Bacterial networks #BacNet26 in September 2026 will be chaired by @lalouxlab.bsky.social and co-chaired by @s-lab.bsky.social with @coralietesseur.bsky.social
Sneak peak on invited speakers and preliminary program:
meetings.embo.org/event/26-bac...
Sneak peak on invited speakers and preliminary program:
meetings.embo.org/event/26-bac...
Reposted by Aude Bernheim
Are you looking for female speakers in CryoEM for seminars and conferences? Are you a woman in CryoEM and not yet on the ‚woman in CryoEM‘ list? Find your speakers and add/update name and affiliation! docs.google.com/spreadsheets...
November 18, 2025 at 10:18 AM
Are you looking for female speakers in CryoEM for seminars and conferences? Are you a woman in CryoEM and not yet on the ‚woman in CryoEM‘ list? Find your speakers and add/update name and affiliation! docs.google.com/spreadsheets...
Akin to bacterial SIR2 antiphage proteins, human SIRal, also known as FAM118b, forms filaments that are essential for its NAD processing activity.
Awesome to see structures of these filaments that differ from bacterial ones.
Congrats to the authors on this beautiful study.
Awesome to see structures of these filaments that differ from bacterial ones.
Congrats to the authors on this beautiful study.
Very happy to share our collaborative project on FAM118 proteins - noncanonical sirtuins that form filaments and process NAD in human and other vertebrate cells.
Filament formation and NAD processing by noncanonical human FAM118 sirtuins
Nature Structural & Molecular Biology - Baretić and Missoury et al. identify vertebrate proteins FAM118B and FAM118A as sirtuins similar to bacterial antiphage enzymes and show that...
rdcu.be
November 17, 2025 at 4:52 PM
Akin to bacterial SIR2 antiphage proteins, human SIRal, also known as FAM118b, forms filaments that are essential for its NAD processing activity.
Awesome to see structures of these filaments that differ from bacterial ones.
Congrats to the authors on this beautiful study.
Awesome to see structures of these filaments that differ from bacterial ones.
Congrats to the authors on this beautiful study.
Reposted by Aude Bernheim
Very happy to share our collaborative project on FAM118 proteins - noncanonical sirtuins that form filaments and process NAD in human and other vertebrate cells.
Filament formation and NAD processing by noncanonical human FAM118 sirtuins
Nature Structural & Molecular Biology - Baretić and Missoury et al. identify vertebrate proteins FAM118B and FAM118A as sirtuins similar to bacterial antiphage enzymes and show that...
rdcu.be
November 17, 2025 at 11:37 AM
Very happy to share our collaborative project on FAM118 proteins - noncanonical sirtuins that form filaments and process NAD in human and other vertebrate cells.
Reposted by Aude Bernheim
Are you passionate about the mathematics of data science, computational geometry and topology and want to apply your skills to a beautiful biological question?
Come do a PhD with us!
You will help us understand of how boundaries are established and maintained in early heart development.
Come do a PhD with us!
You will help us understand of how boundaries are established and maintained in early heart development.
November 15, 2025 at 3:42 PM
Are you passionate about the mathematics of data science, computational geometry and topology and want to apply your skills to a beautiful biological question?
Come do a PhD with us!
You will help us understand of how boundaries are established and maintained in early heart development.
Come do a PhD with us!
You will help us understand of how boundaries are established and maintained in early heart development.
Reposted by Aude Bernheim
Our nuclease-protease story is out! We explored a fascinating case of coevolution and modularity in prokaryotic immune systems: www.science.org/doi/10.1126/...
Thanks to wonderful coauthors/collaborators/friends, the whole @doudna-lab.bsky.social and everyone at @innovativegenomics.bsky.social
Thanks to wonderful coauthors/collaborators/friends, the whole @doudna-lab.bsky.social and everyone at @innovativegenomics.bsky.social
Recurrent acquisition of nuclease-protease pairs in antiviral immunity
Antiviral immune systems diversify by integrating new genes into existing pathways, creating new mechanisms of viral resistance. We identified genes encoding a predicted nuclease paired with a trypsin...
www.science.org
November 13, 2025 at 10:15 PM
Our nuclease-protease story is out! We explored a fascinating case of coevolution and modularity in prokaryotic immune systems: www.science.org/doi/10.1126/...
Thanks to wonderful coauthors/collaborators/friends, the whole @doudna-lab.bsky.social and everyone at @innovativegenomics.bsky.social
Thanks to wonderful coauthors/collaborators/friends, the whole @doudna-lab.bsky.social and everyone at @innovativegenomics.bsky.social
An incredible honor for an incredible scientist!
Congratulations Nitzan 💫👏
Congratulations Nitzan 💫👏
Congratulations to Sorek lab alumnus Nitzan Tal, who won the prestigious 2025 Science & SciLifeLab prize for the best PhD thesis in Systems Biology! 💫
Read her Prize Assay, published in the journal Science today
www.science.org/doi/10.1126/...
@nitzantal.bsky.social
Read her Prize Assay, published in the journal Science today
www.science.org/doi/10.1126/...
@nitzantal.bsky.social
November 14, 2025 at 9:55 PM
An incredible honor for an incredible scientist!
Congratulations Nitzan 💫👏
Congratulations Nitzan 💫👏
Such an elegant mechanism. Perfect to make November more fun.
Also, we wrote a review about NAD+ and bacterial immunity, that came out last month. Thanks Ilya for making it outdated already :).
Congrats to everyone for a beautiful discovery!
Also, we wrote a review about NAD+ and bacterial immunity, that came out last month. Thanks Ilya for making it outdated already :).
Congrats to everyone for a beautiful discovery!
Bacteria can sense when a virus starts shredding their genome — by detecting methylated mononucleotides.
Here’s the story of how we discovered the Metis defense system 👇
www.biorxiv.org/content/10.1...
Here’s the story of how we discovered the Metis defense system 👇
www.biorxiv.org/content/10.1...
November 6, 2025 at 8:50 AM
Such an elegant mechanism. Perfect to make November more fun.
Also, we wrote a review about NAD+ and bacterial immunity, that came out last month. Thanks Ilya for making it outdated already :).
Congrats to everyone for a beautiful discovery!
Also, we wrote a review about NAD+ and bacterial immunity, that came out last month. Thanks Ilya for making it outdated already :).
Congrats to everyone for a beautiful discovery!
Reposted by Aude Bernheim
Bacteria can sense when a virus starts shredding their genome — by detecting methylated mononucleotides.
Here’s the story of how we discovered the Metis defense system 👇
www.biorxiv.org/content/10.1...
Here’s the story of how we discovered the Metis defense system 👇
www.biorxiv.org/content/10.1...
November 6, 2025 at 5:00 AM
Bacteria can sense when a virus starts shredding their genome — by detecting methylated mononucleotides.
Here’s the story of how we discovered the Metis defense system 👇
www.biorxiv.org/content/10.1...
Here’s the story of how we discovered the Metis defense system 👇
www.biorxiv.org/content/10.1...
Hi everyone, a few years ago, we started a list of labs studying bacterial immunty for students, editors, conference organizers... (currently n=79).
Update time ! Send me a message to 1) add your lab or others 2) Correct info
docs.google.com/spreadsheets...
#Phagesky #Microsky
Update time ! Send me a message to 1) add your lab or others 2) Correct info
docs.google.com/spreadsheets...
#Phagesky #Microsky
Labs in bacterial immunity
docs.google.com
November 4, 2025 at 3:06 PM
Hi everyone, a few years ago, we started a list of labs studying bacterial immunty for students, editors, conference organizers... (currently n=79).
Update time ! Send me a message to 1) add your lab or others 2) Correct info
docs.google.com/spreadsheets...
#Phagesky #Microsky
Update time ! Send me a message to 1) add your lab or others 2) Correct info
docs.google.com/spreadsheets...
#Phagesky #Microsky
Reposted by Aude Bernheim
Exciting day for the lab: our 1rst paper is officially out in @currentbiology.bsky.social 🥳 Wonderful collaboration wt @gautamdey.bsky.social showing how Cryo-ExM achieves consistent immunostaining in diverse diatoms, from the lab and the natural environment 1/n
#ProtistsOnSky
tinyurl.com/2zxaund7
#ProtistsOnSky
tinyurl.com/2zxaund7
October 31, 2025 at 3:27 PM
Exciting day for the lab: our 1rst paper is officially out in @currentbiology.bsky.social 🥳 Wonderful collaboration wt @gautamdey.bsky.social showing how Cryo-ExM achieves consistent immunostaining in diverse diatoms, from the lab and the natural environment 1/n
#ProtistsOnSky
tinyurl.com/2zxaund7
#ProtistsOnSky
tinyurl.com/2zxaund7
Reposted by Aude Bernheim
NAD+ is a central molecule in bacterial immunity. An excellent and timely review by Hugo Vausset and Aude Bernheim
Many antiphage systems use NAD+, in many ways.
@hugovaysset.bsky.social reviewed them all!
Read to know more about all their molecular mechanisms, how phages counteract them, their distribution in bacteria and their conservation in eukaryotic immunity!
www.cell.com/molecular-ce...
@hugovaysset.bsky.social reviewed them all!
Read to know more about all their molecular mechanisms, how phages counteract them, their distribution in bacteria and their conservation in eukaryotic immunity!
www.cell.com/molecular-ce...
The multifaceted roles of NAD+ in bacterial immunity
In this review, Vaysset and Bernheim examine how nicotinamide adenine dinucleotide
(NAD+) is a key player in diverse and widespread bacterial antiphage defense systems
and phage counterdefense. The au...
www.cell.com
October 18, 2025 at 2:56 PM
NAD+ is a central molecule in bacterial immunity. An excellent and timely review by Hugo Vausset and Aude Bernheim
Reposted by Aude Bernheim
Happy that the final version of our Lamassu work @yli18smc.bsky.social is now out:
www.nature.com/articles/s41...
Thanks again to our awesome collaborators @mblokesch.bsky.social and David and co and Mark Szczelkun and @steven-shaw.bsky.social and the DCI Lausanne @fbm-unil.bsky.social
www.nature.com/articles/s41...
Thanks again to our awesome collaborators @mblokesch.bsky.social and David and co and Mark Szczelkun and @steven-shaw.bsky.social and the DCI Lausanne @fbm-unil.bsky.social
Glad to share the work of @yli18smc.bsky.social and co on Lamassu, a bacterial defense system related to Rad50/Mre11 (RM). While RM carefully trims DNA ends for repair, Lamassu chops up the host chromosome. Our study reveals how it is regulated to minimize damage, activating only during infection.
October 14, 2025 at 9:28 AM
Happy that the final version of our Lamassu work @yli18smc.bsky.social is now out:
www.nature.com/articles/s41...
Thanks again to our awesome collaborators @mblokesch.bsky.social and David and co and Mark Szczelkun and @steven-shaw.bsky.social and the DCI Lausanne @fbm-unil.bsky.social
www.nature.com/articles/s41...
Thanks again to our awesome collaborators @mblokesch.bsky.social and David and co and Mark Szczelkun and @steven-shaw.bsky.social and the DCI Lausanne @fbm-unil.bsky.social
Many antiphage systems use NAD+, in many ways.
@hugovaysset.bsky.social reviewed them all!
Read to know more about all their molecular mechanisms, how phages counteract them, their distribution in bacteria and their conservation in eukaryotic immunity!
www.cell.com/molecular-ce...
@hugovaysset.bsky.social reviewed them all!
Read to know more about all their molecular mechanisms, how phages counteract them, their distribution in bacteria and their conservation in eukaryotic immunity!
www.cell.com/molecular-ce...
The multifaceted roles of NAD+ in bacterial immunity
In this review, Vaysset and Bernheim examine how nicotinamide adenine dinucleotide
(NAD+) is a key player in diverse and widespread bacterial antiphage defense systems
and phage counterdefense. The au...
www.cell.com
October 17, 2025 at 5:55 PM
Many antiphage systems use NAD+, in many ways.
@hugovaysset.bsky.social reviewed them all!
Read to know more about all their molecular mechanisms, how phages counteract them, their distribution in bacteria and their conservation in eukaryotic immunity!
www.cell.com/molecular-ce...
@hugovaysset.bsky.social reviewed them all!
Read to know more about all their molecular mechanisms, how phages counteract them, their distribution in bacteria and their conservation in eukaryotic immunity!
www.cell.com/molecular-ce...
🦠🐘 From bacteria to the elephant ... with a twist. Eukaryotic telomerases originate in antiphage reverse transcriptases 🤯.
Mindblowing discovery from @stephentang23.bsky.social @sternberglab.bsky.social.
Such an incredible exaptation event uncovered through molecular genetics and genomics.
Mindblowing discovery from @stephentang23.bsky.social @sternberglab.bsky.social.
Such an incredible exaptation event uncovered through molecular genetics and genomics.
Genome maintenance by telomerase is a fundamental process in nearly all eukaryotes. But where does it come from?
Today, we report the discovery of telomerase homologs in a family of antiviral reverse transcriptases, revealing an unexpected evolutionary origin in bacteria.
doi.org/10.1101/2025...
Today, we report the discovery of telomerase homologs in a family of antiviral reverse transcriptases, revealing an unexpected evolutionary origin in bacteria.
doi.org/10.1101/2025...
October 17, 2025 at 5:43 PM
🦠🐘 From bacteria to the elephant ... with a twist. Eukaryotic telomerases originate in antiphage reverse transcriptases 🤯.
Mindblowing discovery from @stephentang23.bsky.social @sternberglab.bsky.social.
Such an incredible exaptation event uncovered through molecular genetics and genomics.
Mindblowing discovery from @stephentang23.bsky.social @sternberglab.bsky.social.
Such an incredible exaptation event uncovered through molecular genetics and genomics.
Reposted by Aude Bernheim
Perfect timing in the field for a beautiful review on NAD+ in bacterial immunity by @hugovaysset.bsky.social and @audeber.bsky.social @cp-molcell.bsky.social
#MicroSky
www.cell.com/molecular-ce...
#MicroSky
www.cell.com/molecular-ce...
October 16, 2025 at 2:58 PM
Perfect timing in the field for a beautiful review on NAD+ in bacterial immunity by @hugovaysset.bsky.social and @audeber.bsky.social @cp-molcell.bsky.social
#MicroSky
www.cell.com/molecular-ce...
#MicroSky
www.cell.com/molecular-ce...
Reposted by Aude Bernheim
Six Pasteur scientists win 2025 L’Oréal-UNESCO Young Talents! 🌟 Yolène: Caribbean plants vs dengue mozzies; Leah: gastruloid biophysics; Marion: cancer immunotherapy; Eulalie: menstruation genetics; Sabrina: fixing hearing nerve; Marie: TB & sarcoid immunity. #WomenInScience
October 15, 2025 at 7:41 AM
Six Pasteur scientists win 2025 L’Oréal-UNESCO Young Talents! 🌟 Yolène: Caribbean plants vs dengue mozzies; Leah: gastruloid biophysics; Marion: cancer immunotherapy; Eulalie: menstruation genetics; Sabrina: fixing hearing nerve; Marie: TB & sarcoid immunity. #WomenInScience
Reposted by Aude Bernheim
Thank you to the Blavatnik Family Foundation and The New York Academy of Sciences for honoring our research uniting human innate immunity and bacterial anti-phage defense at @danafarber.bsky.social @harvardmicro.bsky.social @harvard.edu
bit.ly/4pZUDkF
blavatnikawards.org/news/items/t...
bit.ly/4pZUDkF
blavatnikawards.org/news/items/t...
October 9, 2025 at 4:44 PM
Thank you to the Blavatnik Family Foundation and The New York Academy of Sciences for honoring our research uniting human innate immunity and bacterial anti-phage defense at @danafarber.bsky.social @harvardmicro.bsky.social @harvard.edu
bit.ly/4pZUDkF
blavatnikawards.org/news/items/t...
bit.ly/4pZUDkF
blavatnikawards.org/news/items/t...
Congratulations @kranzuschlab.bsky.social ! So well deserved. And a great reason to re-read the many many incredible papers that completely changed our perspective on bacterial and eukaryotic immunity.
Congratulations to Philip J. Kranzusch, Ph.D., Professor of Cancer Immunology and Virology, who was one of three scientists awarded top honors at the 2025 Blavatnik National Awards for Young Scientists.
Watch to learn more about his work: bit.ly/4pZUDkF
Watch to learn more about his work: bit.ly/4pZUDkF
October 9, 2025 at 6:28 AM
Congratulations @kranzuschlab.bsky.social ! So well deserved. And a great reason to re-read the many many incredible papers that completely changed our perspective on bacterial and eukaryotic immunity.
Reposted by Aude Bernheim
Congratulations to Philip J. Kranzusch, Ph.D., Professor of Cancer Immunology and Virology, who was one of three scientists awarded top honors at the 2025 Blavatnik National Awards for Young Scientists.
Watch to learn more about his work: bit.ly/4pZUDkF
Watch to learn more about his work: bit.ly/4pZUDkF
October 8, 2025 at 5:05 PM
Congratulations to Philip J. Kranzusch, Ph.D., Professor of Cancer Immunology and Virology, who was one of three scientists awarded top honors at the 2025 Blavatnik National Awards for Young Scientists.
Watch to learn more about his work: bit.ly/4pZUDkF
Watch to learn more about his work: bit.ly/4pZUDkF
Reposted by Aude Bernheim
Today in @nature.com , we highlight how a cousin of CRISPR-Cas10, mCpol, establishes an evolutionary trap in anti-phage immune systems.
Check out @erinedoherty.bsky.social and my work from @doudna-lab.bsky.social lab here:
www.nature.com/articles/s41...
Check out @erinedoherty.bsky.social and my work from @doudna-lab.bsky.social lab here:
www.nature.com/articles/s41...
A miniature CRISPR–Cas10 enzyme confers immunity by inhibitory signalling - Nature
Panoptes, an anti-phage defence system against virus-mediated immune suppression, is revealed.
www.nature.com
October 1, 2025 at 5:57 PM
Today in @nature.com , we highlight how a cousin of CRISPR-Cas10, mCpol, establishes an evolutionary trap in anti-phage immune systems.
Check out @erinedoherty.bsky.social and my work from @doudna-lab.bsky.social lab here:
www.nature.com/articles/s41...
Check out @erinedoherty.bsky.social and my work from @doudna-lab.bsky.social lab here:
www.nature.com/articles/s41...
Reposted by Aude Bernheim
Our story describing the Panoptes bacterial immune defense system is now finally peer-reviewed and published today! www.nature.com/articles/s41...
The Panoptes system uses decoy cyclic nucleotides to defend against phage - Nature
The Panoptes antiphage system defends bacteria by detecting phage-encoded counter-defences that sequester cyclic nucleotide signals, triggering membrane disruption and highlighting a broader strategy of sensing immune evasion through second-messenger surveillance.
www.nature.com
October 1, 2025 at 4:05 PM
Our story describing the Panoptes bacterial immune defense system is now finally peer-reviewed and published today! www.nature.com/articles/s41...
Reposted by Aude Bernheim
You’ve heard of ubiquitination, meet deazaguanylation: Doug Wassarman in our lab discovered phage defense pathways have co-opted Q nucleobase biosynthetic enzymes to catalyze a new form of protein conjugation chemistry @science.org
www.science.org/doi/10.1126/...
www.science.org/doi/10.1126/...
September 25, 2025 at 7:16 PM
You’ve heard of ubiquitination, meet deazaguanylation: Doug Wassarman in our lab discovered phage defense pathways have co-opted Q nucleobase biosynthetic enzymes to catalyze a new form of protein conjugation chemistry @science.org
www.science.org/doi/10.1126/...
www.science.org/doi/10.1126/...
Reposted by Aude Bernheim
The mechanism of STING NF-κB signaling has remained a mystery. An exciting new study from the Paludan lab now uses data throughout animal STING evolution to provide new answers – including isolating white blood cells from turtles and carp!
www.nature.com/articles/s41...
www.nature.com/articles/s41...
STING signals to NF-κB from late endolysosomal compartments using IRF3 as an adaptor - Nature Immunology
Here the authors show how the DNA-sensing cGAS–STING pathway activates NF-κB and inflammatory gene expression with delayed kinetics via post-Golgi endolysosomal signaling.
www.nature.com
September 22, 2025 at 3:39 PM
The mechanism of STING NF-κB signaling has remained a mystery. An exciting new study from the Paludan lab now uses data throughout animal STING evolution to provide new answers – including isolating white blood cells from turtles and carp!
www.nature.com/articles/s41...
www.nature.com/articles/s41...