Damien M. de Vienne
@damdevienne.bsky.social
Evolutionary biologist @CNRS in Lyon (LBBE lab). Phylogenetics/phylogenomics, Tree of Life, Horizontal Gene Transferts, Ghost lineages
Creator of Lifemap (https://lifemap.cnrs.fr), the "Google maps" of the complete Tree of Life !
Creator of Lifemap (https://lifemap.cnrs.fr), the "Google maps" of the complete Tree of Life !
Pinned
The new Lifemap is out: explore the full Tree of Life with an interactive interface à la Google Maps! lifemap.cnrs.fr
Give it a try!
Give it a try!
📢
Following many requests, we prepare translation in Chinese for Lifemap (lifemap.cnrs.fr).
- For taxa name, we will use @inaturalist.bsky.social 👌
- For the interface, we look for a chinese-speaking 🇨🇳colleague to check that the automatic translation is correct. Just 1 small file!
CAN YOU HELP!? 🙏
Following many requests, we prepare translation in Chinese for Lifemap (lifemap.cnrs.fr).
- For taxa name, we will use @inaturalist.bsky.social 👌
- For the interface, we look for a chinese-speaking 🇨🇳colleague to check that the automatic translation is correct. Just 1 small file!
CAN YOU HELP!? 🙏
November 14, 2025 at 10:38 AM
📢
Following many requests, we prepare translation in Chinese for Lifemap (lifemap.cnrs.fr).
- For taxa name, we will use @inaturalist.bsky.social 👌
- For the interface, we look for a chinese-speaking 🇨🇳colleague to check that the automatic translation is correct. Just 1 small file!
CAN YOU HELP!? 🙏
Following many requests, we prepare translation in Chinese for Lifemap (lifemap.cnrs.fr).
- For taxa name, we will use @inaturalist.bsky.social 👌
- For the interface, we look for a chinese-speaking 🇨🇳colleague to check that the automatic translation is correct. Just 1 small file!
CAN YOU HELP!? 🙏
Finally! Thrilled to share our new work on ghosts and horizontal gene flow!
After showing that ghost lineages (extinct, unknown, unsampled) can distort gene flow detection, we now show that gene flow signals can be used to detect, quantify, and place ghost species in the Tree of Life!(1/2)
After showing that ghost lineages (extinct, unknown, unsampled) can distort gene flow detection, we now show that gene flow signals can be used to detect, quantify, and place ghost species in the Tree of Life!(1/2)
Who you gonna call? EVOLUTIONARY SCIENTISTS!
Ghost species (no, not species of ghost) are extinct, unknown & unsampled taxa...and they vastly outnumber those included in phylogenetics. This hidden diversity can complicate phylogenetic signals of horizontal gene flow, impacting their study...(1/2)🧪
Ghost species (no, not species of ghost) are extinct, unknown & unsampled taxa...and they vastly outnumber those included in phylogenetics. This hidden diversity can complicate phylogenetic signals of horizontal gene flow, impacting their study...(1/2)🧪
September 22, 2025 at 8:57 AM
Finally! Thrilled to share our new work on ghosts and horizontal gene flow!
After showing that ghost lineages (extinct, unknown, unsampled) can distort gene flow detection, we now show that gene flow signals can be used to detect, quantify, and place ghost species in the Tree of Life!(1/2)
After showing that ghost lineages (extinct, unknown, unsampled) can distort gene flow detection, we now show that gene flow signals can be used to detect, quantify, and place ghost species in the Tree of Life!(1/2)
TODAY is my Last day at LBBE in Lyon (for a while)!!
From September, I’ll be in Heraklion 🇬🇷 for a year-long stay in Alexis Stamatakis’ lab @stamatak.bsky.social at FORTH @forth-ite.bsky.social .
Can’t wait for this new adventure 🏖️ ☀️🖥️👻
From September, I’ll be in Heraklion 🇬🇷 for a year-long stay in Alexis Stamatakis’ lab @stamatak.bsky.social at FORTH @forth-ite.bsky.social .
Can’t wait for this new adventure 🏖️ ☀️🖥️👻
July 25, 2025 at 2:02 PM
TODAY is my Last day at LBBE in Lyon (for a while)!!
From September, I’ll be in Heraklion 🇬🇷 for a year-long stay in Alexis Stamatakis’ lab @stamatak.bsky.social at FORTH @forth-ite.bsky.social .
Can’t wait for this new adventure 🏖️ ☀️🖥️👻
From September, I’ll be in Heraklion 🇬🇷 for a year-long stay in Alexis Stamatakis’ lab @stamatak.bsky.social at FORTH @forth-ite.bsky.social .
Can’t wait for this new adventure 🏖️ ☀️🖥️👻
Our new work on the overlooked impact of ghosts for HGT detection and simulation has just been published in MBE @molbioevol.bsky.social !
Tannier, @damdevienne.bsky.social et al. simulated horizontal gene transfer (HGT) with ghost lineages, finding that, when only 1% of potential donors are sampled, ca. 50% of SPR-inferred HGTs misidentify donors.
🔗 doi.org/10.1093/molbev/msaf128
#evobio #HGT
🔗 doi.org/10.1093/molbev/msaf128
#evobio #HGT
HGTs are not SPRs: In the Presence of Ghost Lineages, Series of Horizontal Gene Transfers do not Result in Series of Subtree Pruning and Regrafting
Abstract. When a gene is horizontally transferred (HGT), under the “replacement” model where the transferred gene replaces its homolog in the recipient gen
doi.org
June 30, 2025 at 10:27 PM
Our new work on the overlooked impact of ghosts for HGT detection and simulation has just been published in MBE @molbioevol.bsky.social !
Hi, tonight I will give my conference on "Exploring the tree of Life", a special type of immersive experience with animations projected under the dome of the planetarium!!
#Évènement🎟️| Ce soir on se pose au ciné ou on se pose des questions❓ En compagnie de @damdevienne.bsky.social du #LBBE visionner les 5️⃣ grandes crises biologiques : le tout assis confortablement sous la voute du planétarium😎
#ÉchappéesInattendues
➕d'info 👇 echappeesinattendues.cnrs.fr/event/voyage...
#ÉchappéesInattendues
➕d'info 👇 echappeesinattendues.cnrs.fr/event/voyage...
June 3, 2025 at 7:47 AM
Hi, tonight I will give my conference on "Exploring the tree of Life", a special type of immersive experience with animations projected under the dome of the planetarium!!
Reposted by Damien M. de Vienne
#Évènement🎟️|
Les #ÉchappéesInattendues du @cnrs.fr reviennent au planétarium de @vaulx-en-velin.bsky.social avec la conférence immersive de @damdevienne.bsky.social "Voyage au cœur de l’arbre du vivant "🦠🍄
📅le 3 juin
🕢à 19h30
🤩gratuit SANS inscription 👇 echappeesinattendues.cnrs.fr/event/voyage...
Les #ÉchappéesInattendues du @cnrs.fr reviennent au planétarium de @vaulx-en-velin.bsky.social avec la conférence immersive de @damdevienne.bsky.social "Voyage au cœur de l’arbre du vivant "🦠🍄
📅le 3 juin
🕢à 19h30
🤩gratuit SANS inscription 👇 echappeesinattendues.cnrs.fr/event/voyage...
May 26, 2025 at 8:18 AM
#Évènement🎟️|
Les #ÉchappéesInattendues du @cnrs.fr reviennent au planétarium de @vaulx-en-velin.bsky.social avec la conférence immersive de @damdevienne.bsky.social "Voyage au cœur de l’arbre du vivant "🦠🍄
📅le 3 juin
🕢à 19h30
🤩gratuit SANS inscription 👇 echappeesinattendues.cnrs.fr/event/voyage...
Les #ÉchappéesInattendues du @cnrs.fr reviennent au planétarium de @vaulx-en-velin.bsky.social avec la conférence immersive de @damdevienne.bsky.social "Voyage au cœur de l’arbre du vivant "🦠🍄
📅le 3 juin
🕢à 19h30
🤩gratuit SANS inscription 👇 echappeesinattendues.cnrs.fr/event/voyage...
March was the first complete month since the update of Lifemap (lifemap.cnrs.fr). Time for some statistics!
In March we had 17,880 (unique) visitors, who spent on average 4 min 49s on the website. France and USA were the top visitor countries.
Let's continue to talk about Lifemap!
🙏THANKS🙏
In March we had 17,880 (unique) visitors, who spent on average 4 min 49s on the website. France and USA were the top visitor countries.
Let's continue to talk about Lifemap!
🙏THANKS🙏
Lifemap
lifemap.cnrs.fr
April 14, 2025 at 1:28 PM
March was the first complete month since the update of Lifemap (lifemap.cnrs.fr). Time for some statistics!
In March we had 17,880 (unique) visitors, who spent on average 4 min 49s on the website. France and USA were the top visitor countries.
Let's continue to talk about Lifemap!
🙏THANKS🙏
In March we had 17,880 (unique) visitors, who spent on average 4 min 49s on the website. France and USA were the top visitor countries.
Let's continue to talk about Lifemap!
🙏THANKS🙏
The new Lifemap is out: explore the full Tree of Life with an interactive interface à la Google Maps! lifemap.cnrs.fr
Give it a try!
Give it a try!
March 4, 2025 at 11:09 PM
The new Lifemap is out: explore the full Tree of Life with an interactive interface à la Google Maps! lifemap.cnrs.fr
Give it a try!
Give it a try!
🪧 My Lab (LBBE) is looking for a communication officer (1 year contract)! Deadline March 7th.
Apply here: emploi.cnrs.fr/Offres/CDD/U...
Apply here: emploi.cnrs.fr/Offres/CDD/U...
Portail Emploi CNRS - Offre d'emploi - Chargé de communication (H/F)
emploi.cnrs.fr
February 17, 2025 at 8:21 AM
🪧 My Lab (LBBE) is looking for a communication officer (1 year contract)! Deadline March 7th.
Apply here: emploi.cnrs.fr/Offres/CDD/U...
Apply here: emploi.cnrs.fr/Offres/CDD/U...
Reposted by Damien M. de Vienne
Do you think marine evolution #MarEvol is cool? Maybe you were at the 2018 Marine Evolution meeting in Strömstad, Sweden? And surely you'd like us to do it again and organise MarEvol2? Why not in the South of France? Then fill in this questionnaire and spread the word:
framaforms.org/my-interest-...
framaforms.org/my-interest-...
framaforms.org
February 11, 2025 at 6:26 AM
Do you think marine evolution #MarEvol is cool? Maybe you were at the 2018 Marine Evolution meeting in Strömstad, Sweden? And surely you'd like us to do it again and organise MarEvol2? Why not in the South of France? Then fill in this questionnaire and spread the word:
framaforms.org/my-interest-...
framaforms.org/my-interest-...
📢 A new version of Lifemap will soon be available at a new URL. Automatic redirection will be implemented, but if you develop or use tools or applications that could be affected, please contact me to ensure a smooth transition: damien.de-vienne@univ-lyon1.fr. 🚀
January 24, 2025 at 9:10 AM
📢 A new version of Lifemap will soon be available at a new URL. Automatic redirection will be implemented, but if you develop or use tools or applications that could be affected, please contact me to ensure a smooth transition: damien.de-vienne@univ-lyon1.fr. 🚀
LAST DAY to send an abstract to ALPHY-AIEM!
alphy-aiem-2025.sciencesconf.org
alphy-aiem-2025.sciencesconf.org
Alphy & AIEM 2025 - Sciencesconf.org
alphy-aiem-2025.sciencesconf.org
December 12, 2024 at 2:39 PM
LAST DAY to send an abstract to ALPHY-AIEM!
alphy-aiem-2025.sciencesconf.org
alphy-aiem-2025.sciencesconf.org
New preprint to (finaly) present the proof of concept that detection of HGTs can help reveal invisible (ghost) lineages along the branches of a species tree. More work on that coming soon!
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
Gene flow can reveal ghost lineages
Ghost species, encompassing extinct, unknown, and unsampled taxa, vastly outnumber those typically included in phylogenetic analyses. This hidden diversity has been shown to influence the study of hor...
www.biorxiv.org
December 12, 2024 at 11:35 AM
New preprint to (finaly) present the proof of concept that detection of HGTs can help reveal invisible (ghost) lineages along the branches of a species tree. More work on that coming soon!
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
New preprint on a funny obvservation: treating horizontal gene transfers (HGTs) as Subtree Pruning and Regrafting (SPRs) operations (as is commonly done) assumes that no ghost lineages are around... which is unlikely!
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
HGTs are not SPRs: In the presence of ghost lineages, series of Horizontal Gene Transfers do not result in series of Subtree Pruning and Regrafting
When a gene is horizontally transferred (HGT), under the “replacement” model where the transferred gene replaces its homolog in the recipient genome, the corresponding gene phylogeny departs from the ...
www.biorxiv.org
December 12, 2024 at 11:34 AM
New preprint on a funny obvservation: treating horizontal gene transfers (HGTs) as Subtree Pruning and Regrafting (SPRs) operations (as is commonly done) assumes that no ghost lineages are around... which is unlikely!
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
Hi everybody! Just landed here!
My goal is to post and read information regarding science, mostly evolutionary biology : articles, comments, ideas...
My goal is to post and read information regarding science, mostly evolutionary biology : articles, comments, ideas...
November 27, 2024 at 4:04 PM
Hi everybody! Just landed here!
My goal is to post and read information regarding science, mostly evolutionary biology : articles, comments, ideas...
My goal is to post and read information regarding science, mostly evolutionary biology : articles, comments, ideas...