Sophie Abby
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soabby.bsky.social
Sophie Abby
@soabby.bsky.social
Researcher at CNRS, TIMC lab, Grenoble France
compBio@TrEE group https://tree-timc.github.io/compbio

Archaea & Bacteria Evolution
Comparative genomics and Phylogenomics
Evolution of Cellular machineries & Metabolic pathways
https://sophieabby.github.io
Pinned
Really glad to announce a new preprint from our lab: Global distribution of quinones in Bacteria! We here combine comparative genomics and text mining to leverage information on quinones distribution from thousands of articles describing new species and from dozens of thousands of genomes! 1/5
Reposted by Sophie Abby
🔥 At conferences, who asks the questions shapes who gets seen. Across 24 ID&CM meetings, women were 55% of delegates but asked 36% of questions.
💬 When women moderate or speak first, others follow.
Let’s change the pattern

bit.ly/47VL0eH
🙏 @maudsalmona.bsky.social & MicroID EmpowHERment consortium
November 13, 2025 at 9:48 AM
Reposted by Sophie Abby
So Nature-Springer, which absorbs several billion dollars in research funding each year, provides us with an API that attributes all citations to the first article in the volume.

Well done Springer Nature, at least I know where not to submit my next paper.
Oops. Ooooooooooooops.

I do hope that nobody has been given or denied a job/promotion based on their SpringerNature citation counts in the past 15 years.

arxiv.org/pdf/2511.01675

h/t @nathlarigaldie.bsky.social
November 7, 2025 at 5:15 PM
Reposted by Sophie Abby
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
November 2, 2025 at 5:52 PM
Reposted by Sophie Abby
JOB OFFER #PhageSky

We have a postdoc position opening in my group to investigate phage-MGE interactions !

We're based in the very nice city of Lyon, France @mmsb-lyon.bsky.social

Contact me for more info !

>> Apply on the CNRS webpage emploi.cnrs.fr/Offres/CDD/U...
Portail Emploi CNRS - Offre d'emploi - Postdoctoral researcher Microbiology (M/F)
emploi.cnrs.fr
October 22, 2025 at 9:35 AM
Reposted by Sophie Abby
📣 New PhD student position opening in my lab!
Soils are full of microbes, but how many are active?
Surprisingly, we still lack reliable methods to answer this.
If you are interested in microbial dormancy and are fascinated by the Alps and glacier forefields, contact me.
🏔️ 🦠 💤 🧬 🎓
October 13, 2025 at 12:20 PM
Reposted by Sophie Abby
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)
emploi.cnrs.fr
October 9, 2025 at 12:18 PM
Reposted by Sophie Abby
The decisions for LEGEND are out: legend2025.sciencesconf.org/data/book_le...

I'm really looking forward to hearing these 21 exciting presentations (and additional 30 posters) next December.

If you want to attend too, registration is open until October 17th through legend2025.sciencesconf.org
October 8, 2025 at 11:04 AM
Reposted by Sophie Abby
Become my colleague @oxfordbiochemistry.bsky.social !
2 Associate Professorships in the areas of
- prokaryotic/eukaryotic microbiology
- metabolism

my.corehr.com/pls/uoxrecru...
Job Details
my.corehr.com
September 29, 2025 at 9:25 AM
Reposted by Sophie Abby
Now completely published :)
Really proud of this paper led with Karla at @cstairs.bsky.social lab.
doi.org/10.1093/isme...
Anaerobic breviate protist survival in microcosms depends on microbiome metabolic function
Abstract. Anoxic and hypoxic environments serve as habitats for diverse microorganisms, including unicellular eukaryotes (protists) and prokaryotes. To thr
doi.org
September 27, 2025 at 6:50 AM
Really glad to announce a new preprint from our lab: Global distribution of quinones in Bacteria! We here combine comparative genomics and text mining to leverage information on quinones distribution from thousands of articles describing new species and from dozens of thousands of genomes! 1/5
September 18, 2025 at 10:10 AM
Reposted by Sophie Abby
ATLASea #recrute:

Ingénieur développeur - DevOps (H/F) à RENNES
IT en contrat CDD de 13 mois
Date d'embauche prévue : 1 novembre 2025

Plus d'informations:
emploi.cnrs.fr/Offres/CDD/U...

#hiring #job
Portail Emploi CNRS - Offre d'emploi - Ingénieur développeur - DevOps (H/F)
emploi.cnrs.fr
September 17, 2025 at 2:02 PM
Reposted by Sophie Abby
Deadline approaching on Sept 17! We are hiring a Full Professor of Environmental Biogeochemistry of Metals at #CeMESS at the University of Vienna.

Learn more: 🔗 edge.univie.ac.at/news-talks/n...

@edge-vienna.bsky.social @univie.ac.at #EnvironmentalBiochemistry
We are hiring: Full Professor of Environmental Biogeochemistry of Metals
Human activities are driving rapid environmental change on a global scale, with pollutants playing a critical role in pushing planetary systems beyond safe limits. These changes have profound conseque...
edge.univie.ac.at
September 10, 2025 at 10:31 AM
Reposted by Sophie Abby
Après plus de deux ans de travail, et grâce à l'implication de près de 30 collègues chercheuses et chercheurs de presque tous les champs des sciences, voici enfin dans toutes les librairies "Le Grand Livre de l'Exobiologie".
@lisa-ipsl.bsky.social @upecofficiel.bsky.social @ipsl.bsky.social @cnes.fr
September 10, 2025 at 5:59 PM
Reposted by Sophie Abby
Please re-post:

Interested in chromatin and its evolution? Good news! There's still time to join us in beautiful Catalonia (9-12 Dec) to discuss eukaryotic, bacterial, archaeal, and viral chromatin and how it all hangs together meetings.embo.org/event/24-evo...

Abstract deadline: 30 September
EvoChromo: Evolutionary approaches to research in chromatin
Chromatin is the complex of DNA, RNA and protein that is found making up the chromosomes in eukaryotic cells. Chromatin is essential for proper genome function and is involved in chromosome segregati…
meetings.embo.org
September 8, 2025 at 11:14 AM
Reposted by Sophie Abby
While journal publishing has always been deeply problematic, hurting both the pace and trajectory of science, something is happening in this moment that is finally causing the system to crumble under its own weight and cost.
1/
September 8, 2025 at 7:52 PM
Reposted by Sophie Abby
To all post-docs: The Genome Biology dept ‪@embl.org
has an Independent faculty position. Fantastic place to set up your lab –great package: core funding, fantastic Ph.D. students, cutting edge core facilities & great colleagues. Closing date Sept 19th
embl.wd103.myworkdayjobs.com/en-US/EMBL/j...
Group Leader - Genome Biology Unit
Are you ready to lead groundbreaking research in Genome Biology? Join us at EMBL! We are seeking a motivated scientist to lead an independent research group addressing exciting and original biological...
embl.wd103.myworkdayjobs.com
July 30, 2025 at 1:41 PM
Reposted by Sophie Abby
Here's our new broad review on the extended mobility of plasmids, about all mechanisms driving and limiting their transfer. From conjugation to conduction, phage-plasmids to hitchers, molecular to evolutionary dynamics, ecology to biotech. The state of affairs. 1/9 academic.oup.com/nar/article/...
July 23, 2025 at 7:35 AM
Reposted by Sophie Abby
👏 Ca y est, #JOBIM2025 est officiellement fini !

Au nom de toute l'équipe, merci pour votre participation, et pour toutes ces discussions scientifiques intenses et stimulantes.
Merci aussi pour votre enthousiasme, votre bienveillance et tous ces rires échangés pendant la conférence.

1/2 ⤵️
July 11, 2025 at 7:31 PM
Reposted by Sophie Abby
‼️ Le programme détaillé des #JOBIM2025 est en ligne ‼️

📍Rendez-vous sur jobim2025.labri.fr/detailed_pro...
July 1, 2025 at 6:38 PM
Reposted by Sophie Abby
After 5 amazing years @pilhoferlab.bsky.social I'm starting my lab @embl.org Grenoble this November embl.org/wollweber
We'll image Asgard archaea and many other strange microbes ( #archaeasky, #protistsonsky..) to understand eukaryogenesis
First job ad: #teamtomo scientist!🔬❄️ tinyurl.com/2rdu2ze6
June 27, 2025 at 10:58 AM
Nous recrutons un IE en bioinformatique pour faire de l'analyse évolutive de séquences biologiques (CDD de 22 mois) dans le cadre d'un projet ANR.

L'offre est disponible ici : emploi.cnrs.fr/Gestion/Offr...
N'hésitez pas à partager ! Merci ! 🙏
Me contacter pour toute info supplémentaire.
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emploi.cnrs.fr
June 27, 2025 at 7:11 AM
Reposted by Sophie Abby
‼️Le #programme synthétique de @jobim2025.bsky.social est en ligne‼️

📍Rendez-vous sur jobim2025.labri.fr pour toutes informations concernant #JOBIM2025
June 26, 2025 at 8:53 PM
Reposted by Sophie Abby
We are looking for new recommenders to join Peer Community in Genomics! The position of “recommender” is analogous to an associate editor at a traditional journal. However, recommenders are not obliged to handle any manuscripts.
June 12, 2025 at 6:02 AM
Reposted by Sophie Abby
Looking for a postdoc on bacterial-insect symbiosis, combining evolution and molecular mechanisms? I'll have one open in my lab starting Sept 2025. If interested contact me (or find me at the GRC on Animal-microbe symbiosis if you'll be there). #SymbioSky
May 29, 2025 at 8:11 PM
Reposted by Sophie Abby
NIH funding supporting the HMMER and Infernal software projects has been terminated. NIH states that our work, as well as all other federally funded research at Harvard, is of no benefit to the US.
May 22, 2025 at 12:42 PM