Sam von der Dunk
@derdunk.bsky.social
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📥 655
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Studying the evolution of complexity through modelling and phylogenomics
reposted by
Sam von der Dunk
Oxford Biology
8 days ago
Oxford Biology is growing 📢 We’re appointing 3 Associate Professors in: 🌱 Plant Sciences 🦉 Animal Behaviour 🔬 Molecular Cell Biology 3 fields. 3 opportunities. One new home for Oxford Biology. Learn more 👉
bit.ly/41S2Tc7
Apply now 👉
bit.ly/488CNW3
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Excited with two new preprints on evolution of molecular structure, in RNA (
doi.org/10.1101/2025...
,
@n-martin.bsky.social
) and proteins (
doi.org/10.1101/2025...
). Both RNA and protein structures are often conserved across evolution, but the underlying reasons are very different.
22 days ago
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reposted by
Sam von der Dunk
Julian Vosseberg
about 1 month ago
And thanks to all poster presenters, including Moisès Bernabeu whose poster was in the top 5 of best posters at
#ESEB2025
. Congrats!
add a skeleton here at some point
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reposted by
Sam von der Dunk
Marc Robinson-Rechavi
about 1 month ago
Sam von der Dunk: we know that RNA structure is robust to mutation yet evolvable. What about protein structure? Take advantage of ESMfold
https://doi.org/10.1126/science.ade2574
Natural proteins are robust to mutations, whereas random amino-acid sequences are not. Even disordered natural […]
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Original post on ecoevo.social
https://ecoevo.social/@marcrr/115071804016187245
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Great to see so many people at our symposium om the origin of eukaryotes. Thanks to all the speakers!
#ESEB25
@julianvosseberg.bsky.social
about 1 month ago
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Interactive symbiosis in silico (back) and in vivo (front).
#ESEB25
about 1 month ago
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The exciting project of Alkmini Zania on the impact of sex on endosymbiosis reveals complex evolutionary dynamics. What could this mean for early eukaryotes?
www.biorxiv.org/content/10.1...
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The risk of sexual reproduction promotes the evolution of regulation between host and symbionts
Sexual reproduction is a widely spread feature of eukaryotes and was already present in the last eukaryotic common ancestor (LECA). Most extant eukaryotes inherit mitochondria from a single parent, bu...
https://www.biorxiv.org/content/10.1101/2025.07.30.667627v1.full.pdf+html
about 2 months ago
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reposted by
Sam von der Dunk
Theoretical Biology & Bioinformatics @ UU
3 months ago
🚨 Join us at TBB Utrecht by applying for this evo-devo PhD position! 🚨
www.uu.nl/en/organisat...
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PhD Position in Multiscale Mechanistic Modelling of Animal Development
How do protein interactions at the subcellular scale regulate the morphology of an entire organ? Join us to explore this question with computer models!
https://www.uu.nl/en/organisation/working-at-utrecht-university/jobs/phd-position-in-multiscale-mechanistic-modelling-of-animal-development
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reposted by
Sam von der Dunk
Julian Vosseberg
5 months ago
One week left to submit your abstract!
@eseb2025.bsky.social
add a skeleton here at some point
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reposted by
Sam von der Dunk
Melissah Rowe
5 months ago
Share your work on host-associated microbiomes in our symposium
@eseb2025.bsky.social
- with speakers Hassan Salem
@hassansalem.bsky.social
and Carola Petersen. Abstract deadline April 25th. Florent, Klara, and I would love to see you there!
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reposted by
Sam von der Dunk
Alvaro San Millan
6 months ago
Join us in at
#ESEB2025
Barcelona for our symposium on microbial adaptation to changing conditions. Organised by
@mtoll8.bsky.social
@javierdelafuente.bsky.social
and me. Amazing invited speakers
@saramitri.bsky.social
and Itzik Mizrahi!!
@eseb2025.bsky.social
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#ESEB2025
Exciting symposium alert: (S50) Unravelling the origin of eukaryotes. 🦑🌴 With speakers Purificación López-García and Mark Field. We are looking forward to your abstract submissions!
eseb2025.com/list-of-symp...
@julianvosseberg.bsky.social
6 months ago
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Here's a cool article
doi.org/10.1038/s415...
, which supports my evolutionary model of a prokaryotic cell cycle (
doi.org/10.1093/gbe/...
), in which we allow evolution to exploit the changes in gene dosage induced by replication to improve cell-cycle regulation.
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Transcription–replication interactions reveal bacterial genome regulation - Nature
Single-cell expression data from bacteria are used to classify gene regulatory architectures in relation to gene expression dynamics and the cell cycle, revealing distinct categories of gene regulator...
https://doi.org/10.1038/s41586-023-06974-w
6 months ago
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reposted by
Sam von der Dunk
Fabien Burki
10 months ago
I would really appreciate a wide sharing of this post, as the candidate profile I am looking for is outside of my regular circle. Thank you so much. More info and how to apply here:
uu.varbi.com/se/what:job/...
(2/2)
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Postdoktor inom i proteomik och eukaryotisk evolution
Postdoktor i proteomik och eukaryotisk evolution Detta projekt är en del av ett ERC Consolidator-anslag (PlastidOrigin) som tilldelats Fabien Burki och syftar till att studera en av de mest omvälvan
https://uu.varbi.com/se/what:job/jobID:778680/
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reposted by
Sam von der Dunk
Ross Fitzgerald
10 months ago
New MRC-funded postdoc with me on comparative bacterial genomics/phylodynamics
@roslininstitute.bsky.social
university of Edinburgh. Great multidisciplinary team and collaboration with partners at Shanghai Jao Tong University.
elxw.fa.em3.oraclecloud.com/hcmUI/Candid...
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PDRA in Bacterial Genomics
We are looking for a Post-Doctoral Research Associate in Bacterial Genomics at the Laboratory for Bacterial Evolution and Pathogenesis (www.ed.ac.uk/roslin/research/divisions/bacteriology/lbep) at The...
https://elxw.fa.em3.oraclecloud.com/hcmUI/CandidateExperience/en/sites/CX_1001/job/11709
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reposted by
Sam von der Dunk
10 months ago
Exciting news! 🎉 My article is out in iScience presenting DNNGIOR, a deep learning tool advancing gap-filling in metabolic models. Huge thanks to co-authors
@cmelkonian.bsky.social
,
@hariszaf.bsky.social
, Daniel Garza, Andreas Haas and
@bedutilh.bsky.social
. Read at
shorturl.at/REOm8
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Improving genome-scale metabolic models of incomplete genomes with deep learning
Microbial genomics; Biocomputational method; Computational bioinformatics; Genomic analysis.
https://shorturl.at/REOm8
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The last chapter of my PhD is out now!
#PLOSCompBio
: Intracellular signaling in proto-eukaryotes evolves to alleviate regulatory conflicts of endosymbiosis
t.co/IUCEnNcBkG
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Intracellular signaling in proto-eukaryotes evolves to alleviate regulatory conflicts of endosymbiosis
Author summary Virtually all life forms visible by the naked eye are eukaryotes, complex cells with a nucleus, mitochondria and many other subcellular structures as well as the regulatory mechanisms t...
https://t.co/IUCEnNcBkG
over 1 year ago
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