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Igor Fesenko

@igorfesenko.bsky.social
59 followers 99 following 18 posts

Peptidomics, microproteins, proteomics, computational biology igorfesenko.github.io

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Reposted by Igor Fesenko
Osterman Ilya @ostermanilya.bsky.social · 15/12/2025
De novo origin of numerous microproteins in enterobacteria Igor Fesenko, Svetlana A Shabalina, Gisela Storz, Eugene V Koonin. Nucleic Acids Research, Volume 53, Issue 22, 11 December 2025 doi.org/10.1093/nar/...
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Igor Fesenko @igorfesenko.bsky.social · 13/12/2025
A significant proportion of de novo smORFs overlap with regulatory elements in intergenic regions, suggesting that translation-coupled regulatory mechanisms affecting downstream gene expression may contribute to de novo gene emergence.
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Igor Fesenko @igorfesenko.bsky.social · 13/12/2025
Our analysis indicates that bacterial pangenomes are largely closed, suggesting that the capacity of intergenic regions to generate de novo genes is limited.
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Igor Fesenko @igorfesenko.bsky.social · 13/12/2025
Because identifying de novo gene emergence in bacterial genomes is challenging, we constructed orthologous groups of microproteins (microOGs) based on sequence similarity and conservation of gene synteny in flanking regions
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Igor Fesenko @igorfesenko.bsky.social · 13/12/2025
I am happy to present our new paper on the de novo birth of microproteins in bacterial intergenic regions, conducted in collaboration with the Storz lab. academic.oup.com/nar/article/...
academic.oup.com
De novo origin of numerous microproteins in enterobacteria
Abstract. Bacterial genomes encompass numerous small open reading frames (smORFs), some of which encode functional microproteins or perform noncoding regul
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Reposted by Igor Fesenko
Sofya Garushyants @garushyants.bsky.social · 15/09/2025
hey bluesky 👋 visa hurdles mean I’m looking for opportunities outside the US. I’m a computational biologist (bacterial + phage genomics, postdoc in Koonin’s group @ NIH). I am interested in teaming up on funding apps. reach out if this resonates!
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Igor Fesenko @igorfesenko.bsky.social · 13/03/2025
Excitingly, treating moss plants with sulfated PSY and PSY-like peptides stimulated cell elongation #peptides
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Igor Fesenko @igorfesenko.bsky.social · 13/03/2025
Happy to share our manuscript is now published🎉 in @PPLplantarum A key finding: novel stress inducible peptides in bryophytes dx.doi.org/10.1111/ppl....
dx.doi.org
Comparative analysis of small secreted peptide signaling during defense response: insights from vascular and non‐vascular plants
Small secreted peptides (SSPs) play an important role in modulating immune responses in all land plants. However, the evolution of stress peptide signaling in different plant phyla remains poorly und...
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Reposted by Igor Fesenko
Molecular Cell @cp-molcell.bsky.social · 06/03/2025
Read out latest issue here: www.cell.com/molecular-ce...
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Igor Fesenko @igorfesenko.bsky.social · 06/03/2025
Congratulations!🎉
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Igor Fesenko @igorfesenko.bsky.social · 06/03/2025
Probably chloroplast proteins play a role in this process nph.onlinelibrary.wiley.com/doi/full/10....
nph.onlinelibrary.wiley.com
The role of chloroplast protein remodeling in stress responses and shaping of the plant peptidome
In addition to photosynthesis, chloroplasts perform a variety of important cellular functions in the plant cell, which can, for example, regulate plant responses to abiotic and biotic stress conditio...
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Igor Fesenko @igorfesenko.bsky.social · 06/03/2025
We also showed that enhanced protein degradation leads to the generation of peptides with antimicrobial activity, functioning as a first line of defense against pathogens bmcplantbiol.biomedcentral.com/articles/10....
bmcplantbiol.biomedcentral.com
Specific pools of endogenous peptides are present in gametophore, protonema, and protoplast cells of the moss Physcomitrella patens - BMC Plant Biology
Background Protein degradation is a basic cell process that operates in general protein turnover or to produce bioactive peptides. However, very little is known about the qualitative and quantitative ...
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Igor Fesenko @igorfesenko.bsky.social · 06/03/2025
This aligns with our previous study on plants, where we proposed the concept of “active management” of peptide pools under stress conditions #peptides #antimicrobial bmcplantbiol.biomedcentral.com/articles/10....
bmcplantbiol.biomedcentral.com
Phytohormone treatment induces generation of cryptic peptides with antimicrobial activity in the Moss Physcomitrella patens - BMC Plant Biology
Background Cryptic peptides (cryptides) are small bioactive molecules generated via degradation of functionally active proteins. Only a few examples of plant cryptides playing an important role in pla...
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Igor Fesenko @igorfesenko.bsky.social · 06/03/2025
A fascinating paper demonstrating that proteasome-derived peptides can serve as a natural source of antimicrobial peptides www.nature.com/articles/s41...
nature.com
Cell-autonomous innate immunity by proteasome-derived defence peptides - Nature
Proteasomal degradation of cellular proteins generate defence peptides constitutively and in response to bacterial infection. Such peptides might provide a source of natural antibiotics that...
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Igor Fesenko @igorfesenko.bsky.social · 21/02/2025
What is the difference between small and weeny?
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Igor Fesenko @igorfesenko.bsky.social · 20/02/2025
Thank you so much, Nikos! Yes, we significantly improved the manuscript with our collaborators in the wet lab
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Reposted by Igor Fesenko
Molecular Cell @cp-molcell.bsky.social · 19/02/2025
Online Now: The hidden bacterial microproteome
dlvr.it
The hidden bacterial microproteome
This study uncovers thousands of microprotein families encoded by intergenic small open reading frames (smORFs) in bacterial genomes and provides a publicly available resource featuring structural predictions, predicted interactions between microproteins…
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Igor Fesenko @igorfesenko.bsky.social · 19/02/2025
The overexpression of species-specific microprotein which we predicted to interact with calcium transporter (Bax protein family) resulted in downregulation of protein level in cell
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Igor Fesenko @igorfesenko.bsky.social · 19/02/2025
Complete information on the predicted microproteins is available here colab.research.google.com/github/IgorF...
colab.research.google.com
Google Colab
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Igor Fesenko @igorfesenko.bsky.social · 19/02/2025
Compared to the preprint, our esteemed collaborators validated selected microproteins by western blotting
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Igor Fesenko @igorfesenko.bsky.social · 19/02/2025
Excited to share our publication on bacterial microproteome www.cell.com/molecular-ce... #microproteins
cell.com
The hidden bacterial microproteome
This study uncovers thousands of microprotein families encoded by intergenic small open reading frames (smORFs) in bacterial genomes and provides a publicly available resource featuring structural pre...
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Reposted by Igor Fesenko
Sebastiaan van Heesch @sebastiaanvheesch.bsky.social · 18/02/2025
Hi everyone! We are still welcoming applicants for a computational postdoc position. If your profile fits our lab interests, please do reach out to me for more information or apply directly via the link below. I'm looking forward to reading your application! www.academictransfer.com/en/jobs/3488...
academictransfer.com
Postdoc Computational Genomics of ORFs & Microproteins
The Princess Máxima Center for pediatric oncology is a unique interdisciplinary institute that brings together all the highly complex care, research, and education to provide the best possible care fo...
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Reposted by Igor Fesenko
Stephan Wenkel @microproteins.bsky.social · 21/01/2025
We’re looking for a postdoc in plant bioengineering to join an exciting interdisciplinary ERC project @UPSC! Work in a vibrant, international environment alongside top researchers, pushing the boundaries of plant science. Apply here: shorturl.at/smdwD
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Reposted by Igor Fesenko
Ralf Reski @reskilab.bsky.social · 17/01/2025
Very cool paper in Science: Simulating 500 million years of evolution with a language model www.science.org/doi/10.1126/...
science.org
Simulating 500 million years of evolution with a language model
More than three billion years of evolution have produced an image of biology encoded into the space of natural proteins. Here we show that language models trained at scale on evolutionary data can gen...
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Reposted by Igor Fesenko
Nature @nature.com · 14/01/2025
Book review: The astonishing scientists who starved to protect plants during the Second World War go.nature.com/4gSJOfk
go.nature.com
The astonishing scientists who starved to protect plants during the Second World War
The trials and tribulations of the world’s first seed bank reveal botanists’ enormous generosity and sacrifice during the siege of Leningrad.
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Reposted by Igor Fesenko
Sebastiaan van Heesch @sebastiaanvheesch.bsky.social · 14/01/2025
### Job alert, please repost! ### We're recruiting a computational postdoc in evolutionary genetics to help us understand whether recently emerged ncORFs and microproteins play roles in childhood brain cancers. Will you become part of our team? werkenbijprinsesmaximacentrum.nl/en/vacancy/p...
werkenbijprinsesmaximacentrum.nl
Postdoc computational evolutionary genomics of non-canonical ORFs and microproteins in childhood brain cancer - Werken bij Prinses Maxima Centrum
Background Over recent years, the van Heesch lab has discovered thousands of new “non-canonical” open reading frames (ncORFs) translated from regions of the genome believed not to code for protein. Ma...
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Igor Fesenko @igorfesenko.bsky.social · 01/01/2025
Happy New Year!☃️
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Reposted by Igor Fesenko
John Prensner @johnprensner.bsky.social · 26/11/2024
Do you want to go further with your proteomics? Looking for something new in cancer? Check out microproteins! Thanks to @science.org for featuring this work, in collaboration with @sebastiaanvheesch.bsky.social, #HUPO, @gencodegenes.bsky.social www.science.org/content/arti... 🔎 microprotein 🧬 💻
science.org
‘Dark proteome’ survey reveals thousands of new human genes
Database confirms that overlooked segments of the genome code for a multitude of tiny proteins
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Reposted by Igor Fesenko
Anne-Ruxandra Carvunis @carvunis.bsky.social · 19/11/2024
Small proteins, mighty potential! Whether you're an afficionado or just interested in diving into the world of #microproteins, join us for a Keystone meeting February 2025 in Beverly MA: www.keystonesymposia.org/conferences/...
keystonesymposia.org
Microproteins: from Discovery to Applications | Keystone Symposia
Join us at the Keystone Symposia on Microproteins: from Discovery to Applications, February 2025, in Beverly, with field leaders!
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