Simon Sieber
PI at the University of Zürich. Natural Products Discovery, Metabolomics, Bacteria Metabolites, Cyanobacteria Blooms, Quorum Sensing, Chemoselective Probes, Diazeniumdiolates. simonsiebergroup.com
- Reposted by Simon SieberWe built GenoPHI: a machine learning workflow that predicts phage-host interactions at strain level. This could help rapidly select phages to treat drug-resistant bacterial infections or for microbiome engineering without exhaustive lab testing. www.biorxiv.org/content/10.1...
- Reposted by Simon SieberAaand it's out! Meet MITE - the natural product tailoring enzyme database, just published in @narjournal.bsky.social! MITE DB captures the substrate- and reaction-specificity of tailoring enzymes, allowing to capture this information in a human- and machine-readable way! doi.org/10.1093/nar/...
- Into natural product biosynthesis & tailoring enzymes? Frustrated by the lack of a dedicated resource to explore their functions? Tired of endless literature searches for reaction info? Meet the MITE database, freely available at mite.bioinformatics.nl. Preprint: doi.org/10.26434/che... (1/8)
- Reposted by Simon SieberInto natural product biosynthesis & tailoring enzymes? Frustrated by the lack of a dedicated resource to explore their functions? Tired of endless literature searches for reaction info? Meet the MITE database, freely available at mite.bioinformatics.nl. Preprint: doi.org/10.26434/che... (1/8)
- Reposted by Simon SieberWe are looking for a 3-year postdoc to work with Daniel Probst, Justin van der Hooft and myself on an exciting project involving federated learning and integrative omics for discovery of new antibiotics from natural products. Apply here: www.wur.nl/en/vacancy/p... Please share!
- Thrilled to see our study on novel toxins from cyanobacteria blooms in #Fribourg in STOTEN! Our results indicate that Phormidium is the producer of cyanopeptolins, whose side chains are crucial for their activity. Great collaboration with Pilar Junier www.sciencedirect.com/science/arti...
- Reposted by Simon SieberThanks to the organisers for a fantastic #ICTC13 and to all the participants for the super fruitful discussions. It was my first ICTC and I had such a wonderful experience 🤩. I'm so looking forward to ICTC14 👀 @ictc13.bsky.social
- Reposted by Simon SieberMany thanks to the @ictc13.bsky.social organizers for this excellently organized and inspiring conference and the always friendly, welcoming + enthusiastic atmosphere 💙💚
- Reposted by Simon SieberOur group photo ❤️. Big thanks to all participants for their contributions.
- Reposted by Simon SieberAmazing keynote talk by Elke Dittmann @dittmannelke.bsky.social "Dissecting the Role of #Microcystin on the Carbon Concentrating Mechanism of #Microcystis aeruginosa".
- A great start to the 13th International Conference on Toxic Cyanobacteria at a beautiful venue in Crete with more than 290 participants! Fantastic work from the organizing committee !! @ictc13.bsky.social #cyanobacteria
- Reposted by Simon Sieber🎉 Big day for our group: our first publication is out! Tom did a fantastic job highlighting current trends & opportunities in peptide catalysis — now published in Chem Catalysis (open access). Huge congrats, Tom! www.cell.com/chem-catalys...
- Reposted by Simon SieberExcited to share our new preprint: AI-guided Antibiotic Discovery Pipeline from Target Selection to Compound Identification! It includes a comprehensive benchmark of structure-based drug design (SBDD) methods and presents a full, practical pipeline for antibiotic discovery. arxiv.org/abs/2504.11091
- Reposted by Simon SieberA new research article from @medinadiscovery.bsky.social is now out in Journal of Natural Products. It describes the discovery of a novel family of isocyanide antibiotics with broad spectrum activity against Gram negative bacteria. pubs.acs.org/doi/10.1021/...
- Reposted by Simon SieberWe put together this protocol in part to encourage broader adoption of Multiplexed Activity Metabolomics, an engine for functional metabolomics of all types including specialized metabolite discovery. We enjoy knowing if metabolite is active before isolating it, and so should you! #natprod
- Reposted by Simon SieberThe latest discovery from the lab and great colleagues at McMaster and U Illinois, Chicago. Lariocidin, a new lasso peptide antibiotic that inhibits the ribosome. rdcu.be/efdha
- Reposted by Simon SieberThe newly discovered lariocidine has shown promise against AMR bacteria by targeting ribosomes with a novel mechanism of action. While still years away from market approval, its potential to combat #AMR infections offers hope in addressing the global AMR crisis. www.thevermilion.com/why-could-a-...
- Reposted by Simon SieberDereplication of secondary metabolites from Sophora flavescens using an LC–MS/MS-based molecular networking strategy #SciRep www.nature.com/articles/s41...
- Reposted by Simon Sieberchemistry.unwrapped @uzhchemistry.bsky.social
- Reposted by Simon SieberIt's a fantastic feeling: Alfred Werner Legat has accepted our research grant, which focuses on developing a chemoselective approach to targeting natural products! Thank you for your support! @uzhchemistry.bsky.social
- Reposted by Simon SieberThe results published in Redox Biology by @locbp.bsky.social @uzhchemistry.bsky.social fill an important gap in the knowledge of redox homeostasis in subcellular organelles.
- Reposted by Simon SieberThis study from the Tilley Lab @uzhchemistry.bsky.social highlights the significance of morphology control in optimizing Sb₂Se₃ photocathodes, providing insights for future material and device design. pubs.rsc.org/en/content/a...
- Reposted by Simon SieberI am excited to share this new paper out in JPR - "MS-RT: A Method for Evaluating MS/MS Clustering Performance for Metabolomics Data." This work introduces the MS-RT method to assess MS/MS clustering accuracy on metabolomics data. doi.org/10.1021/acs....
- Reposted by Simon SieberToday we launched a new project – chemistry.unwrapped which we were working on over the last year. If you are interested, follow us on Instagram, TikTok or YouTube! :) @uzhchemistry.bsky.social @juriceklab.bsky.social #pisky #chemsky #chemistryisfun #funexperiments
- It's a fantastic feeling: Alfred Werner Legat has accepted our research grant, which focuses on developing a chemoselective approach to targeting natural products! Thank you for your support! @uzhchemistry.bsky.social
- Reposted by Simon SieberUnusual heterocycles and biosynthesis of natural products, published today in Communications Chemistry 🧵
- Reposted by Simon SieberCongratulations Véronique Mathys on the successful defence of your bachelor thesis 👏👏👏 very nice work under the supervision of Noah Rychener ✨ @juriceklab.bsky.social @uzhchemistry.bsky.social #chemsky
- Reposted by Simon SieberLLM-assisted tool generation is awesome. To extend the HRMS checker (doi.org/10.1021/acs....) to automated experimental checking, a peptide sequence parser function (ca. 200 lines of code) was generated in under 2 hours. #ChemSky
- Reposted by Simon SieberDearomative Diels-Alder reactions are currently hot in total synthesis. They go back to Peter Yates (who trained my mentor Sam Danishefsky). And the Wessely reaction was also discovered in Vienna :)
- Reposted by Simon SieberUnlocking hidden treasures: the evolution of high-throughput mass spectrometry in screening for cryptic natural products Brett Covington & Mohammad Seyedsayamdost @natprodreports.bsky.social pubs.rsc.org/en/content/a...
- Reposted by Simon SieberAbstract submissions & registration for the XIV ECMNP (European Conference on Marine Natural Products) are open Piran, Slovenia. 30th Sept-3rd Oct 2025 www.ecmnp25.eu Abstract deadline: 15.3.25 ecmnp25.eu/abstract-sub... Early bird registration deadline: 20.5.25 ecmnp25.eu/registration/
- Reposted by Simon SieberOne more player in strigolactone biosynthesis just out @science.org 🔽 www.science.org/doi/10.1126/...
- Reposted by Simon SieberTwo very nice applications of molecular networking published this week. One for natural compounds doi.org/10.1021/jacs... and one for #PFAS doi.org/10.1038/s414... @gnps2.bsky.social #teammassspec
- Reposted by Simon SieberA Review from Sanath Kandy, Michael Pasquale, and Jonathan Chekan highlights newly discovered enzymes responsible for aromatic side-chain crosslinking in ribosomally synthesized and post-translationally modified peptides (RiPPs) www.nature.com/articles/s41...
- Reposted by Simon SieberInteresting paper by the @hoceklab.bsky.social in @commschem.bsky.social. They synthesized NTPs containing a squaric acid monoester monoamide, enzymatically incorporated them into RNA and used the modified RNA for cross-linking to lysines in RNA-binding proteins. www.nature.com/articles/s42...
- Reposted by Simon SieberCheck out our paper on veratramine and isosteroidal alkaloids, now published in JACS. pubs.acs.org/doi/10.1021/...
- Reposted by Simon SieberAntarmycins: Discovery, Biosynthesis, Anti-pathogenic Bacterial Activity, and Mechanism of Action from Deep-Sea-Derived Pseudonocardia antarctica pubs.acs.org/doi/full/10....
- Reposted by Simon SieberDon't know who to follow for the best in microbial bioinformatics? This is the Starter Pack you need! bsky.app/starter-pack...at://did:plc:q5tlivvxn74iprf3fvm67xdm/app.bsky.graph.starterpack/3lfeqdhboxy2s
- Reposted by Simon SieberTWeeP (This Week's Paper): In @angewandtechemie.bsky.social Rai et al. disclosed a tripeptide with an N-terminal azide and C-alkyne that can undergo topochemical polymerization in its crystalline form. The material is good at gluing together biological matter. onlinelibrary.wiley.com/doi/epdf/10....
- Reposted by Simon SieberWe are hiring! Exciting project on the performance enhancement of peptides. Check out and share: jobs.uzh.ch/job-vacancie...
- Great opportunity for a PhD student position. I strongly recommend it!
- We are hiring! Exciting project on the performance enhancement of peptides. Check out and share: jobs.uzh.ch/job-vacancie...
- Reposted by Simon SieberFinally updated the lab website: www.medicinesfromthesea.com
- Reposted by Simon SieberRead more in our study published at www.nature.com/articles/s42...
- Reposted by Simon SieberTWeeP (This Week's Paper): Happy new year! I'm back with my weekly highlights after the holiday break. Let's kick off 2025 with some nice bioconjugation work by Esteve, Koniev, Lehn et al. in #JACS. Dynamic imine formation triggers proximity-driven SNAr on proteins. pubs.acs.org/doi/abs/10.1...
- Reposted by Simon Sieber📊 What I learned from analyzing 3000+ SI PDFs: Only 40% of papers w/ #MassSpectrometry data compliant w/ journal guidelines! From zero #Python experience to an automated checker Read the paper: pubs.acs.org/doi/10.1021/... Try the tool: github.com/match22lab/H... #DataScience #ChemPython #ChemSky
- Reposted by Simon SieberA Christmas present to all of the lasso peptide connoisseurs out there. The next chapter in our work is on triculamin is ready on bioRxiv. Great work by two incredibly talented graduate students @amerrild.bsky.social and @tizianasvenningsen.bsky.social. www.biorxiv.org/content/10.1...
- Reposted by Simon SieberAre you working on natural products? We’ve just released version 4.0 of the MIBiG data standard and repository! It now includes 3059 biosynthetic gene clusters, thanks to the combined efforts of 288 expert contributors. A thread: (1/8) academic.oup.com/nar/advance-...
- Reposted by Simon SieberReal-Time Observation of Clickable #Cyanotoxin Synthesis in Bloom-Forming #Cyanobacteria Microcystis aeruginosa and Planktothrix agardhii. By Rainer Kurmayer and Rubén Morón Asensio doi.org/10.3390/toxi... #ICTC13
- Thrilled by the team's achievements: 1) discovering the dihydrosydnone heterocycle as a novel natural product scaffold, and 2) unraveling a complex stereodiverging mechanism! Congrats to everyone involved! @commschem.bsky.social @uzhchemistry.bsky.social #NaturalProduct #Biosynthesis
- Elegant strategy developed by the Hertweck group for the catch, enrich, and release of furan-containing natural products. The approach uses a reversible process via Diels-Alder/retro-Diels-Alder reactions. Congrats to the authors! #NaturalProducts #ReversibleTagging doi.org/10.1002/anie...
