🔬 Next #BayBioMS – Advanced #Mass #Spectrometry Seminar! Join us next Wednesday for two fantastic talks highlighting cutting-edge #MassSpec applications, from biomedical breakthroughs to soil biogeochemistry! See you there! 🙌 #TeamMassSpec #Proteomics #Metabolomics #Bioinformatics

Happy to see this collaborative work out in @newphyt.bsky.social! 📖 Our lab provided #Proteomics and #MassSpectrometry insights to help characterize how powdery mildew fungi exploit the host plant's own RALF peptide signaling pathway during infection.

Excited to share our latest collaborative paper, recently published in @newphyt.bsky.social! 🌿 How do powdery mildew fungi successfully colonize plants? It turns out they don't bring their own toolkit - they hijack the plant's. Read the full study here 🔗 nph.onlinelibrary.wiley.com/doi/10.1111/...

The study reveals that powdery mildew pathogens exploit the host's endogenous RALF peptide signaling pathway - mediated by the receptor kinase FERONIA (FER) - to create the right conditions for infection.

Rather than producing RALF mimics themselves (as some other pathogens do), powdery mildew fungi rely entirely on the plant's own RALFs to modulate apoplastic pH and remodel the cell wall in ways that favor their colonization.

We contributed #MassSpectrometry and #Proteomics expertise to the study, helping to characterize the RALF-dependent signaling events in the host.

This work highlights a new, potentially broadly relevant mechanism of susceptibility in biotrophic fungi, with exciting implications for durable disease resistance strategies in crops. A big thank you to all the co-authors for the great collaboration!

Calling all #mass #spectrometry enthusiasts! 🔬✨ Join us next week for the @baybioms.bsky.social Advanced Mass Spectrometry Seminar. We have an exciting lineup featuring two fantastic speakers who will cover everything from protein modifications to insect chemical ecology.

🚀 Kicking off the year with our first Advanced #MassSpec Seminar! Join us tomorrow for an exciting session featuring amazing speakers showcasing their recent research in the fields of #Proteomics & #Metabolomics. This is a great opportunity to see how #MassSpectrometry is driving new discoveries.

📰 Now on the news as well. Research in the spotlight. 🔦 Excited to see my and two of my colleagues’ doctoral research presentations featured on the news following the Elite Network of Bavaria project evaluation! 👇🏻 Check the link below for more insights! www.elitenetzwerk.bayern.de/en/home/acti...

Check out our latest collaborative work with Prof. Martin Stegmann! A new PRM-based #targeted #proteomics study led by our Head of Proteomics Dr. Christina Ludwig together with doctoral candidate Genc Haliti @genc-haliti.bsky.social.

🥳 Thrilled to share my first paper contribution as co-author, published recently in @plos.org #Pathogens, an interdisciplinary collaboration driving discovery in #plant #immunity!

🌱 As part of the @baybioms.bsky.social #research collaboration, we contributed with #targeted LC-MS/MS using Parallel Reaction Monitoring #PRM to search for endogenous group II CEP signaling peptides in #Arabidopsis.

👆🏻 Check the link for more details! #MassSpectrometry #TeamMassSpec #Proteomics #Bioinformatics #PhD

🎓 PhD Defense at BayBioMS - Congratulations to Dr. Miriam Abele! We bid farewell to October 2025 - what a month it has been! And what better way to start November than with great news from our first PhD defense!

✨ A decade of science, collaboration, and innovation – celebrating 10 years of #BayBioMS at @tum.de School of Life Sciences! What an incredible day at the 10-Year Anniversary Symposium 🎉

It was such a pleasure to participate in such a diverse symposium with high quality contributions. And ended perfect with joint bike ride around Freising. Thank you @baybioms.bsky.social

✨ Honored to present my #plant #peptidomics research at the Elite Network of Bavaria on-site project review - in the presence of eminent professors, representatives of the Bavarian State Ministry of Science and the Arts, colleagues, and friends.

Grateful for the inspiring discussions and the opportunity to share how we explore plant peptide dynamics through #mass #spectrometry within our doctoral program “The Proteomes That Feed the World”. #Peptidomics #MassSpectrometry #PhD #Research #TeamMassSpec

🎉 #BayBioMS turns 10! 🎉 Next week, we’re celebrating #10years! A decade of cutting-edge #MassSpectrometry. It’s an occasion not to be missed! We look forward to celebrating with you! 🧪🎈 #TeamMassSpec #Proteomics #Metabolomics #Bioinformatics

🧵(1/7) 🎉 #BayBioMS turns 10! 🎉 2025 marks our 10th anniversary of Mapping Molecular Mountains. (Final reminder for next week's big anniversary & many thanks to the extended list of new sponsors.)

🌄 The tradition continues! 🎉 This year’s #BrixenProteomics #SummerSchool once again exceeded expectations. We welcomed passionate young talents and leading experts from academia and industry for a week filled with science, inspiration, and collaboration. 🔬✨

🎉 BayBioMS turns 10! 🎉 2025 marks our 10th anniversary of Mapping Molecular Mountains. Thus, we’re excited to invite you to the 10 Years of #BayBioMS #Symposium – a celebration of a decade of accelerating #MassSpectrometry research at the @tum.de! 🧵(1/6)

🔬 The next BayBioMS Advanced Mass Spectrometry Seminar is happening this Wednesday! 🧪 Doors open at 4:45 PM — free drinks and snacks will be served! This time, we will highlight cutting-edge work in: #Phosphoproteomics (Targeted) #peptidomics #PTM analysis (#citrullination)

Excited our paper is out in Cell @cp-cell.bsky.social! 🧬⚡ DNA photo-crosslinking proteomics in living cells 🎯 Pinpoints protein-DNA interactions to single amino acids 🌎 Globally quantifies DNA binding for >1800 proteins at a timescale of minutes 🔗 www.cell.com/cell/fulltex... 🧵

UV crosslinking works great for protein-RNA complexes, but DNA is much less photo-reactive and photo-crosslinking not commonly used. Analogous, we find that the photo-activatable nucleotide 4ST (DNA) is about ten times less reactive than the commonly used 4SU (RNA). (1/n)

Unlike natural DNA, 4ST can be activated by wavelengths far outside the absorption range of most natural biomolecules. This avoids photodamage, allowing us to use high-power LEDs, with ~1000-fold higher intensity than conventional bulbs, for activating 4ST in living cells (www.uven.org). (2/n)

To analyze protein photo-crosslinked to DNA by proteomics, we develop XDNAX: protein-crosslinked DNA extraction. (3/n)

XDNAX extracts are very clean and we discover previously elusive peptide-DNA crosslinks within them. They pinpoint protein-DNA interaction sites to individual amino acids. (4/n)

In contrast to formaldehyde crosslinking, photo-crosslinking only captures direct interactions (‘zero-distance’). The proteins we find in close proximity to DNA show very high degrees of intrinsic disorder. In fact, intrinsic disorder rises the closer proteins localize to DNA. (5/n)

To identify transcription factors or chromatin modifiers responding to changes in a cell, DNA interactomes can be compared between conditions. Treating breast cancer cells with increasing estrogen doses, we find the estrogen receptor and other regulators recruited to DNA dose-dependently. (6/n)

This also works in primary cells, where we see recruitment of inflammation-associated transcription factors to DNA in macrophages challenged with LPS. (7/n)

We use these quantitative powers to profile three genotoxic drugs and find very distinct reactions in the DNA interactome of cancer cells. This reveals drug-specific vulnerabilities that can be exploited for combination treatments. (8/n)

DNA photo-crosslinking takes 1 minute on ice, while formaldehyde requires 10 minutes at room temperature. We record a time series of photo-crosslinked DNA interactomes during acute BAF inhibition and identify fast-acting restrictors of chromatin accessibility missed by conventional methods. (9/n)

Overall, we present a resource of nearly 50 photo-crosslinked, i.e. direct physical, DNA interactomes and identify 688 peptide-DNA crosslinks. These crosslinks mark known but also unknown protein-DNA interaction sites, some overlapping with variant sites linked to genetic or somatic disease. (10/n)

Very happy we pushed this across the finish line. Huge thanks to all the co-authors: Simon, Shuyao @shashuyao.bsky.social, the Greulich lab @franzigmuc.bsky.social, Susi, Karin @baybioms.bsky.social, Sandra, the Kubicek lab, the Uhlenhaut lab, and especially Bernhard @kusterlab.bsky.social. (11/11)

We were present at #InPPO2025 in beautiful Banff, Alberta, 🇨🇦!

Thank you / Merci, Canada! 🇨🇦 Grateful to have participated for the first time at the ‘6th International Plant Proteomics Organization Conference (InPPO2025)’ - an exciting and dynamic event & community!

It was a true pleasure and privilege to share the progress of my Doctorate research project and the community effort to build a Crop Proteome Atlas of the Elite Network Bavaria supported project ‘Proteomes that Feed the World’, all the way to this part of the globe.

From giving a flash talk and presenting a poster, to the honor of (co-)chairing the ‘Early Career Researcher’ session, it was a rewarding opportunity to engage in conversations across academia, industry, and government of both Canada and the U.S. representatives.

“Cultivating Innovation through the Integration of Plant Science and Proteomics” - a theme that resonates more than ever. #InPPO2025 #PlantProteomics #ECR #ScienceOutreach #Proteomics #TeamMassSpec #Bioinformatics #MassSpec

#MCP News | Miriam Abele, Armin Soleymaniniya & colleagues at @tum.de (@baybioms.bsky.social) developed MS2Bac, a software system that enables bacterial identification from protein data. They published their resource in Molecular & Cellular Proteomics. ow.ly/tooX50VLZcA #TeamMassSpec #ASBMBJournals

That title really undersells it: “we present the most extensive bacterial proteomic resource to date, covering 303 species, 119 genera, and five phyla with over 636,000 unique expressed proteins, confirming the existence of over 38,700 hypothetical proteins.”

Proteomic Diversity in Bacteria: Insights and Implications for Bacterial Identification www.mcponline.org/ar... --- #proteomics #prot-paper

Hey #TeamMassSpec, exciting news to end the week! 🔬✨ We are announcing our next seminar! Join us for the Advanced Mass Spectrometry Seminar with special guest Brendan MacLean, the #PI behind #Skyline — the leading open-source tool for targeted proteomics and metabolomics. 🧪💻

Thrilled to see our work highlighted by @us-hupo.org as Data of the Month! 🧬🔬

Abele et al. developed a comprehensive proteomics workflow, analyzing the proteomes of over 300 diverse bacterial species. The dataset (www.proteomicsdb.org/) enables quantitative comparisons leading to the creation of a new bacterial identification algorithm, MS2Bac. ow.ly/Y8Fc50VlVWc

Our teaching activities are in full swing! This time, our Metabolomics Leader, Dr. Karin Kleigrewe, delivered the lecture series #Metabolomics – An Introduction.

The past week it’s been busy for our Proteomics Leader, Dr. Christina Ludwig, who has been actively engaged in teaching!

It's been a busy and wonderful week of learning and fun at #EMBOQuantPro 👩‍🏫 👏 As the course comes to an end, we would like to say a big thank you to our participants, trainers, and organisers for making this an unforgettable experience! See you at our other events ➡️ https://embl.org/events