Daniel Petras
Dad, Punk Rocker, Scientist, Ocean Lover.
Working with the Functional Metabolomics Lab on developing mass spec tools to understand microbial communities.
www.functional-metabolomics.com
- Reposted by Daniel Petras🌊Paper announcement! 📣 Viral infections rewire the metabolic makeup of their host and thereby create distinct chemical signatures. Can we use metabolic biomarkers to diagnose infections of algal blooms in the ocean? Well, take a look at our new article led by Conny Kuhlisch in @pnas.org >>
- Reposted by Daniel Petraslet's get the community rolling 💪! Thanks to Vilhelm Suksi from @antagomir.bsky.social 's group for the contribution of the notame vignette 🙌
- 🚀 New release: Metabonaut v1.4.0 is here! 1️⃣ New integration with the notame package for robust feature selection. 2️⃣ Added GNPS2 FBMN export for molecular networking. Explore the updates: rformassspectrometry.github.io/Metabonaut/ #Metabolomics #RStats #OpenScience #MassSpec #Bioconductor
- Reposted by Daniel PetrasOffensive role of the Bacillus extracellular matrix in driving metabolite-mediated dialogue and adaptive strategies with the fungus Botrytis #ISMEJournal by @aliciaperezlorente.bsky.social et al from @diegromero.bsky.social and @daniel-petras.bsky.social academic.oup.com/ismej/advanc...
- Reposted by Daniel PetrasOut now! xcms in Peak Form: Now Anchoring a Complete Metabolomics Data Preprocessing and Analysis Software Ecosystem doi.org/10.1021/acs.... with Phillipine and @jorainer.bsky.social (EURAC), @metabomichael.bsky.social, Hendrik and Norman from @ipbhalle.bsky.social, @janstanstrup.bsky.social, et al.
- Reposted by Daniel PetrasHappy to share our newest manuscript about the discovery and hererologous expression of metanodin, a new lassopeptide with unprecedented structural features directly from soil metagenomes. pubs.acs.org/doi/full/10.... #secmet #lassopeptides #syntheticbiology
- Reposted by Daniel PetrasWe are super excited that our new paper on microfluidic-based LC-MS/MS fractionation in combination with bioluminescence bioreporters readouts, for compound-resolved bioactivity metabolomics, was just published: pubs.acs.org/doi/10.1021/...
- What a fun day! Thanks so much for stopping by Pieter!
- Such awesome day today at UC-Riverside. Got to spend time with two of my science children and their team (science grandchildren). Just so fun thanks to Ming for the pic. And got to go biking with @func-metabo-lab.bsky.social
- Reposted by Daniel PetrasHappy to share our newest preprint. PhyloNaP as a user friendly database of phylogeny for enzymes involved in natural product production and as public repository for well curated phylogenetic trees. Happy Tree Building!!! #phylogeny #secmet #bioinformatics www.biorxiv.org/content/10.1...
- In a large community effort with 50 coauthors, we analyzed the same set of marine dissolved organic matter samples across 24 laboratories via non-targeted LC-MS/MS, to check if we get comparable data. If you want to check it out, you can find our preprint here: doi.org/10.26434/che...
- New paper from the group. Together with Chambers Hughes, Giovanni Vitale and our amazing collaborators, we developed a multiplexed chemical metabolomics workflow to assign functional groups in non-targeted LC-MS/MS data: www.nature.com/articles/s41... Behind the paper story: go.nature.com/45ljV4d
- Thanks so much to everybody who made this interdisciplinary project possible. And epically the editor and the three reviewers at @natcomms.nature.com for their throughout positive feedback.
- Super excited that I’ve been selected as a Simons Early Career Investigator in Aquatic Microbial Ecology and Evolution. We will explore how marine microbes shape the production, transformation, and fate of dissolved organic matter. Thanks so much @simonsfoundation.org We can’t wait to get started!
- Congratulations to our six new 2025 Simons Early Career Investigators in Aquatic Microbial Ecology and Evolution! See full list: www.simonsfoundation.org/2025/07/01/a... #science @systemsecology.bsky.social @daniel-petras.bsky.social @kendraturkkubo.bsky.social
- Reposted by Daniel Petras#mzmine 4.7 is now available! This release brings our most significant improvement in memory efficiency to date, unlocking new capabilities for analyzing large-scale datasets. Join us for a live software demo at our booth today and tomorrow at 12:00/noon during #ASMS2025
- Reposted by Daniel PetrasWe are pretty stoked that our paper on chemical shifts in kelp forests in the Gulf of Maine made it onto the front cover of @science.org Big congratulations to Shane Farrell and everybody involved! ✌️✌️✌️
- Kelp forests on the coast of Maine are in decline owing to rapid ocean warming and are being replaced by turf algae, which alter the ecosystem’s chemistry, hindering the recovery of kelp forests. Learn more in this week's issue of Science: scim.ag/4dwzl8j
- Reposted by Daniel Petras
🎉 Fantastic News 🎉 Our CMFI Cluster of Excellence @unituebingen.bsky.social receives funding extension for the next seven years. Spokesperson Andreas Peschel @andreaspeschel.bsky.social: "We can now advance our research into resistance mechanisms and new antimicrobial agents!" shorturl.at/rcK1A - Reposted by Daniel PetrasHappy to announce that our „newest old tool“ autoMLST2.0 is out and published. You need an accurate and easy to use tool to build #phylogenetictrees from #bacterialgenomes: academic.oup.com/nar/advance-...
- Reposted by Daniel PetrasThanks @ucriverside.bsky.social for featuring our work! news.ucr.edu/articles/202...
- I am thrilled to share after years of work/procrastination that the MassQL manuscript is finally published in @natmethods.nature.com - "A universal language for finding mass spectrometry data patterns". This was an team effort from all co-authors that helped shape MassQL and how it could be used.
- Reposted by Daniel PetrasI am thrilled to share after years of work/procrastination that the MassQL manuscript is finally published in @natmethods.nature.com - "A universal language for finding mass spectrometry data patterns". This was an team effort from all co-authors that helped shape MassQL and how it could be used.
- Reposted by Daniel PetrasCheck out the latest tutorial video, from Marty Lab postdoc John Pavek, on how to analyze individual spectra with IsoDec, our new neural network for isotopic deconvolution: youtu.be/aOR37-j28NI
- Reposted by Daniel PetrasAnother year, another @mzmine.bsky.social workshop at @iocbprague.bsky.social! Both new and advanced users are learning about the latest mzmine features from our amazing instructors @ansgarkorf.bsky.social, Josh Smith, @titodamiani.bsky.social, and @roman-bushuiev.bsky.social.
- Reposted by Daniel PetrasNew reprint from the team: Lead by @nike-wagner.bsky.social, we used our native metabolomics setup to shed new light onto the function of the CutA protein. www.biorxiv.org/content/10.1...
- Reposted by Daniel PetrasI 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....
- Very important read about the discussion on in-source fragments in LC-MS/MS based metabolomics. By reanalyzing data from 30,000 authentic standards @yelabiead.bsky.social @adafede.bsky.social @pieterdorrestein.bsky.social et al. show that ISFs are substantially less that what Giera et al. reported 👌
- Discovery of metabolites prevails amid in-source fragmentation #NatMetab www.nature.com/articles/s42...
- Reposted by Daniel PetrasI can’t think of a better group to learn metabolomics data science from.
- Reposted by Daniel PetrasI'm happy to share my latest article published today. A nice collaboration with Aiko and Sven from Bruker Daltonics. #metabolomics #lipidomics #celegans doi.org/10.1007/s113...
- Reposted by Daniel Petras🚨 Webinar Reminder! 🚨 Don’t forget to join us for our first webinar of the year: “Learning From Repository-Scale Untargeted Metabolomics Data” 📅 Date: 22 January 🕒 Time: 3 PM UTC #MetabolomicsSociety #MetSoc #Metabolomics #ECR #TeamMassSpec #EMNMetSoc
- Reposted by Daniel PetrasSuch a wonderful SIMB workshop on @gnps2.bsky.social covering classical mol networking, FBMN, ion identity based mol networking, FBMN-STATS, gnps-dashboard, CMMC-kb, Modifinder, MicrobeMASST, MassQL, and limited ReDU - many were covered at a workshop for the first time. 1/4
- Reposted by Daniel PetrasReally excited to release a beta version of UniDec 8.0! The coolest feature is a new AI-based charge assignment for isotopic resolution data. It's performing a little better than Thrash/Xtract but way faster. Try out IsoDec if you are doing top-down! github.com/michaelmarty...
- Reposted by Daniel PetrasMy department is hiring a fungal biologist! aprecruit.ucr.edu/JPF01990
- Reposted by Daniel Petras👨🔬👩🔬Grants announcement !!! A limited number of supporting grants will be given to early career researchers and #ICTC13 participants from lower income countries. Don't miss the opportunity to submit an abstract and apply for an #ICTC13 grant ! Deadline: 20 December More: ictc13.gr/grants/
- Reposted by Daniel PetrasThe CMMC is hosting a reverse metabolomics workshop. The foundation of these papers www.nature.com/articles/s41..., www.cell.com/cell/fulltex... and www.biorxiv.org/content/10.1... - here searched @gnps2.bsky.social only now @metabolights.bsky.social and @metabolomics workbench as well. #metabolome
- Reposted by Daniel PetrasHow does the #biosynthesis of the last resort #antibiotic #Vancomycin work? Animation from @nadineziemert.bsky.social lab & Evi Stegmann lab shows the whole process in detail - on molecular level. You are free to share and use it! youtu.be/TGAgC4c8hvo
- Reposted by Daniel PetrasCongrats to Lisa Maier, Board Member at the CMFI/University of Tuebingen, for being selected #50ScientistsThatInspire by Cell Press👏 In a Q&A she explains what drives her research and why we sometimes have to go beyond conventional approaches to find novel solutions. www.cell.com/news-do/50-i...
- Reposted by Daniel PetrasCome to California! Still time left to apply for Assistant Professor positions in Analytical and Physical Chemistry at UC Riverside. It's a great place to live and to work. #chemjobs #chemsky chem.ucr.edu/careers/new-...
- Reposted by Daniel PetrasNext Tuesday, Nov 19, 5 pm CET / 8 am PST we will have the next #VMOL seminar #mzmine series on multimodal data processing using mzwizard. And in case you wana watch the last mzmine seminar on non-targeted LC-MS/MS data processing, you can find the recording here: youtu.be/UnqVtZngzl0
- Reposted by Daniel PetrasWe had a blast at the #ecometabolomics workshop @UniCologne last week. Thanks so much for organizing this awesome event @C_Sanchez_Arcos and for the great contribution and inspiring interactions with all participants and instructors. This was a lot of fun!
- Side-directed open modification search for metabolites: If you wana boost your insights about putative analogs, you many wana give Modifinder a try. Big congrats to Reza and Ming @mingxunwang.bsky.social et al. and thanks a lot for letting us play around with it. www.biorxiv.org/content/10.1...
- Reposted by Daniel PetrasNew paper from the team, reviewing current functional metabolomics tools for natural product research. Congrats to @Giovann97116204 and Christian for spearheading the effort, and big thanks to @mingxunwang.bsky.social and @AllegraAron for doing this together. pubs.rsc.org/en/content/a...
- Reposted by Daniel PetrasIn case you wana learn more about our non-targeted LC-MS/MS pipeline in the context of Eco-Metabolomics, sign up and stop by the upcoming workshop organized by @C_Sanchez_Arcos at the @UniCologne sites.google.com/view/eco-met...
- Reposted by Daniel PetrasNew preprint by @diegoromerohi, @davidmicron, @APerezLorente, et al., showcasing the effect of bacterial cyclodipeptides on fungal membrane stability. Congratulations to everyone involved, and thank you for having us be a part of the team. ✌️✌️ www.biorxiv.org/content/10.1...
- Reposted by Daniel PetrasThings are shaping Up for the new #metabolomics lab @kieluni @medinflame - get in Touch If you are looking for PhD or Postdoc Position in 2024. #hostmicrobe #interactions #metabolism #symbiosis #inflammation #ecr
- Reposted by Daniel PetrasAre you into marine sciences? Are you a recent PhD or an early career postdoc? Apply to this Focus Group with 6 years of support to establish yourself with us at the HIFMB in our brand new building. Please read the ad and share it with your network: hifmb.de/wp-content/u...
