🌱plantiSMASH 2.0💥 is now live!

I’m very excited to share that the 2.0 version of plantiSMASH is now available online and as a preprint on bioRxiv 📄https://lnkd.in/dN4F56pf

🌱 What’s new in plantiSMASH 2.0? ⬇️

Kudos to @elenadelpup.bsky.social for this significant update to plantiSMASH! Try it out now...

#PlantScience #SecMet I am running plantismash (plantismash.bioinformatics.nl) using cds.fa and .gff3 and got error message "No GFF3 record IDs match any sequence record IDs." Anyone has run it with cds.fa and .gff3? Care to share with me their example files?

Proud of @elenadelpup.bsky.social who presented her work on #plant paired omics mining for biosynthesis pathway discovery! 😎👏 She presented #plantiSMASH and a MEANtools case study combining #transcriptomics & #metabolomics data.
Work with @marnixmedema.bsky.social
#CompMetabolomics #MetSoc25 #Prague

plantiSMASH 2.0: improvements to detection, annotation, and prioritization of plant biosynthetic gene clusters https://www.biorxiv.org/content/10.1101/2025.10.28.683968v1

#FAIRData #bioinformatics #naturalproducts #plantmetabolism #computationalbiology #genomics #plantiSMASH #OpenScience #biorxiv #antiSMASH
#plantscience #specializedmetabolism #biosyntheticgeneclusters #transcriptionfactors #webserver #compbio @antismash.bsky.social

If you want some plant tool stickers 🌱, find me at #ECCB2026! Will be attending all the #ELIXIR sessions.
@eccb-europe.bsky.social #PlantMetWiki #plantiSMASH
#ELIXIR #genevalovesdata

🚨 New Preprint Alert 🚨

Proud of @elenadelpup.bsky.social for posting her preprint on plantiSMASH 2.0 👏 Find out all about it and links to give it a try in her thread 👇

#genomemining #plants #geneclusters #naturalproducts #discovery
#ProudPI
@w-u-r.bsky.social

Glad to see the interest of so many communities working across different crops & pangenomes. If your genome-of-interest is not in our database, run plantiSMASH on webserver or CLI (see documentation ). You can upload your results on the #plantiSMASH Zenodo community here: zenodo.org/communities/...

plantiSMASH 2.0 features:
🧬 Expanded detection rules for new BGC types
🔍 Substrate prediction and Regulatory analysis to prioritize BGCs
📚 Updated plantiSMASH 2.0 database covering 30k+ putative BGCs across 430 plant genomes ➡️ lnkd.in/dNQ54KFK

💡 plantiSMASH is a computational tool and web server for the identification of biosynthetic gene clusters (BGCs) in plant genomes.

🖥️ Webserver: lnkd.in/dh5Ckrp3
🐙 GitHub: lnkd.in/diMHJGCD
🎓 Zenodo plantiSMASH community: lnkd.in/dQs4j_vc

plantiSMASH 2.0: improvements to detection, annotation, and prioritization of plant biosynthetic gene clusters https://www.biorxiv.org/content/10.1101/2025.10.28.683968v1

plantiSMASH 2.0: improvements to detection, annotation, and prioritization of plant biosynthetic gene clusters
doi.org/10.1101/2025...

Phylogenomics and metabolic engineering reveal a conserved gene cluster in Solanaceae plants for withanolide biosynthesis
doi.org/10.1101/2024...

#Genomics

📖 Comprehensive documentation, for web server and CLI users and developers, and Zenodo-linked, versioned releases. 📘 Docs: lnkd.in/dc6YBpgU

Thank you to all plantiSMASH 2.0 coauthors! @marnixmedema.bsky.social @jjjvanderhooft.bsky.social @anneosbourn.bsky.social et al.

Hi @chenxinli2.bsky.social ! We were undergoing development of the new plantiSMASH 2.0 codebase. Is the issue persisting? Please contact us or submit an issue on GitHub if that's the case :) Thanks for spotting this!