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bpucker.bsky.social
Boas Pucker
@bpucker.bsky.social
1.7K followers 910 following 210 posts
Prof. @unibonn.bsky.social‬. Plant Biotechnology & Bioinformatics (@puckerlab.bsky.social). #Genomics #Bioinformatics #Evolution #SpecializedMetabolism #MolecularBiology #Pigmentation #Flavonoids. Website: https://www.pbb.uni-bonn.de. Views are my own.
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bpucker.bsky.social
Boas Pucker @bpucker.bsky.social · Sep 16
🚀 Exciting update: "Cookbook for Plant Genome Sequences" now includes an updated overview figure! 🌱🔬
Check out how to run a plant genome sequencing project:
www.preprints.org/manuscript/2...
#Genomics #LongReads #Bioinformatics
@puckerlab.bsky.social
Overview figure of our plant genome sequencing workflow. Details and reference: https://www.preprints.org/manuscript/202508.1176/v2
Reposted by Boas Pucker
puckerlab.bsky.social
Happy New Year 2026! 🎉

We are welcoming the new year with fresh publications that went live over the holidays.

🔗 Check them out here:
www.izmb.uni-bonn.de/en/pbb/publi...

Excited for what 2026 has in store!
PuckerLab social media banner in Happy New Year 2026 flavor. Many thanks to Marie for the excellent design. Details: https://www.izmb.uni-bonn.de/en/pbb/news
January 4, 2026 at 5:59 PM
Reposted by Boas Pucker
chenxinli2.bsky.social
Pains me to see people would rather submit to Genome Biology than Genome Research, and Developmental Cell rather than Genes and Development. Springer and Elsevier journals took over, while old time classic journals fell under.
December 23, 2025 at 2:34 PM
Reposted by Boas Pucker
puckerlab.bsky.social
2025 was special: Relocating to UniBonn opened opportunities, sparked exciting collaborations, and brought wonderful new group members. We published some of our most exciting work & hosted amazing visitors in Bonn. Thanks to everyone who made this year a success!
www.izmb.uni-bonn.de/en/pbb/news#...
Poppelsdorf Palace and Botanical Gardens at UniBonn. Details: https://www.izmb.uni-bonn.de/en/pbb/news#tree2025
December 21, 2025 at 1:12 PM
Reposted by Boas Pucker
puckerlab.bsky.social
Our digital Christmas tree is inspired by squares representing performance in our ONT sequencing experiments 📊🎄

2025 brought a huge increase in sequencing output — and we could not be happier!

🔗 www.izmb.uni-bonn.de/en/pbb/news#...

#ScienceArt #Sequencing #ChristmasCard #ONT
Our Christmas tree is this year inspired by squares indicating the performance in our ONT sequencing experiments. Details: https://www.izmb.uni-bonn.de/en/pbb/news#tree2025
December 20, 2025 at 11:31 AM
Reposted by Boas Pucker
usadellab.bsky.social
Are you interested in @ceplas.bsky.social single cell data and spatial transcriptomic data analysis and inference? Then apply for this PhD position in our graduate school HDS-LEE in my group co-supervised by Prof Assent. www.fz-juelich.de/en/careers/j.... For questions don't hesitate to contact me.
PhD position - Co-regulation structures for large-scale single-cell transcriptomics - within the HDS-LEE graduate school
The Bioinformatics Division of the Institute of Biological and Geosciences (IBG-4) processes and develops methods and algorithms to achieve a fundamental understanding of high-dimensional data and pro...
www.fz-juelich.de
December 19, 2025 at 8:48 AM
bpucker.bsky.social
Latest update on Julie's amazing long read sequencing work (output per flow cell)
www.izmb.uni-bonn.de/en/pbb/news#...
#PlantGenomics #LongReads @puckerlab.bsky.social
December 19, 2025 at 8:41 AM
bpucker.bsky.social
Nice reminder of a great time at Czech University of Life Sciences Prague 🇨🇿 teaching Long Read Genomics. Fantastic discussions, engaged students, and an inspiring academic atmosphere. Science, travel, and good memories in one bottle 🧬✨
Lecture slides: github.com/bpucker/LRG
@puckerlab.bsky.social
CZU bottle as reminder of a great time in Prague teaching Long Read Genomics (https://github.com/bpucker/LRG)
December 19, 2025 at 5:44 AM
Reposted by Boas Pucker
plantsciencedbg.bsky.social
⏰ There is only 1 day left if you want to register as early bird for the 68th Maize Genetics Meeting #MGM2026

Cologne, Germany, 26th February - 1st March 2026

organised by Professor @hochholdingerf.bsky.social et al. www.mgcmeeting.com
Maize Genetics Cooperation, Inc Meeting
www.mgcmeeting.com
December 18, 2025 at 4:59 PM
Reposted by Boas Pucker
puckerlab.bsky.social
🎨🌱🧬 A fresh look for our profiles! Our new social media banner is live, designed by Marie. Let us know what you think in the comments below! Which elements of our research do you recognize?
www.izmb.uni-bonn.de/en/pbb/resea...
New social media banner for PuckerLab designed by Marie. https://www.izmb.uni-bonn.de/en/pbb/research
December 17, 2025 at 3:12 PM
bpucker.bsky.social
Just wrapped up my last lecture of 2025.

Interested in plant biochemistry and molecular biology? Slides are on GitHub:
github.com/bpucker/teac...

#OpenEducation #PlantSci
@puckerlab.bsky.social
Slides of my last lecture in 2025. Details: https://www.izmb.uni-bonn.de/en/pbb/teaching
December 17, 2025 at 9:47 AM
Reposted by Boas Pucker
puckerlab.bsky.social
From Gene Models to Biological Insights course done! Over 20 young scientists dove into functional annotation and plant genomics with incredible energy 🌿🧬
#PlantSci #FunctionalAnnotation
www.izmb.uni-bonn.de/en/pbb/news#...
@nancy-choudhary.bsky.social @shakunthalan.bsky.social @bpucker.bsky.social
Impressions from our "From Gene Models to Biological Insights - Functional Annotation" course. More details: https://www.izmb.uni-bonn.de/en/pbb/news#d2025c2
December 12, 2025 at 6:57 PM
Reposted by Boas Pucker
bpucker.bsky.social
Our course “From Gene Models to Biological Insights – Functional Annotation” just finished! We loved teaching 20+ young researchers new skills in plant genomics. Excited to see how they will apply these tools to uncover biological insights. 🌿🧬
#PlantSci #Genomics
www.izmb.uni-bonn.de/en/pbb/news#...
Impressions from our "From Gene Models to Biological Insights - Functional Annotation" course. More details: https://www.izmb.uni-bonn.de/en/pbb/news#d2025c2
December 12, 2025 at 5:15 PM
bpucker.bsky.social
Our course “From Gene Models to Biological Insights – Functional Annotation” just finished! We loved teaching 20+ young researchers new skills in plant genomics. Excited to see how they will apply these tools to uncover biological insights. 🌿🧬
#PlantSci #Genomics
www.izmb.uni-bonn.de/en/pbb/news#...
Impressions from our "From Gene Models to Biological Insights - Functional Annotation" course. More details: https://www.izmb.uni-bonn.de/en/pbb/news#d2025c2
December 12, 2025 at 5:15 PM
Reposted by Boas Pucker
bpucker.bsky.social
Just wrapped up “Plant Genome Sequence Assembly and Annotation” 🌱
Processing long-reads, genome sequence assembly, assembly QC, and predicting genes. Thanks to everyone involved!

www.izmb.uni-bonn.de/en/pbb/news#...

#Genomics #PlantScience #Bioinformatics
@puckerlab.bsky.social @denbi.bsky.social
Impressions from “Plant Genome Sequence Assembly and Annotation” course 🌱. Details: https://www.izmb.uni-bonn.de/en/pbb/news#d2025c1
December 10, 2025 at 3:32 PM
bpucker.bsky.social
Just wrapped up “Plant Genome Sequence Assembly and Annotation” 🌱
Processing long-reads, genome sequence assembly, assembly QC, and predicting genes. Thanks to everyone involved!

www.izmb.uni-bonn.de/en/pbb/news#...

#Genomics #PlantScience #Bioinformatics
@puckerlab.bsky.social @denbi.bsky.social
Impressions from “Plant Genome Sequence Assembly and Annotation” course 🌱. Details: https://www.izmb.uni-bonn.de/en/pbb/news#d2025c1
December 10, 2025 at 3:32 PM
Reposted by Boas Pucker
plantsciencedbg.bsky.social
#PlantSciJobs #PlantSciJob

W2 Professorship: Plant Physiology @rptu.bsky.social

Deadline: 5 Januar 2026
www.deutsche-botanische-gesellschaft.de/en/job-openi...
Job Openings
www.deutsche-botanische-gesellschaft.de
December 6, 2025 at 12:03 PM
bpucker.bsky.social
I had the honor of giving my inaugural lecture at the University of Bonn: “Big Data-Driven Discoveries in Specialized Plant Metabolism.” Grateful to everyone who attended and for the inspiring discussions afterward!
www.pbb.uni-bonn.de
#PlantScience #BigData #AcademicLife @puckerlab.bsky.social
Title slide of inaugural lecture: "Big Data-Driven Discoveries in Specialized Plant Metabolism"
December 4, 2025 at 8:31 PM
Reposted by Boas Pucker
puckerlab.bsky.social
"Big Data-Driven Discoveries in Specialized Plant Metabolism"
www.izmb.uni-bonn.de/en/pbb/news
@bpucker.bsky.social
"Big Data-Driven Discoveries in Specialized Plant Metabolism" https://www.izmb.uni-bonn.de/en/pbb/news
December 2, 2025 at 9:05 PM
Reposted by Boas Pucker
nickdesnoyer.bsky.social
The hidden danger of Biorender

(& the death of scientific illustration)

A short thread 🧵
December 1, 2025 at 12:52 PM
bpucker.bsky.social
Corinna and I were awarded the “FAIR Software Award Lower Saxony 2025” on Monday at TU Braunschweig!

We are thrilled that our bHLH_annotator tool convinced the jury.

Check it out here: doi.org/10.1186/s128...

#OpenScience #FAIR #Python @puckerlab.bsky.social
Pictures of the award ceremony at TU Braunschweig. Some pictures were taken by Henry Fiebig.
November 28, 2025 at 5:41 AM
bpucker.bsky.social
Gave a talk on “Computational Approaches to Unraveling Biosynthetic Pathways in Plants” at the 6th Annual Meeting of the @denbi.bsky.social Industrial Forum 2025.
If you see potential for collaboration or want to discuss ideas, feel free to get in touch!
Event info: www.denbi.de/de-nbi-event...
Title slide of my presentation “Computational Approaches to Unraveling Biosynthetic Pathways in Plants”.
November 27, 2025 at 3:04 PM
Reposted by Boas Pucker
apmweber.bsky.social
AI model Helixer predicts eukaryotic genes ab initio, directly from a plain text FASTA file.

No RNA-seq.
No protein homology.
No repeats, hints, or curated evidence.

Raw genome → accurate gene models.
Deep learning + HMM, published in @natmethods.nature.com

www.nature.com/articles/s41...
Helixer: ab initio prediction of primary eukaryotic gene models combining deep learning and a hidden Markov model - Nature Methods
By leveraging both deep learning and hidden Markov models, Helixer achieves broad taxonomic coverage for ab initio gene annotation of eukaryotic genomes from fungi, plants, vertebrates and invertebrat...
www.nature.com
November 26, 2025 at 6:00 AM
Reposted by Boas Pucker
manu-lera.bsky.social
#OpenCloning is a an Open Source alternative to SnapGene/Benchling that supports automation and integration with other software

✅ Free
🔓 Open Source
🧬 More cloning methods than SnapGene
🤖 Can be automated with python
👨‍🔬 Built by a researcher — for researchers!

👉 Check it out at opencloning.org
A cloning strategy as depicted in the OpenCloning website
November 24, 2025 at 4:57 PM
Reposted by Boas Pucker
joeybernhardt.bsky.social
Looking for some help! I'm putting together materials for a postdoc workshop on writing cover letters and abstracts for general journals like Science, Nature, PNAS. Any advice, tips, or resources to share? I will compile and share back! 🧪😀
November 24, 2025 at 8:31 PM
Reposted by Boas Pucker
plantevolution.bsky.social
We (Nordborg & Weigel labs) need input on the next generation of genome browsers & data download modes for the #Arabidopsis #1001GenomesPlus project. We have now a curated collection of over 500 long read genomes.

Please help us by filling out this questionnaire: docs.google.com/forms/d/e/1F...
Next generation of 1001 Genomes Plus browser and data download
Please indicate all features you would like to see in a browser that displays features of completely sequenced Arabidopsis thaliana genomes
docs.google.com
November 24, 2025 at 2:49 PM