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PuckerLab @puckerlab.bsky.social · 1d

Hard to believe — it has already been one semester of @puckerlab.bsky.social at @unibonn.bsky.social 🎉
New discoveries 🌿, great teaching 👩‍🏫, international visitors 🌍, and a growing team 🔬 — it has been an incredible start.
Huge thanks to everyone who has been part of the journey! 💚
#Science #Genomics

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PuckerLab @puckerlab.bsky.social · 1d

Hard to believe — it has already been one semester of @puckerlab.bsky.social at @unibonn.bsky.social 🎉
New discoveries 🌿, great teaching 👩‍🏫, international visitors 🌍, and a growing team 🔬 — it has been an incredible start.
Huge thanks to everyone who has been part of the journey! 💚
#Science #Genomics

4 7

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PuckerLab publications @puckerlabpapers.bsky.social · Jul 26

Multiple mechanisms explain loss of anthocyanins from betalain-pigmented Caryophyllales, including repeated wholesale loss of a key anthocyanidin synthesis enzyme
doi.org/10.1111/nph....

#Anthocyanins #Flavonoids #Betalains #Caryophyllales #Evolution #Biosynthesis #TranscriptionFactor #Evolution

Multiple mechanisms explain loss of anthocyanins from betalain‐pigmented Caryophyllales, including repeated wholesale loss of a key anthocyanidin synthesis enzyme

In this study, we investigate the genetic mechanisms responsible for the loss of anthocyanins in betalain-pigmented Caryophyllales, considering our hypothesis of multiple transitions to betalain pig.....

doi.org

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PuckerLab publications @puckerlabpapers.bsky.social · Jul 26

Data Reuse in Agricultural Genomics Research: Present Challenges and Future Solutions
doi.org/10.1093/giga...

#DataScience #OpenScience #Genomics #Agriculture #DataReuse #Bioinformatics #ComputationalBiology #OpenData #BigData

Data reuse in agricultural genomics research: challenges and recommendations

Abstract. The scientific community has long benefited from the opportunities provided by data reuse. Recognizing the need to identify the challenges and bo

doi.org

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PuckerLab publications @puckerlabpapers.bsky.social · Jul 26

NAVIP: Unraveling the Influence of Neighboring Small Sequence Variants on Functional Impact Prediction
doi.org/10.1371/jour...

#Bioinformatics #VariantCalling #VariantAnnotation #FunctionalGenomics #Genomics #PlantSci #DataScience #OpenData #OpenAccess #BigData #Python #100DaysOfCode

NAVIP: Unraveling the influence of neighboring small sequence variants on functional impact prediction

Once a suitable reference sequence has been generated, intra-species variation is often assessed by re-sequencing. Variant calling processes can reveal all differences between strains, accessions, gen...

doi.org

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Boas Pucker @bpucker.bsky.social · 5d

Anthocyanin biosynthesis in grasses took a divergent evolutionary path, with key gene losses and independent evolutionary innovations #FlavonoidFriday

(details: doi.org/10.1101/2025... & shorturl.at/dprjd)

Grass flowers. Source: https://en.wikipedia.org/wiki/Poaceae#/media/File:Grassflowers.jpg; Hardyplants, Public Domain

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PuckerLab @puckerlab.bsky.social · 5d

🚀 Exciting news: our next @igemhq.bsky.social team is growing! We are thrilled to host the 2025/26 team in Bonn 🌱🧬

Meet them here: www.igem-bonn.org/team-2026/ and follow their journey @igembonn.bsky.social

#iGEM2026 #SynBio @igemcommunity.bsky.social @bpucker.bsky.social

Website of iGEM team Bonn 2026. Source: https://www.igem-bonn.org/team-2026/

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PuckerLab @puckerlab.bsky.social · 5d

🚀 Exciting news: our next @igemhq.bsky.social team is growing! We are thrilled to host the 2025/26 team in Bonn 🌱🧬

Meet them here: www.igem-bonn.org/team-2026/ and follow their journey @igembonn.bsky.social

#iGEM2026 #SynBio @igemcommunity.bsky.social @bpucker.bsky.social

2 9 16

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Boas Pucker @bpucker.bsky.social · 8d

🚀 Today is the day! Excited to talk about our nanopore sequencing activities in Freiburg 🌱🧬 Including our plant genome sequencing workflow 👉 www.doi.org/10.20944/pre...
@puckerlab.bsky.social @pietzenuk.bsky.social

Title slide of nanopore sequencing talk. More details: https://www.izmb.uni-bonn.de/en/pbb/news

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PuckerLab @puckerlab.bsky.social · 18d

How long does it take to sequence a plant genome?

The most decisive factor is the genome size, but with an efficient workflow, an annotated genome sequence can be available within days to weeks. Read the full story:

www.doi.org/10.20944/pre...

#Genomics #SciComm #SciArt #Bioinformatics #PlantSci

Plant genome sequencing workflow. Reference and description: https://www.doi.org/10.20944/preprints202508.1176.v2

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Boas Pucker @bpucker.bsky.social · 12d

The crucial anthocyanin biosynthesis gene DFR shows multiple duplications in Fagopyrum, hinting at potential novel or specialized functions #FlavonoidFriday
(details: doi.org/10.1101/2025... & rb.gy/l6ekn9) @puckerlab.bsky.social

Source: https://commons.wikimedia.org/wiki/File:%EB%A9%94%EB%B0%80.JPG; Dalgial, CC BY-SA 3.0

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Plant Editors @planteditors.bsky.social · 17d

"Days to weeks"! My how the technology has advanced! Check out this cookbook for #Plant #Genome sequencing.

PuckerLab @puckerlab.bsky.social · 18d

How long does it take to sequence a plant genome?

The most decisive factor is the genome size, but with an efficient workflow, an annotated genome sequence can be available within days to weeks. Read the full story:

www.doi.org/10.20944/pre...

#Genomics #SciComm #SciArt #Bioinformatics #PlantSci

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Boas Pucker @bpucker.bsky.social · 15d

Check out the ups and downs of anthocyanin biosynthesis in Poaceae 👇👇👇
#Evolution #Genomics

PuckerLab @puckerlab.bsky.social · 15d

"Evolutionary Rewiring of Anthocyanin Biosynthesis Pathway in Poaceae" 🎨
We describe how grasses have reorganized the anthocyanin biosynthesis pathway through gene loss, regulatory shifts, and independent evolution:
🔗 doi.org/10.1101/2025...
@bpucker.bsky.social @nancy-choudhary.bsky.social

Evolutionary Rewiring of Anthocyanin Biosynthesis Pathway in Poaceae

Poaceae is a species-rich family of plants in the monocots harboring many important crop species. As grasses, these plants lack striking flowers that are typically pigmented by anthocyanins. Here, we ...

doi.org

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Boas Pucker @bpucker.bsky.social · 14d

Thrilled to share the publication of CoExpPhylo in BMC Genomics:

"CoExpPhylo – a novel pipeline for biosynthesis gene discovery"

doi.org/10.1186/s128...

#Bioinformatics #BigData #Evolution #Pathways
@puckerlab.bsky.social @unibonn.bsky.social

CoExpPhylo workflow. Details and reference: https://doi.org/10.1186/s12864-025-12061-3

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PuckerLab @puckerlab.bsky.social · 15d

"Evolutionary Rewiring of Anthocyanin Biosynthesis Pathway in Poaceae" 🎨
We describe how grasses have reorganized the anthocyanin biosynthesis pathway through gene loss, regulatory shifts, and independent evolution:
🔗 doi.org/10.1101/2025...
@bpucker.bsky.social @nancy-choudhary.bsky.social

Evolutionary Rewiring of Anthocyanin Biosynthesis Pathway in Poaceae

Poaceae is a species-rich family of plants in the monocots harboring many important crop species. As grasses, these plants lack striking flowers that are typically pigmented by anthocyanins. Here, we ...

doi.org

2 6

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Boas Pucker @bpucker.bsky.social · 15d

Exciting news! The results of Syafiq’s research visit are now online 🎉
Great to see such solid work from an undergrad pay off.

If you are into gene duplication or plant evolution, check it out:
🔗 doi.org/10.1101/2025...
@puckerlab.bsky.social #Genomics #Bioinformatics

Expansion of the DFR Gene Family in Fagopyrum

Background: Gene duplication is a fundamental evolutionary mechanism that contributes to genetic innovation, such as in the diversification of plant metabolic pathways. This study investigates the dup...

doi.org

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PuckerLab @puckerlab.bsky.social · 18d

How long does it take to sequence a plant genome?

The most decisive factor is the genome size, but with an efficient workflow, an annotated genome sequence can be available within days to weeks. Read the full story:

www.doi.org/10.20944/pre...

#Genomics #SciComm #SciArt #Bioinformatics #PlantSci

1 8 15

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de.NBI & ELIXIR Germany @denbi.bsky.social · 20d

Our new associated partner @bpucker.bsky.social at @puckerlab.bsky.social offers in December (8-10 and 10-12) two F2F training courses in Bonn about #Plant #genomics and functional #annotation. For more information see: Course 1 - www.denbi.de/training-cou... Course 2 - www.denbi.de/training-cou...

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Boas Pucker @bpucker.bsky.social · 22d

🚀 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

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Boas Pucker @bpucker.bsky.social · 27d

My talk, "Big Data-Driven Discoveries in Specialized Plant Metabolism", featured our recent work on pigmentation and tool development 🧬🌿
📍 Details: www.izmb.uni-bonn.de/en/pbb/news#...
@puckerlab.bsky.social

title slide of "Big Data-Driven Discoveries in Specialized Plant Metabolism". details: https://www.izmb.uni-bonn.de/en/pbb/news#pp2025

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Boas Pucker @bpucker.bsky.social · Sep 3

Gave a talk at Fraunhofer IME 🌱 on big data in plant biology. Covered genomics in Digitalis purpurea, dark pigments, withanolide biosynthesis + coexpression analyses.

Tools like KIPEs & CoExpPhylo make gene function annotation accessible & powerful.

More details: www.izmb.uni-bonn.de/en/pbb/news

title slide of the presentation. More details: https://www.izmb.uni-bonn.de/en/pbb/news

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Pietzenuk @pietzenuk.bsky.social · Sep 3

My @nanoporetech.com #ImpactDay at the University of Bonn powered by @puckerlab.bsky.social was very exciting. Had great discussions with students about Nanopore, Career paths and unexpected life turns. Ah, and a great BBQ too. 😊 #ThankYou

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PuckerLab @puckerlab.bsky.social · Aug 31

🌿 Interested in a Bachelor’s or Master’s thesis in plant biology? Our group at the UniBonn offers projects on sequencing, transcription factor evolution, anthocyanin biosynthesis, carnivorous plants, and more.

➡️ Details: www.izmb.uni-bonn.de/en/pbb/teach...

#StudentResearch #PlantScience #Bonn

Compilation of pictures from Insta (https://www.instagram.com/puckerlab/). More details: https://www.izmb.uni-bonn.de/en/pbb/teaching#p

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Boas Pucker @bpucker.bsky.social · Aug 28

🎓 Exciting news for Uni Bonn students!
Next week, we’re welcoming Björn Pietzenuk for an inspiring career talk about #Genomics. Don’t miss the chance to hear about his journey and insights!

📍 Botanik-Hörsaal (Nussallee 4)
🕕 6 PM c.t.
📅 Sep 1st, Monday

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

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Boas Pucker @bpucker.bsky.social · Aug 25

Preparing my 'Long Read Genomics' course for a visit at the Czech University of Life Sciences Prague. Materials will be freely available on GitHub: github.com/bpucker/LRG
#Genomics #Bioinformatics #OpenEducation
@puckerlab.bsky.social

Long Read Genomics. Materials: https://github.com/bpucker/LRG

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