PuckerLab publications
@puckerlabpapers.bsky.social
Sharing publications of the @puckerlab.bsky.social about #Genomics #Bioinformatics #Evolution #SpecializedMetabolism. Full list: https://www.izmb.uni-bonn.de/en/pbb/publications
3. Poaceae: doi.org/10.1101/2025... @puckerlab.bsky.social @puckerlabpapers.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
Interested in learning more? Read about our work: 1. Withanolide-associated gene cluster discovery: doi.org/10.1038/s414...
Phylogenomics and metabolic engineering reveal a conserved gene cluster in Solanaceae plants for withanolide biosynthesis - Nature Communications
Withanolides are plant steroids with potent bioactivities found in many medicinal plants including Withania somnifera, but their biosynthetic pathway is largely unknown. Here, the authors report the g...
doi.org
Great week at #EMPSEB31 in Oberwiesenthal, Germany! I presented a poster on the evolution of a withanolide biosynthetic gene cluster in Solanaceae and gave a talk on contrasting evolutionary outcomes of anthocyanin biosynthesis: complete loss in Cucurbitaceae and pathway rewiring in Poaceae. 🌱🧬
If you are interested in free full plasmid sequencing, have a look at our preprint and get in touch: doi.org/10.64898/202... #Plasmids #Biotech #SynBio #iGEM #Cloning
NanoPlasmiQC: Full plasmid sequencing with ONT long-reads and automatic data analysis
Long-read sequencing has shown a rapid technological development during the last years. It has been established as the standard method for the sequencing of plant genomes and has also gained importanc...
doi.org
PuckerLab publications@puckerlabpapers.bsky.social · 2mo agoPlease share with your network: Would you benefit from full plasmid sequencing? Check out this cost-effective solution via nanopore sequencing on old flow cells: doi.org/10.64898/202... #LongReads #Biotech #SynBio #Plasmids #iGEM @puckerlab.bsky.social @bpucker.bsky.social
Just in time for the weekend: our latest paper is out in Plant Biology! Anthocyanins and betalains in evolution: Why mutual exclusion remains the best-supported model doi.org/10.1111/plb.... #PlantBiology #Evolution #Anthocyanins #Betalains @puckerlab.bsky.social @unibonn.bsky.social
Anthocyanins and betalains in evolution: Why mutual exclusion remains the best‐supported model
Anthocyanins and betalains are plant pigments produced through different biosynthetic pathways and are generally considered mutually exclusive. We examine claims of their co-occurrence, arguing that ...
doi.org
Interested in getting the genome sequence of your favourite plant? "Cookbook for plant genome sequences" doi.org/10.1186/s128... #Genomics #PlantSciences #Bioinformatics @puckerlab.bsky.social
Please share with your network: Would you benefit from full plasmid sequencing? Check out this cost-effective solution via nanopore sequencing on old flow cells: doi.org/10.64898/202... #LongReads #Biotech #SynBio #Plasmids #iGEM @puckerlab.bsky.social @bpucker.bsky.social
NanoPlasmiQC: Full plasmid sequencing with ONT long-reads and automatic data analysis
Long-read sequencing has shown a rapid technological development during the last years. It has been established as the standard method for the sequencing of plant genomes and has also gained importanc...
doi.org
We are looking for a new group member (BSc/MSc student) to bring our full plasmid sequencing data analysis workflow (NanoPlasmiQC) to the next level: www.izmb.uni-bonn.de/en/pbb/news#... #Python #Genomics #LongReads #Biotech #SynBio #Bioinformatics @puckerlab.bsky.social
🧬 New paper! DupyliCate provides an automated solution for the identification and characterization of gene duplications. 📄 doi.org/10.1038/s415... #Bioinformatics #Genomics @shakunthalan.bsky.social @bpucker.bsky.social
DupyliCate: mining, classifying, and characterizing gene duplications - Scientific Reports
Scientific Reports - DupyliCate: mining, classifying, and characterizing gene duplications
doi.org
Dark pigmentation of blackberry can be explained by high amounts of cyanidin-3-O-glucosides #FlavonoidFriday doi.org/10.64898/202... & shorturl.at/bxQU9 @puckerlab.bsky.social
🌾🧬A practical cookbook for plant genome sequencing. Oxford Nanopore workflows. From project planning to data release. Helping newcomers enter the growing field of plant genomics. #plantscience @bpucker.bsky.social @puckerlab.bsky.social @puckerlabpapers.bsky.social link.springer.com/article/10.1...
Cookbook for plant genome sequences - BMC Genomics
BMC Genomics - Access to genome sequences is crucial to investigate and engineer traits in plants, explore biodiversity, and support phylogenetic studies. Over the last decade, affordable...
link.springer.com
Interested in getting the genome sequence of your favourite plant? "Cookbook for plant genome sequences" doi.org/10.1186/s128... #Genomics #PlantSciences #Bioinformatics @puckerlab.bsky.social
Have you ever touched Urtica dioica? It is a memorable experience. Beyond its sting, this plant has medicinal properties. To better understand the genetics underlying key traits, we sequenced and analyzed its genome: doi.org/10.64898/202... #Genomics #PlantScience @puckerlab.bsky.social
Near-black flowers of Tacca chantrieri are connected to anthocyanin genes including a curious DFR twist #FlavonoidFriday doi.org/10.64898/202... & shorturl.at/SnbhQ @puckerlab.bsky.social
Planning to sequence the genome of your favourite plant? This workflow based on ONT sequencing comes with hands-on instructions: "Cookbook for plant genome sequences" doi.org/10.1186/s128... #Genomics #LongReads #PlantSciences #Bioinformatics
Curious about the dark side of plant biology? Check out our latest preprint on the secrets of black pigmentation in Rubus: doi.org/10.64898/202... #Anthocyanins #Transcriptomics #PlantScience @puckerlab.bsky.social
Planning to sequence the genome of your favourite plant? This workflow based on ONT sequencing comes with hands-on instructions: "Cookbook for plant genome sequences" doi.org/10.1186/s128... #Genomics #LongReads #PlantSciences #Bioinformatics
🌸 Exciting news: our Digitalis purpurea (foxglove) genome study got published! We uncovered the genetic basis of flower color and morphology - TEs are playing an important role. 🔗 doi.org/10.1186/s128... #Genomics #PlantScience #Anthocyanins #Evolution @bpucker.bsky.social
Are scientific papers always right? Not necessarily. Our students revisited a study on quinoa leaf pigmentation. Here is what they found: doi.org/10.64898/202... #OpenScience #Reproducibility #PlantScience @puckerlab.bsky.social
Would you like to confirm your cloning success with full plasmid sequencing? NanoPlasmiQC allows automatic analysis of dozens of plasmids in a single ONT sequencing run: doi.org/10.64898/202... #Genomics #Bioinformatics #OpenScience @puckerlab.bsky.social @unibonn.bsky.social
#ERGAReads | Cookbook for plant genome sequences 🌱 🌴 🌵 🌿 🌾 🌿 🍀 link.springer.com/article/10.1... @bpucker.bsky.social @unibonn.bsky.social @puckerlab.bsky.social 🌱 🖥️ #Plant #genomes
Cookbook for plant genome sequences - BMC Genomics
BMC Genomics - Access to genome sequences is crucial to investigate and engineer traits in plants, explore biodiversity, and support phylogenetic studies. Over the last decade, affordable...
link.springer.com
Check out Nancy's latest work about the long history of anthocyanin research and the strong growth of this research topic 👇 #PlantSciences #Evolution
Nancy Choudhary@nancy-choudhary.bsky.social · 4mo agoHappy to share our new review mapping the journey of anthocyanin research and highlighting where it is heading next! The explosion of publications in the last decade says it all 📈 Definitely a space to watch👀 And we're here for it!✌ lnkd.in/eCsfB-RE #Plants #Anthocyanins #EarlyCareerResearch
Interested in the genetic secrets of your favorite plant? A genome sequence might reveal them. We wrote down a workflow from DNA extraction & sequencing to genome sequence assembly & annotation. It includes a hands-on guide with example commands. doi.org/10.1186/s128... #Genomics #Bioinformatics
Happy to share our new review mapping the journey of anthocyanin research and highlighting where it is heading next! The explosion of publications in the last decade says it all 📈 Definitely a space to watch👀 And we're here for it!✌ lnkd.in/eCsfB-RE #Plants #Anthocyanins #EarlyCareerResearch
Excited about plant pigments? Anthocyanin biosynthesis is a hot topic in plant biology, judging by the growing number of publications #FlavonoidFriday doi.org/10.20944/pre... & shorturl.at/Hrm4c @puckerlab.bsky.social
🌿 New preprint: Genome sequence of Begonia manicata and genes responsible for striking red color of its leaf/stem outgrowths. Pigmentation appears linked to anthocyanin biosynthesis genes that are strongly expressed in the red tissues 📄 doi.org/10.64898/202... #PlantGenomics @puckerlab.bsky.social
How to complete your plant genomics project with a comprehensive annotation? "Cookbook for Plant Genome Sequences" doi.org/10.1186/s128... #Genomics #Bioinformatics #BigData @puckerlab.bsky.social
How to complete your plant genomics project with a comprehensive annotation? "Cookbook for Plant Genome Sequences" doi.org/10.1186/s128... #Genomics #Bioinformatics #BigData @puckerlab.bsky.social
Need a genome sequence of your favourite plant? We laid out instructions for a complete workflow based on ONT sequencing: "Cookbook for plant genome sequences" doi.org/10.1186/s128... #Genomics #LongReads #PlantSciences #Bioinformatics @puckerlab.bsky.social @unibonn.bsky.social
