#PlantSciJobs #PlantSciJob
15 PhD positions
Nuclear architecture and chromatin and advanced imaging analysis
In Marie Curie Doctoral Network ‘AGILE’
positions in UK, France, Germany, Switzerland, Sweden + Czech Republic
www.deutsche-botanische-gesellschaft.de/en/job-openi...
Summary of our "Plant Bioinformatics" course content. Generated with ChatGPT. Details: https://github.com/bpucker/PlantBioinformatics
This week in our "Plant Bioinformatics" course: students practice critically evaluating scientific papers. We check: data availability, reproducibility, and whether claims are supported by evidence. Teaching reproducible science 🌱
github.com/bpucker/Plan...
#RNAseq #Bioinformatics #OpenScience
BOTANIC-0: a series of foundation models for plant genomic data
doi.org/10.64898/202...
Cookbook for plant genome sequences
doi.org/10.1186/s128...
#PlantGenomics #LongRead #Bioinformatics #AI
A comprehensive assessment of tandem repeat genotyping methods for Nanopore long-read genomes
doi.org/10.64898/202...
Large scale genomic rearrangements in selected Arabidopsis thaliana T-DNA lines are caused by T-DNA insertion mutagenesis
doi.org/10.1101/2021...
#Genomics #Bioinformatics
Two chromosome-level genome assemblies of Sarracenia reveal repeat-driven expansion and gene loss associated with carnivory
doi.org/10.64898/202...
DupyliCate: mining, classifying, and characterizing gene duplications
doi.org/10.1101/2025...
#Genomics #Bioinformatics #Evolution
Macro photograph of on tiny pink flower surrounded by blue ones
I know spring is coming when the forget-me-nots make their appearance!
#macromonday #photography #art #flowers
This infographic titled "Crocuses, Saffron & Poisonous Imposters" explores the chemistry and botany of crocuses. It explains that saffron comes from Crocus sativus, which contains the deep red pigment crocin. While yellow petals contain carotenoids, purple petals contain anthocyanins like delphinidin. It warns that Colchicum autumnale, also called "autumn crocus," is a toxic lookalike containing colchicine, a dangerous alkaloid that can cause organ failure but is also used to treat gout.
It’s spring in the northern hemisphere and the crocuses are blooming. Find out more about their colours and poisonous lookalikes in this graphic: www.compoundchem.com/2022/03/15/c...
#ChemSky 🧪
Pangenomes, really?
Most early “pangenomes” = oligogenomes (oligo, Gr., few).
More recent “pangenomes” generally = poligenomes (polis, Gr., many).
True pangenomes (pas, Gr., every/all) would be rare indeed.
🙏🏼 @zbao.bsky.social for pointing out his review.
www.nature.com/articles/s41...
Sequencing output per P2 flow cell. Details: https://www.izmb.uni-bonn.de/en/pbb/news#P2OS
We (Julie) are still very active in the long-read sequencing business. Please see an updated figure regarding the output per P2 flow cell below. Reach out if you would like to collaborate!
Details: www.izmb.uni-bonn.de/en/pbb/news#...
#PlantGenomics #LongReads @bpucker.bsky.social
Diversity of Asteraceae flower pictures. Source: https://commons.wikimedia.org/wiki/File:Asteracea_poster_3.jpg, CC BY-SA 3.0
Plants do not just turn red when stressed: pathogen-induced red pigmentation actively boosts disease resistance through protective anthocyanins in Asteraceae #FlavonoidFriday (doi.org/10.64898/202... & shorturl.at/TolZT)
#ECR #PlantSciConfi
I'm so dang excited for #PEQG26 I've already started my talk. Registration and poster abstract submission open through March 10.
Tiny hazel flower and the top of catkins
Day 1336 of #IansDailyPhotoChallenge and I shared these hazel catkin flowers the other week, but this is a contorted hazel so sort of different
Top mindfulness and observation skills again today, these are tiny things 🤗 #inspiringnature #wildlife #naturephotography #MentalHealthMatters
#365DaysWild
Please share with potentially interested colleagues :)
#Bioinformatics #Genomics #EvolutionaryBiology
Are you passionate about computational biology and the evolution of specialized plant metabolism? We invite highly motivated and experienced students and early-career researchers to join our group in Bonn for a visiting research stay. This is a great opportunity to gain hands-on experience, exchange ideas, and work in a collaborative and supportive scientific environment with excellent computational resources. We especially welcome colleagues with prior research experience in bioinformatics, phylogeny, evolutionary biology, or comparative genomics, and a strong interest in plant metabolism. Master’s students and candidates looking to strengthen their research profile are strongly encouraged to reach out. If you are proactive, curious, and eager to conduct your own research project, we would love to hear from you. More details and contact information: https://www.izmb.uni-bonn.de/en/pbb/contact#EBPCM #ComputationalBiology #Bioinformatics #EvolutionaryBiology #ComparativeGenomics #ResearchOpportunity #EarlyCareerResearchers #PhDOpportunity #ScientificCollaboration #ResearchInGermany
Are you passionate about computational biology and the evolution of specialized plant metabolism?
More details and contact information:
www.izmb.uni-bonn.de/en/pbb/conta...
#Bioinformatics #Genomics #ResearchInGermany @puckerlab.bsky.social
👀The webinar recording is now available for viewing. Enjoy!👉 plantae.org/plantaeprese....
#plantscience
US political vibes these days be like
Screenshots of slides of the Plant Bioinformatics lecture. More details & course materials: https://github.com/bpucker/PlantBioinformatics
🌿 Plant Bioinformatics! 💻🧬
How do we turn massive plant data into biological insight?
We cover genomics, transcriptomics, sequence analysis, phylogenetics, statistics, and reproducible research practices. Plant science is data science. 🌱
Materials:
github.com/bpucker/Plan...
@puckerlab.bsky.social
What does the new #TAIR12 Arabidopsis thaliana genome annotation look like?
bit.ly/3ZHtneT
#plantscience #plantbiology #Arabidopsis #cropscience #scisky 🧪
strong cucumber plants in plastic cips on a windowsill
Cool as a cucumber! 🥒 Sow indoors, 10cm pots, 1-2cm deep on their side to prevent decay. Keep them in a heated propagator or sunny spot until they sprout. After the last frost, move your strong seedlings outside or keep in a greenhouse & watch them grow!
A neofunctionalized flowering antagonist created an evolutionary contingency that channeled Solanaceae adaptation
doi.org/10.64898/202...
Phylogenomics and metabolic engineering reveal a conserved gene cluster in Solanaceae plants for withanolide biosynthesis
doi.org/10.1101/2024...
A deep-time landscape of plant cis-regulatory sequence evolution
doi.org/10.1101/2025...
Automatic identification and annotation of MYB gene family members in plants
doi.org/10.1101/2021...
Join us on March 10, 2026 at Kyoto University 🇯🇵 for a day celebrating my long-time friend and collaborator Prof. Ryohei Terauchi.
"Kyoto Mini-Symposium on Plant–Microbe Interactions"
⏰Happening, Monday, February 23, at 10:00 am Eastern time. Don’t miss it! 🌱
👉Free registration at plantae.org/plantaeprese...
#plantscience
"TAIR 12 is here!"
Read more here: https://arabidopsis.org/news/breaking-news#307
#News
Reference genome assembly of the tetraploid tuber crop Tropaeolum tuberosum
doi.org/10.64898/202...
Genome sequence of the medicinal plant Tropaeolum majus provides insights into flavonoid biosynthesis
doi.org/10.1101/2024...
#Genomics #Bioinformatics
Genome sequence of the ornamental plant Digitalis purpurea reveals the molecular basis of flower color and morphology variation
doi.org/10.1101/2024...
#Genomics #PlantScience #Flavonoids
🌱 From BMC Genomic Data: A new chromosome-scale genome for Mentha longifolia clarifies mint parentage, enabling trait mapping and improvement of spearmint and peppermint oils. (Luca Comai)
▶️ link.springer.com/article/10.1...
#PlantScience #PlantGenetics
Maarja Öpik stands next to the President of Estonia, holding her Order of Merit.
New Phytologist's Editor-in-Chief, Maarja Öpik, received the Order of Merit from the Estonian President on Saturday: www.delfi.ee/artikkel/120...
Congratulations Maarja!
Summary of the Plant Bioinformatics course. AI-generated image (ChatGPT) showing some of the central elements. Details: https://github.com/bpucker/PlantBioinformatics
Getting ready for “Plant Bioinformatics” 🌱
Big data, command line, cloud computing & reproducible research — plus replicating published studies.
Materials: github.com/bpucker/Plan...
Study in Bonn: www.biologie.uni-bonn.de/de/studium/b...
#Bioinformatics #OpenEducation @puckerlab.bsky.social
