Completing "Plant Bioinformatics" 🌱 Students worked with CLI, big data, and cloud computing. Critically assessed papers and reproduced analyses. Alarming how often methods are incomplete or data is not shared. Teaching #OpenScience is crucial. 🔗 github.com/bpucker/teac... @puckerlab.bsky.social

#PlantSciJobs #PlantSciJob 2 PhD positions 1 PostDoc position Molecular Plant Science + Plant Evolutionary Ecology @greenrobust.de Cluster of Excellence Deadline: 15 April 2026 www.deutsche-botanische-gesellschaft.de/en/job-openi...

One of the Most Impressive Natural Attractions in the World: #Waitomo #Glowworm Caves, #NewZealand #photography #travel #Arachnocampaluminosa Link for more photos and information: mossandfog.com/one-of-the-m...

There is quite usual framing "level of trust [of people/society] to science". In fact, the science is about providing evidence and verification. Trust is just one of optional consequences, it is not the [primary] aim, and not always rational either.

Frémont deathcamas! #NativePlants. Had to look up the dramatic name, beautiful but not for eating… en.wikipedia.org/wiki/Toxicos...

Paired plus-minus sequencing is an ultra-high throughput and accurate method for dual strand sequencing of DNA molecules doi.org/10.1101/2025... Cookbook for plant genome sequences doi.org/10.1186/s128... #Genomics #Bioinformatics

Dear @anthropic.com, my lab builds a lot of OSS for genomics (github.com/COMBINE-lab). While we lack the widespread OSS market of popular NPM packages, pieces of our software are critical in biomedical research. Please consider extending your Claude Max offer to such labs!

We are delighted to welcome Hannah to our group. She will conduct long-read sequencing to explore plant genomes. We are excited to have her on board and look forward to amazing discoveries ahead! www.izmb.uni-bonn.de/en/pbb/team #PlantGenomics #LongReadSequencing #Bioinformatics #Nanopore

This is an amazing piece of scientific satire by @russcd.bsky.social. The first sentence alone is a banger: "The defining goal of the academic endeavor is to establish a single perfect value that completely summarizes entire careers’ achievements." academic.oup.com/mbe/article/...

A molecular 'gatekeeper' in plants opens the door for beneficial microbes Congratulations, @ottlab.bsky.social on a great paper in Science. www.cibss.uni-freiburg.de/news/a-molec...

On one hand I am really excited to try running kallisto using GPUs and do 50 sec/sample; on the other hand I am very bad at remembering how to submit GPU jobs on the cluster. 😅

Amorpha canescens, our Lead Plant, blooming at Rocky Mountain Arsenal National Wildlife Refugee #nativeplants #FallBackFlowers #FallBack to Sep. 7 🌿 Amorpha means ‘without form’ since this genus’ flowers have only one petal, unlike most "pea-shaped" flowers, missing the wing and keel petals.

🌿 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

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

A general evolutionary model for the emergence of novel characters from serial homologs doi.org/10.1101/2025... DupyliCate: mining, classifying, and characterizing gene duplications doi.org/10.1101/2025... #Bioinformatics #Genomics

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

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

How many bromeliads are there? doi.org/10.64898/202... Tracing the evolutionary and genetic footprints of atmospheric tillandsioids transition from land to air doi.org/10.1038/s414...

Jan Malik's photos of carnivorous plants in New York and New Jersey. whyevolutionistrue.com/2026/03/02/r...

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...

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

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)

Be part of OMGN! Open to all researchers with an interest in oomycetes, from molecular genetics & genomics to biology, population biology, and ecology, at either an experimental or a computational level. Investigators new to the field are always welcome oomycetes.com

Flowering desert lily underneath yesterday's sunset lenticular clouds (Photo: Sicco Rood).

#ECR #PlantSciConfi

Please share with potentially interested colleagues :) #Bioinformatics #Genomics #EvolutionaryBiology

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

Eulobus californicus, the California Primrose, blooming in Anza-Borrego today #nativeplants 🌿

I wouldn’t put it this way for research, as science isn’t about winning. But I also returned last week from China with similar sentiments about Chinese prowess. www.nytimes.com/2026/02/10/o...

🌿 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

Spoiler: it's a 'yes, but...' Is bee‐avoidance by bird‐pollinated flowers driven by nectar robbing in Erica? - Coetzee - Functional Ecology - Wiley Online Library besjournals.onlinelibrary.wiley.com/doi/10.1111/...

Two fern fronds #BlueSkyArtShow #Two #Photography #Flora #Macro #Oregon 📷

Ophrys bombyliflora (a first for me 💥) flowering today on Gran Canaria alongside Gennaria diphylla (and seeding Habenaria tridactylites) @1025m asl on a NW facing slope under pine & eucalyptus. Orchis canariensis in full bloom nearby. Happy days! 💜🇪🇸🌋 @ukorchids.bsky.social @orchidvinny.bsky.social

On the consistency of duplication, loss, and deep coalescence gene tree parsimony costs under the multispecies coalescent doi.org/10.64898/202... DupyliCate - mining, classifying, and characterizing gene duplications doi.org/10.1101/2025...

Enhanced phenylalanine biosynthesis amplifies light-stress-driven phenylpropanoid production in Arabidopsis doi.org/10.64898/202... Diversity and ecological functions of anthocyanins doi.org/10.1186/s128... #Phenylpropanoids #Flavonoids #Anthocyanins

They are feeding our proposals to ChatGPT to ask "is this DEI" and then ChatGPT will use our proposals, which is supposed to be confidential and proprietary, to train its next model. Talking about breach of confidentiality and intellectual theft.

T2T Genome and Population Resequencing Reveal OfCCD4 Alleles Orchestrate Petal Color and Scent in Osmanthus fragrans doi.org/10.64898/202... Genome sequence of the ornamental plant Digitalis purpurea reveals the molecular basis of flower color and morphology variation doi.org/10.1101/2024...

DupyliCate: mining, classifying, and characterizing gene duplications doi.org/10.1101/2025... #Genomics #Bioinformatics #Python

🌼⏳ RESEARCH ⏳🌼 BnaFLC.A10 and BnaFLC.A2 contribute to additive vernalization requirements and interact epistatically with BnaFT.A2 to regulate flowering time in B. napus – Yin et al. 🔗 doi.org/10.1093/jxb/... #PlantScience 🧪

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

Dung moss, Tetraplodon mnoides. As the common name suggests, it often grows on animal dung, but can also grow on bones, antlers and other substrates. Always an eye catcher for its striking colours. #Newfoundland, Canada. #moss #bryophyte

Losing our words is a writer’s worst nightmare. Don’t forget to backup your work. #WriteSky #WritingCommunity #5amWritersClub

Bluesky is the new science Twitter, new study by @whysharksmatter.bsky.social and Julia Wester concludes! "Results show that for every reported professional benefit that scientists once gained from Twitter, scientists can now gain that benefit more effectively on Bluesky than on Twitter."

#transgenerational transmission of a core #microbiome that protects against downy mildew from soil to #phyllosphere Fantastic and important study by @jellespooren.bsky.social @rlberendsen.bsky.social @cornepieterse.bsky.social academic.oup.com/ismej/advanc... #plantscience

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

Eight years ago today 🌿 Caesalpinia pulcherrima (Dwarf Poinciana or ʻohai aliʻi) blooming street side in Paia. This introduced plant comes from the West Indies, I love its great color! A member of the Pea family, Fabaceae, though most wouldn’t guess that. 😎

Found an additional graphic that gets even more of these quotes together. I've kept "I hate myself, I hate clover, and I hate bees" pinned above my desk since I first started studying evolutionary biology as an undergraduate. So relatable to get extremely frustrated with your study system.

Eustoma russellianum, our Showy Prairie Gentian, blooming in Loveland #nativeplants #FallBackFlowers #FallBack to August 12 🌿

Eight years ago today 🌿 Oxalis debilis, the nonnative Pink Woodsorrel, blooming at Ke'anae Arboretum