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dnarnaresearch.bsky.social
@dnarnaresearch.bsky.social
120 followers 150 following 410 posts
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Reposted
guijacquemet.bsky.social
Your periodic reminder that science is not done by a few selected "stars scientists". Science is done by hundred of thousands. Siloed money mean a few flashy discoveries and a lot of waste. Want to change things? Make funding accessible and stop funding calls with less than 2% success rate.
katherinestiles.org Katherine Stiles @katherinestiles.org · 1d
· #AcademicSky ·
The European Research Council is launching €7m Plus Grants for ambitious, long‑term research — open to researchers at any career stage but limited to about 30 awards; current ERC grantees and applicants are ineligible, reports @clanicholson.bsky.social.
ERC’s new €7m Plus Grants open to researchers at any career stage - Research Professional News
European Research Council president describes scheme as part attempt to lure US talent
www.researchprofessionalnews.com
November 29, 2025 at 10:53 AM
Reposted
jbyoder.org
Orchids are famous for specialized flowers that create species isolation by manipulating pollinators— but these ones don't have specialized pollinator relationships. Instead, they're isolated by pollen incompatibilities. 🌿

buff.ly/Ypb77Ir
Flowers of the orchid Anacamptis papilionacea, pink and butterfly-shaped with wide darker wings; photo by Hans Hillewaert via Wikimedia Commons Flowers of the orchid Anacamptis pyramidalis, lighter pink and with big lip-like labellums; photo by Ramin Nakisa via Wikimedia Commons Flowers of the orchid Anacamptis morio hampe, purple with long nectar spurs and big lip-like labellums; photo by Didier Desouens, via Wikimedia Commons
November 28, 2025 at 3:12 PM
Reposted
vegplotter.bsky.social
French Marigolds are a game-changer for whitefly control! 🌼🚫They release Limonene, a strong scent that acts as a natural repellent. The aroma confuses airborne pests & "jams" their navigation, stopping them from landing on your prized veggies. 🍅
Nature’s very own forcefield! 🛡️ #OrganicGardening
Yellow French Marigolds with tomato plants in the background
November 28, 2025 at 11:49 PM
Reposted
vegplotter.bsky.social
🎉Cyber Monday Alert! 🎉

Missed Black Friday?

Don't worry! Grab 20% OFF all VegPlotter subscriptions on Monday, Dec 1st, 2025!

Keep your eyes peeled on Monday for the promo code! 🥕💻
person using computer and phone with vegplotter on the screen with a cup of coffee to the side on a desk
November 29, 2025 at 12:01 AM
Reposted
agristok.bsky.social
5 Fully Funded PhD Positions in Molecular Plant Science at International Max Planck Research School (IMPRS), Germany

Explore how to join the fully funded IMPRS Molecular Plant Science PhD program at the Max Planck Institute and University of Potsdam. Learn about benefits, application requirements,…
5 Fully Funded PhD Positions in Molecular Plant Science at International Max Planck Research School (IMPRS), Germany
Explore how to join the fully funded IMPRS Molecular Plant Science PhD program at the Max Planck Institute and University of Potsdam. Learn about benefits, application requirements, training structure, and why international students worldwide choose this top-tier research environment.
agristok.net
November 29, 2025 at 12:23 AM
dnarnaresearch.bsky.social
Gene duplication drove functional divergence of two effectors in the maize anthracnose pathogen
doi.org/10.1101/2025...

DupyliCate - mining, classifying, and characterizing gene duplications
doi.org/10.1101/2025...
Gene duplication drove functional divergence of two effectors in the maize anthracnose pathogen
Colletotrichum species rank among the most important fungal pathogens, threatening food security by infecting nearly all major crops worldwide. Colletotrichum graminicola, the causal agent of maize an...
doi.org
November 29, 2025 at 6:14 AM
Reposted
jbyoder.org
Really good, evenhanded treatment of this issue, starting from the problem that we’ve conflated a bunch of generative algorithms with ML methods used for actual new analysis under the “AI” brand
November 28, 2025 at 5:53 PM
dnarnaresearch.bsky.social
Haplotype-resolved diploid genome inference on pangenome graphs
doi.org/10.1101/2025...

The haplotype-resolved assembly of COL40 (Manihot esculenta)
doi.org/10.1101/2024...
Haplotype-resolved diploid genome inference on pangenome graphs
Genotyping is the task of identifying the genetic variants present in a sample from sequencing data, and it is a fundamental problem in computational biology. Existing genotyping approaches typically ...
doi.org
November 28, 2025 at 9:33 PM
dnarnaresearch.bsky.social
Eduomics: a Nextflow pipeline to simulate -omics data for education
doi.org/10.1101/2025...

Integrating Molecular Biology and Bioinformatics Education
doi.org/10.1515/jib-...
Eduomics: a Nextflow pipeline to simulate -omics data for education
Moving past learning just algorithms and code is a key challenge of bioinformatics education: the ideal goal is for students to acquire higher-order knowledge such as the ability to solve biological p...
doi.org
November 28, 2025 at 9:31 PM
dnarnaresearch.bsky.social
mim: A lightweight auxiliary index to enable fast, parallel, gzipped FASTQ parsing
doi.org/10.1101/2025...

KIPEs3: Automatic annotation of biosynthesis pathways
doi.org/10.1101/2022...
mim: A lightweight auxiliary index to enable fast, parallel, gzipped FASTQ parsing
The FASTQ file format is the lingua franca of primary data distribution and processing across most of bioinformatics. Over time, the compression, storage, transmission, and decompression of gzip compr...
doi.org
November 28, 2025 at 9:23 PM
Reposted
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
Reposted
frwildflowers.bsky.social
Penstemon angustifolius var. angustifolius
(Broadbeard Penstemon) blooming in Fremont Canyon #nativeplants

#FallBackFlowers #FallBack to May 27 🌿
Cheerful blue penstemon flowers
November 27, 2025 at 3:34 PM
Reposted
ashs-hort.bsky.social
Happy Thanksgiving from all of us at ASHS!

https://ashs.org/
November 27, 2025 at 12:00 PM
Reposted
davidcayjohnston.bsky.social
The latest evidence that America is becoming a land of idiots:
November 27, 2025 at 7:18 AM
Reposted
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
dnarnaresearch.bsky.social
Calibrated Variant Effect Prediction at the Residue Level Using Conditional Score Distributions
doi.org/10.1101/2025...

NAVIP: Unraveling the Influence of Neighboring Small Sequence Variants on Functional Impact Prediction
doi.org/10.1101/596718
Calibrated Variant Effect Prediction at the Residue Level Using Conditional Score Distributions
Effective clinical use of variant effect prediction (VEP) requires models that are both accurate and well-calibrated. Calibration refers to a model's ability to produce meaningful and reliable probabi...
doi.org
November 27, 2025 at 5:46 AM
dnarnaresearch.bsky.social
Transcriptome-wide profiling of alternative splicing regulators with CRISPore-seq
doi.org/10.1101/2025...

Animal, fungi, and plant genome sequences harbour different non-canonical splice sites
doi.org/10.1101/616565
Transcriptome-wide profiling of alternative splicing regulators with CRISPore-seq
Alternative splicing creates diverse RNA isoforms from individual genes, yet single-cell CRISPR screens are limited to gene-level quantification and cannot detect changes in alternative splicing and t...
doi.org
November 27, 2025 at 5:44 AM
dnarnaresearch.bsky.social
A deep-time landscape of plant cis-regulatory sequence evolution
doi.org/10.1101/2025...

Genetic factors explaining anthocyanin pigmentation differences
doi.org/10.1101/2023...
A deep-time landscape of plant cis-regulatory sequence evolution
Developmental gene function is conserved over deep time, but cis-regulatory sequence conservation is rarely found. Rapid sequence turnover, paleopolyploidy, structural variation, and limited phylogeno...
doi.org
November 26, 2025 at 5:29 AM
dnarnaresearch.bsky.social
'Dispersification' of Agalinis (Orobanchaceae) into South America is associated with hummingbird pollination and perennial life history shifts
doi.org/10.1101/2025...

Phylogenomics Reveals Systematic Loss of Anthocyanin Biosynthesis Genes at the Family Level in Cucurbitaceae
doi.org/10.1101/2025...
'Dispersification' of Agalinis (Orobanchaceae) into South America is associated with hummingbird pollination and perennial life history shifts
Aim: Several mechanisms contribute to the plant biodiversity of the Neotropics, with the highlands of South America serving as important hotspots of diversity. In particular, the Brazilian highlands e...
doi.org
November 25, 2025 at 5:22 AM
Reposted
thebiologistisn.bsky.social
At 2.5 months post-harvest, only the purple/black fruit remains from that initial harvest.

The high concentration of anthocyanin pigments is supposed to help discourage some spoilage molds, so this fruit remaining is good to see.

I have plenty from a later harvest yet to be examined in detail.
thebiologistisn.bsky.social Dr Darren Abbey @thebiologistisn.bsky.social · Sep 21
At two weeks post-harvest, the tomatillos are still in good shape. This makes me pretty sure that they all have the long-storage trait. If so, the fruit will stay in good shape until I process them for seeds in early spring.
Six tomatillos with a range of levels of purple pigment, from green to ink-black. One is pale green with a purple stripe.
November 24, 2025 at 10:24 PM
dnarnaresearch.bsky.social
Billi: Provably Accurate and Scalable Bubble Detection in Pangenome Graphs
doi.org/10.1101/2025...

Pangenome of cultivated beet and crop wild relatives reveals parental relationships of a tetraploid wild beet
doi.org/10.1101/2023...

#Genomics #Bioinformatics #Pangenomics
Billi: Provably Accurate and Scalable Bubble Detection in Pangenome Graphs
A key application of pangenome graphs is the characterization of small and large genomic variants represented as bubbles within the graph. Although bubbles have been extensively studied in directed gr...
doi.org
November 23, 2025 at 8:33 AM
Reposted
puckerlab.bsky.social
Updated our P2 output summary! 📊

Even with strong variation between flow cells, we are seeing an average yield of ~80 Gbp.

Huge thanks to Julie for the sequencing work.

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

#Genomics #LongReads #OpenScience
Stacked bar plot showing sequencing output per P2 flow cell. Details: https://www.izmb.uni-bonn.de/en/pbb/news#P2OS
November 22, 2025 at 9:52 AM
Reposted
vegplotter.bsky.social
Don't miss VegPlotter's huge BLACK FRIDAY Offer!

📢 Get 30% OFF all subscriptions from 21st November to 28th 2025. Harness the ultimate veggie garden planner at a massive discount! Use code 28BF25 at checkout.

Offer ends soon, only 6 days left! 🥕💻

#VegPlotter #BlackFriday #Gardening
Picture of computer showing VegPlotter
November 22, 2025 at 12:01 AM
dnarnaresearch.bsky.social
Snail plots are badges of genome assembly quality
doi.org/10.1101/2025...

Cookbook for Plant Genome Sequences
www.preprints.org/manuscript/2...

#Genomics #Bioinformatics #LongReads #BigData
Snail plots are badges of genome assembly quality
Assembly quality is frequently assessed using independent measures of assembly span, contiguity, sequence composition and completeness. Among contiguity metrics, contig and scaffold N50 have perhaps g...
doi.org
November 22, 2025 at 7:28 AM
Reposted
puckerlab.bsky.social
Yesterday, Nancy shared her Cucurbitaceae anthocyanin loss story with colleagues at our institute. Comprehensive talk highlighting the most striking discoveries. Please find the full story here:

doi.org/10.1101/2025...

#PlantSci #Evolution
Nancy presenting "The World of Cucurbits: No Blues, Just Hues". Details: https://doi.org/10.1101/2025.10.06.680802
November 5, 2025 at 6:05 AM