Just in time for Karneval, we present coelsch ! 🎭🥳 A platform-agnostic framework for single-cell recombination analysis. We study crossover variation in mutants & natural lines, identifying the largest natural inversion in A. thaliana to date! 📄 doi.org/10.64898/202... 🐱 github.com/schneeberger...

That looks great! To avoid errors due to starting with spotty gene annotations (gene loss vs. not annotated), I would suggest re-annotating every genome used with TOGA2 from the Hiller lab: github.com/hillerlab/TO... Many annotations out there are not optimal and TOGA2 has great power and accuracy.

📣 #Forschungsnews: Feine Unterschiede – 5 neue Krebsarten in der Nordsee entdeckt 🌊🦐 In der Deutschen Bucht, einem der weltweit bestuntersuchten Meeresgebiete, hat ein Senckenberg-Forschungsteam 5 neue Arten winziger Krebstiere nachgewiesen. Unbekannte Vielfalt vor der Haustür! 👉 https://sgn.one/1df

Excited to share our final accepted version of the CiFi method out today: www.nature.com/articles/s41...

Day 2: bringing the consortium researchers & experts together is on the theme of Functional & comparative genomics Keynote #StefanMundlos: Functional Genomics of Bat Limb Development With Genome Chalk team talks #LucasCanesin, #YuryMalovichko, #AlejandroGonzales, #BernhardBein & #MicheleAlbertini

⚡ We've released a new version of rdeval! v0.0.8 includes full support for @pacbio.bsky.social CiFi read preprocessing, visualization report improvements, and upgrades to performance and parallelization! 🔗 Release notes and source code: github.com/vgl-hub/rdev...

Happy to present TOGA2, developed by Yury Malovichko @ymalovichko.bsky.social, the faster, memory-efficient & more accurate TOGA1 successor (github.com/hillerlab/TO...). And annotations, orthologs & gene loss/dup data generated with 4 references for 883 placental mammal and with 5 refs for 676 ...

📢 New #preprint alert 📢 https://www.biorxiv.org/content/10.1101/2025.11.18.689136v1 Several lineages of #birds and #mammals appear to have independently gained or lost the ability to enter #torpor. 🧵1/4

Preprint Alert! 🦥 We produced complete genomes for 2 Xenarthra and placed them in a mammalian comparative framework. We found that Xenarthra harbour the largest number of retrocopies in mammals! www.biorxiv.org/content/10.1...

Delighted to finally announce a preprint describing the Q100 project! “A complete diploid human genome benchmark for personalized genomics” For which we finished HG002 to near-perfect accuracy: www.biorxiv.org/content/10.1... 🧵[1/14]

New preprint! With PureTarget we achieved >1000× coverage of targets with ~5kb PacBio reads at QV39. This enabled high-resolution analysis of CRISPR-Cas9 outcomes Key finding: Some CRISPR-mutations may only emerge in the second generation, due to germ cell mosaicism www.biorxiv.org/content/10.1...

A common type of ant in Europe breaks a fundamental rule in biology: its queens can produce male offspring that are a whole different species go.nature.com/4mOb5T9

#PacBio #ULI #HiFi sequencing goes clinical: Really cool paper showing that Ultra-low input (ULI) HiFi sequencing can help cancer diagnostics. Only emphasizes how interdisciplinary the ULI field is ( #museomics, #single-cell #sequencing, #diagnostics etc) www.medrxiv.org/content/10.1...

The poster session was really great and lots of fun @eseb2025.bsky.social! Many interesting discussions and ideas! Thanks to everyone who stopped by at my poster! Looking forward to more interesting talks and posters in the following days!

🔗 https://doi.org/10.1093/bioinformatics/btaf416 💻️ rdeval code: https://github.com/vgl-hub/rdeval (3/3)

You link #phenotype 🦜 to #genotype 🧬 with #comparative #genomics 💻? This #review is for you 📜: authors.elsevier.com/sd/article/S... We review new #methods, remaining #challenges and #future directions and highlight recent key studies. Thanks @hillermich.bsky.social! Please share! 🙂

new from the lab -- we investigate 100% ethanol, DMSO salt solution (DESS), EDTA, RNAlater, and AllProtect as possible approaches for short term room temperature preservation of mosquito HMW DNA, nuclei for Hi-C, and RNA towards high quality reference genome creation. the key findings/tips are ....

6 years ago, a dream came true when Chao took me along on a field trip to look for freshwater crabs in Guangdong. Now, the new species we found is formally described (𝘔𝘦𝘨𝘢𝘱𝘭𝘦𝘰𝘯𝘶𝘮 𝘺𝘢𝘯𝘨𝘥𝘰𝘯𝘨𝘦𝘯𝘴𝘦 in the article). Congrats!! zookeys.pensoft.net/articles.php... #FreshwaterCrab #Biodiversity #Potamidae

The Cetacean Genomes Project is happy to share a milestone publication, presenting the first 18 reference-quality, chromosome-resolved genomes of whales, dolphins and porpoises across the cetacean tree of life. www.frontiersin.org/journals/mar...

Exciting news! Good to see that findings from our study on ethanol-preserved specimens are now applied to formalin-fixed cancer samples. Looking forward to more of these interdisciplinary applications regarding amplification-aided sequencing (i. e. scWGA). #PCRAmplification #LongReadSequencing

#ERGAReads | Thinking of sequencing a genome in your lab? 🧬 This review offers practical guidance on how to start a #genome project for non-model species - covering DNA extraction, sequencing tech, costs, and more! 🔗 rdcu.be/eiHRG @sgn.one @leibnizlib.bsky.social #biodiversity #genomics

Still no reading material for the Easter break🌞🌻🐰? Then I have a suggestion: "Establishing genome sequencing and assembly for non-model and emerging model organisms: a brief guide" (lnkd.in/dsRmSBDE). It was a pleasure to work on this new publication with TilmanSchell & @lpodsiadlowski.bsky.social🙏!

Research about ultra-low input DNA seq and MDA I recently found: 1. MDA on pg input DNA for ONT rapid seq of pathogens + Tool to detect concatemers doi.org/10.1111/1755... 2. MDA for metagenomics of low biomass samples doi.org/10.1093/isme... Exciting Stuff, small inputs + ampli. going strong!

🐙 Jetzt abstimmen: Molluske des Jahres 2025! 🐌 5 beeindruckende Weichtiere stehen im Finale. Dem Gewinner-Weichtier winkt die Entschlüsselung seines kompletten Genoms! 🧬🏆 Erfahrt mehr über die Kandidaten und stimmt bis zum 31.3. für euren Favoriten ab 👉 moty.senckenberg.science

𝗖𝗿𝗮𝗰𝗸𝗶𝗻𝗴 𝘁𝗵𝗲 𝗠𝗼𝗹𝗹𝘂𝘀𝗰 𝗖𝗼𝗱𝗲: A ground-breaking study in @science.org unravels the evolutionary history of molluscs: tinyurl.com/MolluscTree @sgn.one @sigwartae.bsky.social @kmkocot.bsky.social @squamiferum.bsky.social @vans-gonzalez.bsky.social @cgreve.bsky.social @mkyapchiongco.bsky.social

This looks extremely promising and it works with smallish amounts of input DNA. Why? Because it applies long range PCR amplification with 'polC' (KOD Xtreme™ Hot Start DNA polymerase) that we investigated in depth here: genomebiology.biomedcentral.com/articles/10.... #PacBio #HiFiSequencing #PCR

With @katiejenike.bsky.social and a bunch more of our fellow k-mer enthusiasts, we put together a manuscript on k-mers in biodiversity genomics. A guide if you will, that covers k-mers from basics to some really funky stuff... genome.cshlp.org/content/35/2...

Thrilled to share our work on unlocking challenging specimens for @pacbio.bsky.social #HiFi sequencing, now out in Genome Biology! genomebiology.biomedcentral.com/articles/10.... We show that specimens that have been stored in ethanol for decades can still be amenable for long-read sequencing:🧵

Glad to see our preprint out! We reconstructed diet evolution in bats and support ancestral omnivory of the ecologically diverse bat family Phyllostomidae.

‼️These #PSMC #peaks are #artifacts‼️ Seen #PSMC results like this🤔? They are caused by ill-set parameters, #very #common, and #easy #to #solve! For details see 🧵& OA paper @currentbiology.bsky.social 🙂🐢🧬🎉! cell.com/current-biol...

With the new #PacBio Ampli-Fi protocol, you can now sequence genomes with as little as 1 ng of DNA! Paired with our #HiFisequencing technology, it provides a powerful solution for assembling high-quality genomes with exceptional accuracy. #PAG32

Happy to report that our work on immune system adaptations in bats is now out in @nature.com 🦇🧬 www.nature.com/articles/s41... @ariadnamorales.bsky.social @batresearch.bsky.social @virology.bsky.social @DGKontopoulos.ecoevo.social.ap.brid.gy @sgn.one @bat1kgenomes.bsky.social Read more ...