Noe Cochetel

Does anyone have experience with low-input high-throughput (96 well plate) RNAseq library preparation from plants (bonus points if it is with plant roots...)

New preprint: Chloroplast and mitochondrial #pangenome of #Arabidopsis thaliana! Work led by wenfeixian.bsky.social
#plantscience
www.biorxiv.org/content/10.1...

Postdoc jobs in the Gaut lab! Brandon isn't on here, so I can be frank: he is fantastic. I did my postdoc with him and he is not only an amazing scientist but one of my favorite humans. I would have happily stayed in his lab forever if that was feasible. recruit.ap.uci.edu/JPF08999 #plantscijobs

The wild side of grape genomics With broad genetic diversity and as a source of key agronomic traits, wild grape species (Vitis spp.) are crucial to enhance viticulture’s climatic resilience and sustainability. This review discusses how recent breakthroughs in the genome assembly and analysis of wild grape species have led to discoveries on grape evolution, from wild species’ adaptation to environmental stress to grape domestication. We detail how diploid chromosome-scale genomes from wild Vitis spp. have enabled the identification of candidate disease-resistance and flower sex determination genes and the creation of the first Vitis graph-based pangenome. Finally, we explore how wild grape genomics can impact grape research and viticulture, including aspects such as data sharing, the development of functional genomics tools, and the acceleration of genetic improvement.

🍇 Dario Cantu, Mélanie Massonnet and Noé Cochetel collaborated on ways wild grape #genomics unlocks climate resilience for viticulture. Advances in pangenomics & haplotype analysis reveal traits for disease resistance, adaptability, & sustainability.
▶️ www.cell.com/trends/genet...
#ClimateAdaptation

Abstract finally out: "Phased Epigenomics and Methylation Inheritance in the Diploid Genomes of Vitis Vinifera". Learn more during the Grape Genome Initiative session at #PAG32 in January 2025!
plan.core-apps.com/pag32/abstra...

Grapegenomics is now live on BlueSky, all the news related to grapegenomics.com will be posted here. Follow to stay up to date on new grape, pathogen, and pest data!

Evolutionary history of the grape sex-determining region in angiosperms and emergence of dioecy in Vitaceae Dioecy, defined by the presence of either female or male flowers on separate individual plants, is rare in angiosperms. However, it has independently evolved multiple times from hermaphroditic ancesto...

New preprint from the lab biorxiv.org/content/10.1... describing the conservation of the grape sex determining region (SDR) across angiosperm genomes and detailed history within Vitaceae leading to dioecy in Vitis and Muscadinia. Collaboration with

Feels like momentum is building over here recently 🦋

I set up @nextflow.io , @multiqc.info , @openscience.software and @seqera.io today - can't promise how active they'll be, but at least there are accounts to follow 😊

And of course, @nf-co.re has been here for a while already 🍏

Large-scale gene expression alterations introduced by structural variation drive morphotype diversification in Brassica oleracea - Nature Genetics De novo genome assemblies of 22 Brassica oleracea accessions and pan-genome analyses highlight the effects of structural variations on gene expression and their contributions to morphotype diversifica...

Wow! The complex genomic and epigenetic variation that builds the tasty diversity of Brassica oleracea (the single species that forms broccoli, cauliflower, kale, cabbage, Brussels sprouts)

🧪🥦🥬

#starterpacks was a great resource for me to find researchers and feeds relevant to my area of research.
You can browse them here: blueskydirectory.com/starter-pack...
I hope to see #GrapeGenomics folks translocating here too 🍇🧬🖥️ !

Hello new Plant Scientists,

2 Things:

👉 To connect to 150 Plant Science Accounts and 3 relevent feeds, here's a #StarterPack for you:
go.bsky.app/8Zfmwf7

👉 To get your #PlantScience posts into the Plant Science Research Feed (here: bsky.app/profile/did:...), always use the Hashtag #PlantScience

Genomics+Bioinformatics Starter Pack 🧬🖥️ Join the conversation

I created a genomics+bioinformatics starter pack. If I left you off, *please* reply and I'll add you! go.bsky.app/B5YYBfq

Wow. It has been just 3 weeks since I made the #RStats Starter Pack. At the time, Elon had announced blocking rules on X were being changed. I was surprised there wasn't an rstats starter pack here yet, so voila! I added more to it this week, so check it again and follow more. go.bsky.app/Ki7PjpS

Started a starter pack for botanist!

go.bsky.app/5JTxuk1

Awesome, thanks! Found a few more accounts to add to our starter pack of journals, institutes, and societies! (Welcome @torreybotanical.bsky.social and @plantingscience.bsky.social). go.bsky.app/Q9QiX9C

I made a starter pack for algorithmic genomics. It's certainly incomplete, but already has a ton of awesome peeps. Let me know if you know people I should add (with a focus on algorithms and data structures in genomics)

go.bsky.app/TRWCnZs

I put together a starter pack of people studying plant evolution! I have no doubt missed some folks that should be included, so please reply or message me to be added! #PlantEvolution #Botany

go.bsky.app/6FPMYnJ