| Website | https://eporetsky.github.io/ |
| PlantApp | http://www.plantapp.org/ |
| Code | https://github.com/eporetsky |
| https://www.linkedin.com/in/eporetsky |
I've been seeing a few #transcriptome wide association studies (TWAS) papers lately. This is another example, from #sorghum, combining GWAS and TWAS to study flowering time. Bonus - I imagine that there's a lot more value that can be gained from the 822 #RNAseq samples made publicly available
https://www.biorxiv.org/content/10.1101/2024.12.12.628249v1.full.pdf
The two #systemin #peptide #receptors in tomatoes have opposite functions. While SYR1 activates systemin-induced #immune responses, SYR2 acts as an antagonist. Wounding preferentially induces the expression of SYR2 that attenuates immune responses by outcompeting SYR1 for binding with the co-receptor SERK3a
https://www.cell.com/action/showPdf?pii=S1534-5807%2824%2900670-1
Very interesting study using #arabidopsis showing commensal #rhizobacteria secrete a subtilase that suppresses plant #immunity by cleaving #peptide elicitors
https://www.cell.com/cell-reports/fulltext/S2211-1247(24)01414-1
The KARRIKIN INSENSITIVE 2 (KAI2) #receptor in #petunias can be activated by the sesquiterpenoid germacrene D, a volatile signal that may coordinate flower development
https://www.science.org/doi/abs/10.1126/science.adl4685
Plantae summary: https://plantae.org/volatile-communication-in-plants-relies-on-a-kai2-mediated-signaling-pathway/
AlphaFold3 is now available and looks like it can handle all molecule interactions!
Webserver: https://golgi.sandbox.google.com/about
Paper: https://www.nature.com/articles/s41586-024-07487-w
Fun #SynBio paper from the Shih lab - Engineered #broccoli 🥦 with thermostable glycosyl hydrolases (myrosinases) retain more hydrolysis products beneficial to human #health after #cooking
Perception of volatile organic compounds (#VOCs) from wounded #arabidopsis plants identifies two green leaf volatiles (#GLVs), (Z)-3-hexenal and (E)-2-hexenal. Perception starts in #guard cells and subsequently in #mesophyll cells, triggering the expression of biotic and abiotic stress-responsive genes in a calcium-dependent manner.
Plants sense volatiles emitted by injured neighboring plants and elicit defense responses to external threats. Here, the authors show that Arabidopsis leaves uptake two green leaf volatiles via stomata and trigger cytosolic Ca2+ defense signaling.
Missed this #LigandMPNN preprint from a month ago from the Baker lab. LigandMPNN is a protein sequence #design that works with non-protein molecules such as small molecules, nucleotides and metals
https://www.biorxiv.org/content/10.1101/2023.12.22.573103v1
Run it on Colab - https://colab.research.google.com/github/ullahsamee/ligandMPNN_Colab/blob/main/LigandMPNN_Colab.ipynb