Pratheek Pandesha
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Pratheek Pandesha
@hadse.bsky.social
PhD Candidate @Slotkin_Lab @WUSTLdbbs @DanforthCenter🌱 | @GenScientists | #Epigenetics #Plantbiology
Reposted by Pratheek Pandesha
Excited to release BoltzGen which brings SOTA folding performance to binder design! The best part of this project is collaborating with a broad network of leading wetlabs that test BoltzGen at an unprecedented scale, showing success on many novel targets and pushing the model to its limits!
October 26, 2025 at 10:40 PM
Reposted by Pratheek Pandesha
Our paper out today: 50,000 years of evolutionary history of India: Impact on health and disease variation: Cell www.cell.com/cell/fulltex...
50,000 years of evolutionary history of India: Impact on health and disease variation
A genomic study of 2,762 individuals from India offers important insights into the genomic diversity and evolutionary history of the subcontinent and highlights the extensive genetic variation, gene f...
www.cell.com
June 26, 2025 at 3:27 PM
Reposted by Pratheek Pandesha
It’s back! Our annual night of fun and fundraising, Party with the Plants, is September 26. 🌺 Theme is “Plants in Paradise.” 🍍 Discounted tickets on sale now: bit.ly/4kXoRSn
#STLEvents #PartyWithThePlants
July 17, 2025 at 6:02 PM
Reposted by Pratheek Pandesha
Spearhead Bio, a Danforth Technology Company startup, has received a grant from NSF that will allow them to fast-track their breakthrough genome engineering technology to develop corn varieties equipped for ag’s biggest challenges. Read more: https://loom.ly/zHfitlo
July 14, 2025 at 3:12 PM
Reposted by Pratheek Pandesha
Has anyone tried RUBY in a fungus?
July 11, 2025 at 10:39 PM
Reposted by Pratheek Pandesha
Nice preprint! Structure of AVRcap1b from Phytophthora reveals a novel fold, and structural effector family. AVRcap1b targets the helper NLR NbNRC2. #plantimmunity

www.biorxiv.org/content/10.1...
An effector from the potato late blight pathogen bridges ENTH-domain protein TOL9a to an activated helper NLR to suppress immunity
Pathogens counteract central nodes of NLR immune receptor networks to suppress immunity. However, the mechanisms by which pathogens hijack helper NLR pathways are poorly understood. Here, we show that an effector from the potato late blight pathogen Phytophthora infestans bridges the host protein NbTOL9a, a putative member of the host ESCRT pathway, to a helper NLR to suppress immunity. In this work, we solved the crystal structure of the RXLR-LWY effector AVRcap1b in complex with the ENTH domain of NbTOL9a. The structure revealed that unlike other RXLR-LWY effectors, AVRcap1b has a novel L-shaped fold and defines a new structural family of effectors in the Phytophthora genus. Moreover, we defined the AVRcap1b/NbTOL9a binding interface and designed effector mutants that don't bind NbTOL9a, impairing immune suppression. This indicates that ENTH binding is required for full virulence activity of this effector. Lastly, we show that AVRcap1b associates specifically with activated NbNRC2 independently of NbTOL9a binding. This suggests that the effector functions as a bridge that interconnects NbNRC2 with the NbTOL9a pathway. These results illustrate an unprecedented pathogen mechanism to hijack helper NLR pathways and suppress immunity. ### Competing Interest Statement T.O.B. and S.K. receive funding from industry on NLR biology and cofounded a start-up company (Resurrect Bio Ltd.) on resurrecting disease resistance. M.P.C., L.D., and S.K. have filed patents on NLR biology. M.P.C. and L.D. have received fees from Resurrect Bio Ltd. The other authors declare that they have no competing interests. European Research Council, https://ror.org/0472cxd90, 743165 British Society for Plant Pathology, https://ror.org/04zj17j36 Biotechnology and Biological Sciences Research Council, BB/P012574, BBS/E/J/000PR9795, BBS/E/J/000PR9796, BBS/E/J/000PR9797, BBS/E/J/000PR9798, BB/V002937/1
www.biorxiv.org
July 8, 2025 at 3:15 PM
Reposted by Pratheek Pandesha
As an undergraduate who loved physical chemistry and was just starting biology, I thought the Meselson-Stahl experiment was the coolest thing ever. It was so simple in its application of physical theory and experiment to prove a biological truth that it was perfect. www.nytimes.com/2025/07/07/s...
Franklin W. Stahl, 95, Dies; Helped Create a ‘Beautiful’ DNA Experiment
www.nytimes.com
July 8, 2025 at 2:13 AM
Reposted by Pratheek Pandesha
The histone acetyltransferase GCN5 regulates floral meristem activity and flower development in Arabidopsis (Amangul Hawar , Wei Chen , Tao Zhu , Xin Wang , Jiaxin Liu , Shiqi Xiong , Toshiro Ito , Dijun Chen , Bo Sun) doi.org/10.1093/plce... #PlantScience
July 7, 2025 at 7:35 PM
Reposted by Pratheek Pandesha
🧪🧵 Check out this preprint dealing with one of my favorite gene families:
✨✨the Reproductive Meristem (REM) transcription factor family!✨✨
REMs are B3 TFs just like ARFs or RAVs but they are much less studied than their other B3 “cousins”. 1/4
An ancient X chromosomal region harbours three genes potentially controlling sex determination in Cannabis sativa https://www.biorxiv.org/content/10.1101/2025.07.03.663031v1
July 4, 2025 at 6:55 AM
Reposted by Pratheek Pandesha
Amazing. First cell cycle, then DNA methylation (paper/preprints posted somewhat recently), now sex determination. A class of TF that definitely needs more love.
🧪🧵 Check out this preprint dealing with one of my favorite gene families:
✨✨the Reproductive Meristem (REM) transcription factor family!✨✨
REMs are B3 TFs just like ARFs or RAVs but they are much less studied than their other B3 “cousins”. 1/4
An ancient X chromosomal region harbours three genes potentially controlling sex determination in Cannabis sativa https://www.biorxiv.org/content/10.1101/2025.07.03.663031v1
July 4, 2025 at 11:15 AM
Reposted by Pratheek Pandesha
maize shoot apical meristems are the cutest! 😍
plasma membrane labeled with PIP2A-CFP
July 4, 2025 at 9:12 PM
Reposted by Pratheek Pandesha
🌾🧬 SPECIAL ISSUE RESEARCH 🌾🧬

📝 Varying gene dosage through mutating DNA methyltransferase 1-1 (MET1-1 ) in polyploid wheat generates quantitative changes to CG methylation without the lethal consequences observed in other crops - Burrows et al.

🔗 doi.org/10.1093/jxb/...
#PlantScience 🧪
July 4, 2025 at 1:24 PM
Reposted by Pratheek Pandesha
Transcription factors targeting RNA-directed DNA methylation machinery in Arabidopsis reproductive tissues.

From: www.nature.com/articles/s41...

I think I saw another preprint on this by another lab too.
REM transcription factors and GDE1 shape the DNA methylation landscape through the recruitment of RNA polymerase IV transcription complexes - Nature Cell Biology
Wu et al. demonstrate that REM transcription factors and GDE1 guide RNA polymerase IV to specific genomic loci, establishing a DNA sequence-dependent mechanism for siRNA biogenesis and DNA methylation...
www.nature.com
July 2, 2025 at 12:02 PM
Reposted by Pratheek Pandesha
Joanna Friesner- NAASC- honored for her support of the Arabidopsis community #ICAR2025
June 16, 2025 at 7:04 PM
Reposted by Pratheek Pandesha
Our department mcb.berkeley.edu is soliciting applications for an Assistant Professor position studying fundamental aspects of genetics, genomics, evolution, and/or developmental biology. Bring it on! aprecruit.berkeley.edu/JPF04110
Assistant Professor - Genetics, Genomics, Evolution and Development - Department of Molecular and Ce...
University of California, Berkeley is hiring. Apply now!
aprecruit.berkeley.edu
September 8, 2023 at 9:56 PM
Reposted by Pratheek Pandesha
I've 4 invite codes and would love to recruit some #plantscience folks. Pass it on!
August 31, 2023 at 8:23 PM
Reposted by Pratheek Pandesha
Upstream regulator of genomic imprinting in rice endosperm is a small RNA-associated chromatin remodeler https://www.biorxiv.org/content/10.1101/2023.08.31.555833v1
Upstream regulator of genomic imprinting in rice endosperm is a small RNA-associated chromatin remodeler https://www.biorxiv.org/content/10.1101/2023.08.31.555833v1
Genomic imprinting is observed in endosperm, a placenta-like seed tissue, where transposable element
www.biorxiv.org
September 1, 2023 at 4:04 PM
Reposted by Pratheek Pandesha
I'm writing up the @root-shoot.bsky.social Inclusive Conferences Working Group efforts to date & next steps.
Q for #PlantScience community.
What in your opinion / experiences are biggest barriers to inclusion + belonging at meetings, & how to remedy?
We've got funds to put towards this objective!
September 2, 2023 at 8:03 AM
Reposted by Pratheek Pandesha
In addition to the updated manuscript, we have expanded our online browser to enable the viewing of all transcripts detected in each of our single-nucleus RNA-seq datasets!

arabidopsisdevatlas.salk.edu
A Single-Nucleus Atlas of Seed-to-Seed Development in Arabidopsis @TraLee_Sci @nobolly @JoeEcker #plantscience www.biorxiv.org/content/10.1...
September 3, 2023 at 9:05 PM
Reposted by Pratheek Pandesha
Scientist?

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BlueSky for Scientists Authors: Steve Haroz and Mark Rubin URL: http://blueskyscience.steveharoz.com Features you may miss from Twitter or Mastodon As BlueSky is in beta, some features are not impleme...
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August 23, 2023 at 11:03 AM
Reposted by Pratheek Pandesha
Plant biologists! Please, please, please pass it on to undergrads! I'd love to have known undergrads can apply unlimited times.
forms.gle/WRPwv92TVQDX...
September 2, 2023 at 9:12 PM
Reposted by Pratheek Pandesha
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September 3, 2023 at 10:58 PM