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Huang Tan

@huangtan.bsky.social

Postdoc in Rosa Lozano-Duran research group (@geminiteamlab.bsky.social) ZMBP, Tübingen // plant-virus interaction, plant immunity, single cell, 🧬🔬🍅

9 Posts166 Follower268 Folgt
Rafael Pinilla-Redondo (Rafa)@rafomics.bsky.social · 4w ago

++ For a deeper dive into the mechanism, @arturocdr.bsky.social has a fantastic thread, including a beautiful animation of the Retron IX ring! 👇💍🔥 bsky.app/profile/artu...

Arturo Carabias@arturocdr.bsky.social · 4w ago

🧬 Thrilled to share our latest @biorxiv-microbiol.bsky.social preprint! Here we find that Retron-IX build crazy supramolecular rings scaffolded by DNA molecules that sense phage infection! www.biorxiv.org/content/10.6... Read more below🧵! (1/X)

Julia Frunzke@frunzkelab.bsky.social · last mo.

What is the impact of phage biocontrol on plant immune responses and bacterial virulence? Very happy that this is out @cp-cellreports.bsky.social! @mibinet.bsky.social, @dfg.de, @fz-juelich.de, @hhu.de, @spp2330.bsky.social

Borjana Arsova@borjana-a.bsky.social · last mo.

‪ #Bacteriophages help sustainable plant protection ✅#Phages restore 🌱 growth during 🦠 infection. ✅🧬 shows ⬇️🌱immunity & ⬇️bacterial virulence. #Biocontroll #PlantSci 🧪 #PMI @frunzkelab.bsky.social @guidogrossmann.bsky.social @mibinet.bsky.social @fz-juelich.de www.cell.com/cell-reports...

Chenxin Li, PhD@chenxinli2.bsky.social · 2mo ago

Trans-kingdom delivery of aphid-derived small RNAs into Arabidopsis thaliana modulates plant immunity From: www.biorxiv.org/content/10.6... #PlantScience

Trans-kingdom delivery of aphid-derived small RNAs into Arabidopsis thaliana modulates plant immunity

Herbivore insects are on an evolutionary tug-of-war with plants. An important part of the plant-herbivore insect interaction is the exchange of molecules, in particular proteins (in the form of effect...

biorxiv.org

Nature@nature.com · 3mo ago

Nature research paper: A pathogen lncRNA secreted into rice sequesters a host miRNA for virulence go.nature.com/3RCU6IB

A pathogen lncRNA secreted into rice sequesters a host miRNA for virulence - Nature

A fungal long non-coding RNA from Magnaporthe oryzae translocates into rice cells to sequester a host microRNA that normally represses PKR1, a negative immunity regulator, thereby facilitating infection and revealing a widespread RNA-based pathogen–host interaction mechanism.

go.nature.com

Bert De Rybel@bertderybel.bsky.social · 3mo ago

Not sure which scRNA-seq platform to use for 🪴 plant samples? How well do doublet detection algorithms really work in 🌱? How can I optimise sample prep ? Find out in our benchmark study! Led by @carogro.bsky.social and @thomaseekhout.bsky.social. Open access at EMBO Journal: doi.org/10.1038/s443...

Benchmarking plant single cell RNA-sequencing sample processing strategies - The EMBO Journal

The isolation of single plant cells from complex tissues is prone to selective enrichment and sampling biases, which complicates accurate profiling of the large diversity in cell types. Optimizing methodologies for cell enrichment and single-cell transcriptomics is therefore critical for single-cell studies addressing plant cell heterogeneity. Here, we systematically compared protoplast enrichment technologies (including conventional and image-based flow cytometry, as well as magnetic cell sorting) and single-cell RNA sequencing (scRNA-seq) platforms (10X Genomics Chromium, BD Rhapsody) using Arabidopsis roots. Image-based flow cytometry offered increased precision due to customizable gating strategies, while magnetic sorting provided faster processing and enhanced representation of cell size heterogeneity. Both scRNA-seq platforms captured root cell heterogeneity and yielded reproducible gene expression profiles, but showed platform-associated differences in cell type composition. Notably, single-nucleotide polymorphism analysis of a mixed ecotype sample revealed that, among cells identified as doublets by computational algorithms, two-thirds were likely to have been misclassified. These insights identify key biases in plant cell purification and scRNA-seq workflows and provide practical guidance for improving data quality across plant species.

doi.org

Science Magazine@science.org · 3mo ago

Breaking news: Indiana University plant microbiologist Roger Innes has been locked out of his laboratory by the school in response to a request by one of his federal funders. The move comes after Innes complained about the government’s prosecution of Chinese postdocs. https://scim.ag/4tsDqRr

After USDA request, Indiana plant biologist locked out of lab by school

Move comes after Roger Innes complained about the government’s prosecution of Chinese postdocs

scim.ag

Peter DeWeirdt@pdeweirdt.bsky.social · 4mo ago

Excited to see our work out in Science today! Using machine learning to identify prokaryotic immune systems www.science.org/doi/10.1126/...

DefensePredictor: A machine learning model to discover prokaryotic immune systems

Antiphage defense systems protect bacteria from viral infection and have inspired important biotechnologies such as CRISPR-Cas9 while also revealing the evolutionary roots of eukaryotic innate immunit...

science.org

Peter DeWeirdt@pdeweirdt.bsky.social · 2y ago

Excited to share our work using machine learning to predict anti-phage defense systems! 1/n

Monir Moniruzzaman@giantvirus.bsky.social · 5mo ago

Excited to share our lab's new paper in Current Biology featuring MS student Sydney Schultz's work. We show that a polar alga carries large amount of giant viral DNA in its genome, and many of the viral genes respond to stress - with implications for host adaptation. www.cell.com/current-biol...

Extensive array of endogenous giant viral elements in a polar alga shows dynamic transcriptional response to abiotic stress

Schultz et al. show that polar algae harbor extensive endogenous giant virus elements that are transcriptionally active, stress responsive, and integrated into host regulatory networks, highlighting v...

cell.com

Cell Reports@cp-cellreports.bsky.social · 5mo ago

Targeting redundant gene families: A multiplexed, tissue-specific CRISPR toolbox for Arabidopsis genetic screens

Targeting redundant gene families: A multiplexed, tissue-specific CRISPR toolbox for Arabidopsis genetic screens

Anfang et al. present a tissue-specific, multiplexed CRISPR toolbox for plants that uses paired sgRNAs and barcoded libraries to target redundant gene families. Applied to Arabidopsis nutrient transporters, it boosts editing efficiency and gene coverage, enabling spatially precise screens that uncover phenotypes hidden by functional redundancy.

dlvr.it

Delphine Pott@delphinem-p.bsky.social · 5mo ago

In our recent review, we explore how the spliceosome is targeted by effectors from diverse plant-interacting organisms—and how these effectors can serve as powerful molecular probes to uncover the mechanisms of splicing regulation in plants. @geminiteamlab.bsky.social #PlantScience #RNA #Splicing

New insights into microbial manipulation of the plant spliceosome

Abstract. Alternative splicing (AS) has emerged as a regulatory layer in plant adaptation to the environment. In particular, biotic stresses trigger a dras

academic.oup.com