J. Whelan

Phosphate starvation regulates cellulose synthesis to modify root growth

This study shows that phosphate starvation increases cellulose synthesis in Arabidopsis roots, altering cell wall structure and reducing primary root growth through changes in cellulose synthase phosphorylation.

FTSH3 facilitates complex I degradation through a direct interaction with the complex I subunit PSST

This study identifies FTSH3's role in complex I degradation by directly interacting with PSST, requiring its ATPase activity for proteolysis and turnover.

Spatially Resolved Transcriptomic Analysis of the Germinating Barley Grain

This study develops a spatial transcriptomics workflow to analyze gene expression during barley grain germination, revealing spatially specific gene expression patterns and their functional roles.

Establishment of cell transcriptional identity during seed germination

This study maps the temporal changes in cell-type specific gene expression during Arabidopsis seed germination, revealing a shared initial transcriptional state followed by distinct regulatory programs.

An environmentally responsive transcriptional state modulates cell identities during root development

This study identifies an environmentally responsive transcriptional state that influences cell identities during root development in Arabidopsis, revealing a new layer of patterning independent of ontogenetic trajectories.

ColorBayes: Improved color correction of high-throughput plant phenotyping images to account for local illumination differences

ColorBayes improves color correction in plant phenotyping images by accounting for local illumination differences using Bayesian inference.

Single Cell App: An App for Single Cell RNA-sequencing Data Visualization, Comparison and Discovery

The Single Cell App enables visualization and comparison of scRNA-seq data, revealing study-specific gene expression patterns and cell-type specific responses.

GmSALT3 expression improves reactive oxygen species detoxification in salt-stressed soybean roots

The paper uses RNA-seq to show that GmSALT3 improves ROS detoxification in salt-stressed soybean roots by enhancing antioxidant activity and related pathways.

RNA labelling in live plants reveals single cell transcriptional dynamics: application to phosphate signaling

The paper uses RNA imaging in live Arabidopsis plants to study single-cell transcriptional dynamics, finding rapid transcriptional repression in response to phosphate and high intrinsic noise.

RNA-seq analysis of laser micro-dissected Arabidopsis thaliana leaf epidermis, mesophyll and vasculature defines tissue-specific transcriptional responses to multiple stress treatments

The paper analyzes RNA-seq data from three leaf tissues of Arabidopsis under various stress treatments to identify tissue-specific transcriptional responses and regulatory networks.

Identification of a unique ZIP transporter involved in zinc uptake via the arbuscular mycorrhizal fungal pathway

This study identifies MtZIP14 as a key zinc transporter facilitating zinc uptake from arbuscular mycorrhizal fungi to plants, improving plant growth and zinc nutrition under low zinc conditions.

SARS-CoV-2 induces double-stranded RNA-mediated innate immune responses in respiratory epithelial derived cells and cardiomyocytes

This study investigates how SARS-CoV-2 interacts with host antiviral pathways in respiratory and cardiac cells, finding it activates OAS-RNase L and PKR but not IFN, contrasting with MERS-CoV.

The genetic origin of evolidine, the first cyclopeptide discovered in plants, and related orbitides

The paper rediscovered evolidine, a plant cyclic peptide, and identified its biosynthetic origin through de novo transcriptomics, revealing a diverse family of related peptides in Rutaceae.

Developmental Normalization of Phenomics Data Generated by High Throughput Plant Phenotyping Systems

The paper introduces DAPD, a normalization method for plant phenomics data, which reduces variance and improves measurement uniformity compared to sowing-time normalization.

Novel cyclic peptides in seed of Annona muricata are ribosomally synthesised

The paper identifies ten novel cyclic peptides in Annona muricata seeds and reveals their ribosomal biosynthesis mechanism through transcriptomic and mass spectrometry analysis.