Natural variation in Brachypodium distachyon reveals that maintaining or reinforcing lignin-containing secondary cell walls is a major, but not universal, leaf resistance strategy against Rhizoctonia....

Website of the Internatrional Brachypodium Research Conference 2027

Cytosolic bifunctional 4-coumarate 3-hydroxylase/ascorbate peroxidase activity links oxidative stress to lignin biosynthesis and is essential for normal pl

A single-cell transcriptomic atlas resolved the developmental transitions from shoot apex to mature leaf tissues in the model grass Brachypodium distachyon

Read the full paper: Degradation of Organic Matter by Ecologically Distinct Microbiomes Uniformly Promotes Growth of Brachypodium distachyon

A single-cell transcriptomic atlas resolved the developmental transitions from shoot apex to mature leaf tissues in the model grass Brachypodium distachyon

Rhizoctonia solani is a soil-borne phytopathogen with a broad host range, classified into multiple anastomosis groups (AGs). While the rice sheath blight pat...

In February 2025, the coding sequences of the entire genomes of Triticum aestivum (Wheat), Oryza sativa (Rice), Hordeum vulgare (Barley), and Brachypodium distachyon (BD) were obtained in FASTA format from the EnsemblPlants database. The raw sequence data supporting the findings of this study are publicly available from the Ensembl Plants database (http://plants.ensembl.org/). The fully processed dataset (codon frequency features and labels) and all codes required to reproduce it including data retrieval, filtering, and feature extraction are publicly available on GitHub at https://github.com/anjumstat/AE_PRBFN_Deep_Learning_Classification.git. Classification performance evaluation metrics The standard classification metrics such as accuracy, precision, recall, F1-score and Matthews Correlation Coefficient (MCC)23,24,25,26,27,28-29 were used to measure model performance. Accuracy is the rate of the properly determined instances\(\:(TP+TN/TP+TN+FP+FN)\), here TP stands for true positive TN for true negatives, FP for false positives and FN for false negatives. Although simple, accuracy is misguided in unbalanced genomic data but our four-species codon frequency task is balanced and accuracy is informative23,24. Precision \(\:(TP/TP+FP)\) measures the accuracy of positive predictions and this is important in that the genes that are described as belonging to a particular species are biological25,26. Recall (\(\:TP/TP+FN)\) is the overlap of all the appropriate instances that the model will observe, such as...

Read the full paper: Conserved C3H/APX bifunctionality coordinates lignin deposition and plant growth in Brachypodium and Populus