Plant Molecular Biology Research

This study uses live confocal imaging to analyze floral meristem dynamics in Aquilegia coerulea, revealing distinct patterns of organ initiation and termination processes.

The paper shows that KNOX/BELL transcription factors in Marchantia polymorpha initiate zygotic development similarly to Chlamydomonas reinhardtii, suggesting zygote activation is the ancestral role of these factors.

The paper identifies genes and miRNAs regulating primary thickening in bamboo shoots using transcriptome and small RNA sequencing, revealing miRNA-gene-phytohormone networks involved in phenotypic plasticity.

The paper shows that gamete-specific expression of TALE class HD genes in Marchantia polymorpha triggers the haploid-to-diploid transition and sporophyte development.

The paper discovers two flowering-related genes, UFC and FLX, in Gladiolus species, providing insights into flowering and vernalization mechanisms in ornamental geophytes.

This study identifies ABIG1 as a HD-ZIP Class II transcription factor that promotes leaf laminar growth and adaxial-abaxial polarity through regulation by REV and KAN.

The paper identifies BEH3 as a stabilizer in Arabidopsis secondary vascular development through coexpression network analysis and mathematical modeling.

This study shows that low light intensity in Arabidopsis thaliana delays vegetative phase change by increasing miR156/miR157 and reducing SPL expression, independent of photoreceptors involved in shade avoidance.

This study identifies ZmGI1 as a pleotropic gene in maize that regulates flowering time and confers salt stress tolerance through circadian rhythms and redox pathways.

The paper develops a gene expression predictor for Arabidopsis that uses TF activities to accurately predict transcriptomes and infer TF regulators for specific biological processes.

OsG1L1 and OsG1L2 control panicle architecture by delaying the transition from indeterminate branch- to determinate spikelet-meristem identity.

The paper uses single-cell RNA-seq to map the maize root transcriptome and identifies a mechanism regulating cortex layer number through the SHR signaling pathway.

This study identifies and characterizes two DL/CRC-like genes in orchids, showing their roles in gynostemium and ovule development through functional analysis and expression patterns.

AlnC is a database containing 10.8 million annotated lncRNA transcripts from 809 tissues of 682 flowering plants, providing tools for exploration and analysis.

This study identifies and characterizes conserved miRNAs in Corchorus capsularis and their targets involved in lignin biosynthesis and fibre formation.

The paper shows that structural variations in B3 DNA binding domains, specifically amino acid substitutions, affect DNA backbone interactions and adapt to architectural constraints while maintaining DNA sequence specificity.

The paper investigates how transcription factors regulate the complex expression pattern of the Arabidopsis gene CRABS CLAW, finding that multiple TFs act redundantly and cooperatively to control its expression across time and tissues.

The paper reconstructs an integrated miRNA network in Arabidopsis and identifies miRNA-containing feed-forward loops (FFLs) as key regulatory elements.

sRNAanno provides a comprehensive database of uniformly-annotated small RNAs in 138 plant species, including miRNAs, phasiRNAs, and hc-siRNAs, along with a visualization tool for NGS sRNA data.

The paper shows that ERECTA family signaling limits the width of the shoot apical meristem by suppressing CLV3 and WUS expression at its periphery.

This paper presents a qualitative model that explains the spatio-temporal dynamics of Arabidopsis flower meristem patterning, showing how pre-patterns and gene interactions generate positional information for floral organ development.

This study identifies AtACINUS as an O-GlcNAcylated and O-fucosylated protein that regulates transcription and alternative splicing of reproductive regulators in Arabidopsis.

The paper creates a 4-D atlas of early Arabidopsis flower development and uses computational models to identify gene regulatory hypotheses and growth mechanisms.

The paper integrates genomic, epigenomic, and transcriptomic data to model enhancer-driven gene regulatory networks in maize tissues, identifying tissue-specific transcription factor families and transposable element contributions.

This study identifies and characterizes tncRNAs in plants using sRNA-seq, revealing their roles in gene regulation, development, and stress responses.

The paper develops a hybrid model integrating ODEs and agent-based modeling to study the coordination of stem cell divisions and regulatory interactions in plant root stem cell niches.

The paper identifies and characterizes RNAi genes and their regulatory elements in sweet orange, finding 4 CsDCL, 8 CsAGO, and 4 CsRDR genes with functional annotations and expression patterns.

This study identifies TTL3 as a novel protein linking brassinosteroid signaling and cytoskeleton in lateral root development in Arabidopsis.

This study investigates miRNA expression and zeatin dynamics during in vivo tomato regeneration, identifying key miRNAs involved in callus formation and hormone regulation.