Mutation mapping of a variegated EMS tomato reveals an FtsH-like protein precursor potentially causing patches of four phenotype classes in the leaves with distinctive internal morphology.

BACKGROUND: Leaf variegation is an intriguing phenomenon observed in many plant species. However, questions remain on its mechanisms causing patterns of different colours. In this study, we describe a tomato plant detected in an M2 population of EMS mutagenised seeds, showing variegated leaves with sectors of dark green (DG), medium green (MG), light green (LG) hues, and white (WH). Cells and tissues of these classes, along with wild-type tomato plants, were studied by light, fluorescence, and transmission electron microscopy. We also measured chlorophyll a/b and carotene and quantified the variegation patterns with a machine-learning image analysis tool. We compared the genomes of pooled plants with wild-type-like and mutant phenotypes in a segregating F2 population to reveal candidate genes responsible for the variegation. RESULTS: A genetic test demonstrated a recessive nuclear mutation caused the variegated phenotype. Cross-sections displayed distinct anatomy of four-leaf phenotypes, suggesting a stepwise mesophyll degradation. DG sectors showed large spongy layers, MG presented intercellular spaces in palisade layers, and LG displayed deformed palisade cells. Electron photomicrographs of those mesophyll cells demonstrated a gradual breakdown of the chloroplasts. Chlorophyll a/b and carotene were proportionally reduced in the sectors with reduced green pigments, whereas white sectors have hardly any of these pigments. The colour segmentation system based on machine-learning image analysis was able to convert leaf variegation patterns into binary images for quantitative measurements. The bulk segregant analysis of pooled wild-type-like and variegated progeny enabled the identification of SNP and InDels via bioinformatic analysis. The mutation mapping bioinformatic pipeline revealed a region with three candidate genes in chromosome 4, of which the FtsH-like protein precursor (LOC100037730) carries an SNP that we consider the causal variegated phenotype mutation. Phylogenetic analysis shows the candidate is evolutionary closest to the Arabidopsis VAR1. The synonymous mutation created by the SNP generated a miRNA binding site, potentially disrupting the photoprotection mechanism and thylakoid development, resulting in leaf variegation. CONCLUSION: We described the histology, anatomy, physiology, and image analysis of four classes of cell layers and chloroplast degradation in a tomato plant with a variegated phenotype. The genomics and bioinformatics pipeline revealed a VAR1-related FtsH mutant, the first of its kind in tomato variegation phenotypes. The miRNA binding site of the mutated SNP opens the way to future studies on its epigenetic mechanism underlying the variegation.

Nostoc sp. extract induces oxidative stress-mediated root cell destruction in Mimosa pigra L.

BACKGROUND: Mimosa pigra is an invasive weed in some regions of South East Asia and Australia. Our previous study has revealed that a cyanobacterium, Nostoc sp., extract can inhibit root growth in M. pigra seedlings. In this study, some physiological processes involve oxidative stress-mediated cell death and root ultrastructure were investigated to clarify the mechanisms of root growth suppression and bioherbicidal potential of the extract. RESULTS: Nostoc sp. extract enhanced overproduction of reactive oxygen species (ROS) at 24 h, the intensity of red fluorescence increased at 72 h, and caused a slightly increased H2O2 consistent with the activation of scavenging enzymes (catalase, ascorbic acid peroxidase, glutathione reductase, and peroxidases). This suggests that oxidative stress occurred in the presence of the extract which was supported by increased cell death and lipid peroxidation at 24 h. Reduction of malondialdehyde content and an increase in cell death at 72 h indicated oxidative damage and cellular leakage. Ultrastructural changes were determined at 72 h by scanning electron micrographs which confirmed the damage of epidermal and root cap cells and the disaggregation and destruction of root tip cells. Transmission electron micrographs showed the dissolution of the middle lamella, deposition of some substances in vacuoles, and abnormal mitochondria (swollen mitochondria and indistinct cristae). CONCLUSIONS: Nostoc sp. extract enhance oxidative stress by ROS production resulting in lipid peroxidation and massive cell death despite the activation of antioxidative enzymes. Understanding mechanism of action of Nostoc sp. extract will provide information for application of the extract to use as natural herbicide for control of M. pigra.