Dicer-like 3a mediates intergenerational resistance against root-knot nematodes in rice via hormone responses

Developmentally regulated generation of a systemic signal for long-lasting defence priming in tomato

Tomato is a major global crop. However, its production is limited by Botrytis cinerea. Due to the toxicity of postharvest pesticide application, alternative control methods such as priming are being investigated. Plants were treated with β-aminobutyric acid (BABA) at two developmental stages and resistance against B. cinerea was tested in fruit tissue and in progenies. DNA methylation and RNA sequencing were conducted to characterise the (epi)genetic changes associated with long-lasting resistance. Grafting experiments were done to assess the systemic nature of this signal, which was further characterised by small RNA (sRNA) sequencing of scions. Only BABA-treated seedlings displayed induced resistance (IR). DNA methylation analysis revealed seedling-specific changes, which occurred in the context of lower basal methylation. BABA-IR was found to be transmissible from primed rootstock to grafted unprimed scions. In these scions, we identified a subset of mobile 24 nt sRNAs associated with genes showing primed expression during infection in fruit. Our results demonstrate the functional association of a systemic signal with long-lasting IR and priming. Through integrated omics approaches, we have identified markers of long-lasting priming in tomato fruit which could also serve as targets for durable resistance in other crops.

ARGONAUTE4 and the DNA demethylase REPRESSOR OF SILENCING 1C mediate dehydroascorbate-induced intergenerational nematode resistance in rice

Plants can transmit information to the next generation and modulate the phenotype of their offspring through epigenetic mechanisms. In this study, we demonstrate the activation of "intergenerational acquired resistance" (IAR) in the progeny of rice (Oryza sativa) plants exogenously treated with dehydroascorbate (DHA). The offspring of lifelong DHA-treated plants (DHA-IAR) were significantly less susceptible to the root-knot nematode Meloidogyne graminicola and partially inherited the DHA-induced transcriptional response found in the parental plants. Phytohormone analyses on the DHA-IAR plants unveiled higher basal abscisic acid levels and a primed induction of the jasmonic acid pathway. RNA-seq analysis on the embryonic tissues of immature seeds of DHA-treated plants revealed major shifts in the expression of genes associated with epigenetic pathways. We confirmed that DHA treatment leads to a significant but transient pattern of global DNA hypomethylation in the parental plants 12 to 24 h after treatment. The induction of resistance in the parental plants requires the DNA demethylase REPRESSOR OF SILENCING 1C (ROS1c) and ARGONAUTE 4, suggesting a role for DNA demethylation and subsequent remethylation in establishment of this phenotype. Confirming the transience of global hypomethylation upon DHA treatment, no significant change in global DNA methylation levels was observed in DHA-IAR versus naïve plants. Finally, DHA could not induce IAR in the ros1c mutant line and the ARGONAUTE 4 (ago4ab)-RNAi line. These data indicate that a controlled collaboration between transient DNA demethylation and remethylation underlies the induced resistance and IAR phenotypes upon DHA treatment.

Biochemical Defence of Plants against Parasitic Nematodes

Plant parasitic nematodes (PPNs), such as Meloidogyne spp., Heterodera spp. and Pratylenchus spp., are obligate parasites on a wide range of crops, causing significant agricultural production losses worldwide. These PPNs mainly feed on and within roots, impairing both the below-ground and the above-ground parts, resulting in reduced plant performance. Plants have developed a multi-component defence mechanism against diverse pathogens, including PPNs. Several natural molecules, ranging from cell wall components to secondary metabolites, have been found to protect plants from PPN attack by conferring nematode-specific resistance. Recent advances in omics analytical tools have encouraged researchers to shed light on nematode detection and the biochemical defence mechanisms of plants during nematode infection. Here, we discuss the recent progress on revealing the nematode-associated molecular patterns (NAMPs) and their receptors in plants. The biochemical defence responses of plants, comprising cell wall reinforcement; reactive oxygen species burst; receptor-like cytoplasmic kinases; mitogen-activated protein kinases; antioxidant activities; phytohormone biosynthesis and signalling; transcription factor activation; and the production of anti-PPN phytochemicals are also described. Finally, we also examine the role of epigenetics in regulating the transcriptional response to nematode attack. Understanding the plant defence mechanism against PPN attack is of paramount importance in developing new, effective and sustainable control strategies.

Funneliformis mosseae potentiates defense mechanisms of citrus rootstocks against citrus nematode, Tylenchulus semipenetrans

Using integrated pest management without relying on chemical pesticides is one of the most attractive approaches to controlling plant pathogens. Among them, using resistant cultivars or rootstocks against diseases in combination with beneficial microorganisms has attracted special attention. The citrus nematode is one of the major constraints of citrus cultivation worldwide. We showed that the mycorrhizal arbuscular fungus, Funneliformis mosseae, increased growth parameters including shoot and root length and biomass of two main rootstocks of citrus, sour orange and Volkamer lemon, in noninfected and infected plants with citrus nematode. It decreased the infection rate by citrus nematode in both rootstocks compared with nonmycorrhizal plants. The rate of decrease in nematode infection was highest when plants were pre-inoculated with F. mosseae and was lowest when nematode was inoculated before F. mosseae. However, when nematode was inoculated before the fungus, the fungus was still able to mitigate the negative effect of infection by nematode compared with plants inoculated with nematode only. This suggests that the timing of inoculation plays a crucial role in the effectiveness of F. mosseae in reducing nematode infection. Moreover, monitoring of the expression of two genes, phenylalanine ammonia-lyase and β-1,3-glucanase, which are involved in systemic-acquired resistance (SAR) showed that although they were significantly upregulated in mycorrhizal plants compared with nonmycorrhizal plants, they showed the highest expression when plants were pretreated with fungus before nematode inoculation, thus, indicating that plants were primed. In summary, F. mosseae primes the defense-related genes involved in SAR, increasing plant defensive capacity and boosting growth parameters in citrus rootstock. This has important implications for the agricultural industry.

Heritable induced resistance in Arabidopsis thaliana: Tips and tools to improve effect size and reproducibility

Over a decade ago, three independent studies reported that pathogen- and herbivore-exposed Arabidopsis thaliana produces primed progeny with increased resistance. Since then, heritable induced resistance (h-IR) has been reported across numerous plant-biotic interactions, revealing a regulatory function of DNA (de)methylation dynamics. However, the identity of the epi-alleles controlling h-IR and the mechanisms by which they prime defense genes remain unknown, while the evolutionary significance of the response requires confirmation. Progress has been hampered by the relatively high variability, low effect size, and sometimes poor reproducibility of h-IR, as is exemplified by a recent study that failed to reproduce h-IR in A. thaliana by Pseudomonas syringae pv. tomato (Pst). This study aimed to improve h-IR effect size and reproducibility in the A. thaliana-Pst interaction. We show that recurrent Pst inoculations of seedlings result in stronger h-IR than repeated inoculations of older plants and that disease-related growth repression in the parents is a reliable marker for h-IR effect size in F1 progeny. Furthermore, RT-qPCR-based expression profiling of genes controlling DNA methylation maintenance revealed that the elicitation of strong h-IR upon seedling inoculations is marked by reduced expression of the chromatin remodeler DECREASE IN DNA METHYLATION 1 (DDM1) gene, which is maintained in the apical meristem and transmitted to F1 progeny. Two additional genes, MET1 and CHROMOMETHYLASE3 (CMT3), displayed similar transcriptional repression in progeny from seedling-inoculated plants. Thus, reduced expression of DDM1, MET1, and CMT3 can serve as a marker of robust h-IR in F1 progeny. Our report offers valuable information and markers to improve the effect size and reproducibility of h-IR in the A. thaliana-Pst model interaction.