The genome and lifestage-specific transcriptomes of a plant-parasitic nematode and its host reveal susceptibility genes involved in trans-kingdom synthesis of vitamin B5.

Plant-parasitic nematodes are a major threat to crop production in all agricultural systems. The scarcity of classical resistance genes highlights a pressing need to find new ways to develop nematode-resistant germplasm. Here, we sequence and assemble a high-quality phased genome of the model cyst nematode Heterodera schachtii to provide a platform for the first system-wide dual analysis of host and parasite gene expression over time, covering all major parasitism stages. Analysis of the hologenome of the plant-nematode infection site identified metabolic pathways that were incomplete in the parasite but complemented by the host. Using a combination of bioinformatic, genetic, and biochemical approaches, we show that a highly atypical completion of vitamin B5 biosynthesis by the parasitic animal, putatively enabled by a horizontal gene transfer from a bacterium, is required for full pathogenicity. Knockout of either plant-encoded or now nematode-encoded steps in the pathway significantly reduces parasitic success. Our experiments establish a reference for cyst nematodes, further our understanding of the evolution of plant-parasitism by nematodes, and show that congruent differential expression of metabolic pathways in the infection hologenome represents a new way to find nematode susceptibility genes. The approach identifies genome-editing-amenable targets for future development of nematode-resistant crops.

Plant parasitic cyst nematodes redirect host indole metabolism via NADPH oxidase-mediated ROS to promote infection.

Reactive oxygen species (ROS) generated in response to infections often activate immune responses in eukaryotes including plants. In plants, ROS are primarily produced by plasma membrane-bound NADPH oxidases called respiratory burst oxidase homologue (Rboh). Surprisingly, Rbohs can also promote the infection of plants by certain pathogens, including plant parasitic cyst nematodes. The Arabidopsis genome contains 10 Rboh genes (RbohA-RbohJ). Previously, we showed that cyst nematode infection causes a localised ROS burst in roots, mediated primarily by RbohD and RbohF. We also found that plants deficient in RbohD and RbohF (rbohD/F) exhibit strongly decreased susceptibility to cyst nematodes, suggesting that Rboh-mediated ROS plays a role in promoting infection. However, little information is known of the mechanism by which Rbohs promote cyst nematode infection. Here, using detailed genetic and biochemical analyses, we identified WALLS ARE THIN1 (WAT1), an auxin transporter, as a downstream target of Rboh-mediated ROS during parasitic infections. We found that WAT1 is required to modulate the host's indole metabolism, including indole-3-acetic acid levels, in infected cells and that this reprogramming is necessary for successful establishment of the parasite. In conclusion, this work clarifies a unique mechanism that enables cyst nematodes to use the host's ROS for their own benefit.

African Nightshade and African Spinach Decrease Root-Knot Nematode and Potato Cyst Nematode Soil Infestation in Kenya.

Plant-parasitic nematodes, particularly root-knot nematodes (RKN: Meloidogyne spp.) and cyst nematodes (CN: Globodera and Heterodera spp.) cause severe yield reduction in most cultivated crops and are of high economic importance. African nightshade (Solanum spp.) and African spinach (Amaranthus spp.) are important African indigenous vegetables (AIV) and are rich sources of nutrition and income. However, their host status to plant-parasitic nematodes remains largely speculative. Therefore, a survey was conducted which revealed that S. villosum exhibited high root galling, whereas on S. scabrum, A. cruentus, and A. dubius root galling was rare or very low. Additionally, soil collected from the rhizosphere of S. villosum and S. scabrum contained few cysts of potato cyst nematodes (PCN), and no developing PCN females were observed on the roots of growing plants. Therefore, we studied the dynamics of RKN and PCN on A. dubius, A. cruentus, S. scabrum, and S. villosum over 2 years in a field experiment. The effects of AIV crop species on RKN and PCN soil infestation were evaluated using susceptible S. lycopersicum or S. tuberosum. After first, second, and third cultivation of A. dubius, A. cruentus, and S. scabrum, RKN infestation of the soil decreased by more than 85%, whereas S. scabrum and S. villosum decreased PCN densities by more than 80%. When cropping susceptible crops, after three seasons of successive cultivation of these AIV, galling index and number of developing PCN females measured on susceptible crops decreased by more than 75%. Wilting and RKN-PCN coinfection incidences also decreased significantly. Here, we present data that support the development of a novel cropping system including African spinach and African nightshade, which reveals a high potential to manage RKN and PCN in an environmentally friendly, effective, and productive way.