Long non-coding RNA (lncRNA) is a crucial regulatory mechanism in the plant response to biotic and abiotic stress. However, their roles in potato (Solanum tuberosum L.) resistance to Phytophthora infestans (P. infestans) largely remain unknown. In this study, we identify 2857 lncRNAs and 33,150 mRNAs of the potato from large-scale published RNA sequencing data. Characteristic analysis indicates a similar distribution pattern of lncRNAs and mRNAs on the potato chromosomes, and the mRNAs were longer and had more exons than lncRNAs. Identification of alternative splicing (AS) shows that there were a total of 2491 lncRNAs generated from AS and the highest frequency (46.49%) of alternative acceptors (AA). We performed R package TCseq to cluster 133 specific differentially expressed lncRNAs from resistance lines and found that the lncRNAs of cluster 2 were upregulated. The lncRNA targets were subject to KEGG pathway enrichment analysis, and the interactive network between lncRNAs and mRNAs was constructed by using GENIE3, a random forest machine learning algorithm. Transient overexpression of StLNC0004 in Nicotiana benthamiana significantly suppresses P. infestans growth compared with a control, and the expression of extensin (NbEXT), the ortholog of the StLNC0004 target gene, was significantly upregulated in the overexpression line. Together, these results suggest that lncRNAs play potential functional roles in the potato response to P. infestans infection.

Late blight (LB), caused by the oomycete pathogen Phytophthora infestans, is a devastating disease of potato that is necessary to control by regularly treatment with fungicides. Silicon (Si) has been used to enhance plant resistance against a broad range of bacterial and fungal pathogens; however, the enhanced LB resistance and the molecular mechanisms involving the plant hormone pathways remain unclear. In this study, Si treatment of potato plants was found to enhance LB resistance in both detached leaves and living plants accompanied by induction of reactive oxygen species (ROS) production and pathogenesis-related genes expression. Regarding the hormone pathways involved in Si-mediated LB resistance, we found a rapidly increased content of ethylene (ET) 15 min after spraying with Si. Increased jasmonic acid (JA) and JA-Ile and decreased salicylic acid (SA) were identified in plants at 1 day after spraying with Si and an additional 1 day after P. infestans EC1 infection. Furthermore, pretreatment with Me-JA enhanced resistance to EC1, while pretreatment with DIECA, an inhibitor of JA synthesis, enhanced the susceptibility and attenuated the Si-mediated resistance to LB. Consistent with these hormonal alterations, Si-mediated LB resistance was significantly attenuated in StETR1-, StEIN2-, StAOS-, StOPR3-, StNPR1-, and StHSP90-repressed plants but not in StCOI1- and StSID2-repressed plants using virus-induced gene silencing (VIGS). The Si-mediated accumulation of JA/JA-Ile was significantly attenuated in StETR1-, StEIN2-, StOPR3- and StHSP90-VIGS plants but not in StCOI1-, StSID2- and StNPR1-VIGS plants. Overall, we reveal that Si can be used as a putative alternative to fungicides to control LB, and conclude that Si-mediated LB resistance is dependent on the ET/JA-signaling pathways in a StHSP90- and StNPR1-dependent manner.

Endophytic fungi play an important role in plant survival and reproduction, but the role of their metabolites in plant growth and immunity, as well as in crop quality formation, is poorly understood. Zhinengcong (ZNC) is a crude ethanol extract from the endophytic fungus Paecilomyces variotii, and previous studies have shown that it can improve the growth and immunity in Arabidopsis thaliana. The aim of the study was to reveal the trade-off balance between plant growth and immunity by evaluating the mechanisms of ZNC on potato growth, yield, and priming immunity against the oomycete Phytophthora infestans indoors and in the field. ZNC maintained a good balance between plant growth and resistance against P. infestans with high activity. It induced the reactive oxygen species (ROS) production, promoted plant growth, yield and quality parameters, enhanced the expression of indoleacetic acid (IAA) related genes, and increased the absorption of nitrogen from the soil. Moreover, the plant endophytic fungus extract ZNC stimulated the pathogen-associated molecular pattern (PAMP) triggered immunity (PTI) pathway and contributed to the ZNC-mediated defense response. Two years of field trials have shown that irrigation with ZNC at one of two optimal concentrations of 1 or 10ng/ml could significantly increase the output by 18.83% or more. The quality of potato tubers was also greatly improved, in which the contents of vitamin C, protein, and starch were significantly increased, especially the sugar content was increased by 125%. Spray application of ZNC onto potato plants significantly reduced the occurrence of potato blight disease with 66.49% of control efficacy at 200ng/ml and increased the potato yield by 66.68% or more in the field. In summary, plant endophytic fungus extract ZNC promoted potato immunity, yield, and quality and presented excellent potential in agricultural applications.