Dual RNA Sequencing Reveals the Genome-Wide Expression Profiles During the Compatible and Incompatible Interactions Between Solanum tuberosum and Phytophthora infestans.

Honghao Li,Yusong Jiang,Zhonghan Fan,Weizao Huang,Xiang Tao,Rongping Hu,Qinghua Chen

doi:10.3389/fpls.2022.817199

Abstract

Late blight, caused by Phytophthora infestans (P. infestans), is a devastating plant disease. P. infestans genome encodes hundreds of effectors, complicating the interaction between the pathogen and its host and making it difficult to understand the interaction mechanisms. In this study, the late blight-resistant potato cultivar Ziyun No.1 and the susceptible potato cultivar Favorita were infected with P. infestans isolate SCPZ16-3-1 to investigate the global expression profiles during the compatible and incompatible interactions using dual RNA sequencing (RNA-seq). Most of the expressed Arg-X-Leu-Arg (RXLR) effector genes were suppressed during the first 24 h of infection, but upregulated after 24 h. Moreover, P. infestans induced more specifically expressed genes (SEGs), including RXLR effectors and cell wall-degrading enzymes (CWDEs)-encoding genes, in the compatible interaction. The resistant potato activated a set of biotic stimulus responses and phenylpropanoid biosynthesis SEGs, including kirola-like protein, nucleotide-binding site-leucine-rich repeat (NBS-LRR), disease resistance, and kinase genes. Conversely, the susceptible potato cultivar upregulated more kinase, pathogenesis-related genes than the resistant cultivar. This study is the first study to characterize the compatible and incompatible interactions between P. infestans and different potato cultivars and provides the genome-wide expression profiles for RXLR effector, CWDEs, NBS-LRR protein, and kinase-encoding genes.

Highlights

Late blight, caused by the oomycete Phytophthora infestans (P. infestans), is a devastating disease in most potato-growing areas worldwide and was responsible for the Irish famine in the mid-19th century
At 72 hpi, the resistant variety, Ziyun No.1, developed a hypersensitive response (HR) at the site of infection, while Favorita leaf surface was covered with P. infestans mycelium (Figure 1A)
Dual RNA Sequencing of the Potato and Phytophthora infestans

Summary

Introduction

Late blight, caused by the oomycete Phytophthora infestans (P. infestans), is a devastating disease in most potato-growing areas worldwide and was responsible for the Irish famine in the mid-19th century. Zoospores are the main dispersal forms of Potato Late Blight Dual RNA-Seq. P. infestans and once they have reached the host surface, the sporangia germinate to produce germ tubes (Boevink et al, 2020). The technique involves transforming and transiently expressing RXLRs recombinant plasmids into plant leaves to determine the existence of potential resistance genes in host materials based on the triggered HR reaction (Vleeshouwers et al, 2008; Oh et al, 2009; He et al, 2019; Ren et al, 2019). While this strategy is reliable, it is greatly but inefficient. Dual RNA sequencing (RNA-seq) is a newly developed method for a comprehensive understanding of the host–pathogen interactions, involving simultaneous analysis of the gene expression changes in both the pathogen and host genomes (Westermann et al, 2012, 2017; Du et al, 2021)

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Discussion

Conclusion