Transcriptome analysis of potato leaves in response to infection with the necrotrophic pathogenAlternaria solani

Abstract

The potato early blight was caused by Alternaria solani (Aso). At present, potato early blight resistant varieties are lacking. The experiment of Aso inoculation on a.k.a. Favorita showed that the content of chlorophyll decreased continuously within 2 days after inoculation. In addition, the contents of JA-Ile, SA, ABA and IAA were determined by LC-MS.The results of two defense-related hormones showed that jasmonic acid content decreased significantly, while jasmonic acid content did not change significantly. In order to understand the difference in gene expression of potatoes infected by Aso, the 24 hpi, 36 hpi and 48 hpi transcriptome were determined. The results showed that the gene annotation and cluster analysis of DEGs revealed a variety of defense responses to Aso infection, especially the plant hormone signal transduction pathway. The differential expression of 10 DEGs was confirmed by qPCR analysis. Finally, through weighted gene co-expression network analysis (WGCNA), "samonl" was determined as a key hormone-related network in the process of Aso infection in potatoes. This study provides an important clue for understanding the interaction between potato and Aso and for disease resistance breeding.

Comparative transcriptome profiling of potato cultivars infected by late blight pathogen Phytophthora infestans: Diversity of quantitative and qualitative responses

“…Raw data (raw reads) of FASTQ format was filtered with fastp software [ 24 ]. The potato genome sequence (SolTub_3.0, GCA_000226075.1) was acquired from the NCBI Genomes database, and the corresponding genome annotation ( https://www.ncbi.nlm.nih.gov/genome/?term=Solanum+tuberosum ) [ 125 ] . The trimmed pair-end reads of each sample were aligned to the reference genome using HISAT2 v2.1.0 [ 69 ].…”

“…The recent development of high-throughput whole transcriptome shotgun sequencing, known as RNA-seq, has made it possible to study genotypic response to biotic and abiotic stresses in plants, and comprehensively dissect the molecular mechanism involved [ 38 , 40 , 54 ]. With the release of plant genome sequences including the potato (Potato Genome Sequencing Consortium, 2011), RNA-seq has become a powerful tool for studying transcriptomic differences in potato cultivars in response to early and late blight infection [ 38 , 52 , 54 , 125 , 143 ], and provides a novel approach to study the resistance at the molecular scale, by monitoring thousands of genes simultaneously. The use of RNA-seq technique to look at differentially expressed genes (DEGs) in P. infestans infected resistant and susceptible potato genotypes allowed identification of 40 effector targets [ 3 ].…”