Research Article

Comparative Analysis of Alternative Splicing Events in Foliar Transcriptomes of Potato Plants Inoculated with Phytophthora Infestans  

Jessica A. Lee , Xiangjia Min
Department of Chemical and Biological Sciences, Youngstown State University, OH 44555, USA
Author    Correspondence author
Computational Molecular Biology, 2023, Vol. 13, No. 1   doi: 10.5376/cmb.2023.13.0001
Received: 08 Oct., 2022    Accepted: 21 Dec., 2022    Published: 29 Jan., 2023
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This is an open access article published under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.
Preferred citation for this article:

Lee J.A., and Min X., 2023, Comparative analysis of alternative splicing events in foliar transcriptomes of potato plants inoculated with Phytophthora Infestans, Computational Molecular Biology, 13(1): 1-8 (doi: 10.5376/cmb.2023.13.0001)

Alternative splicing (AS) is a common process during gene expression of plants in coping various biotic or abiotic stresses. The work reports identification and analysis of AS events in foliar samples of two potato lines, including a wild type line and a pathogen resistant transgenic line (+RB), inoculated with Phytophthora infestans. After combining all RNA-seq data collected from 36 samples, a total of 10,246 AS events were identified, including 1,563 exon skipping, 1,368 alternative donor sites, 3,091 alternative acceptor sites, 884 intron retention, and 3,340 complex events, which consisted of more than one basic event. These AS events were generated from 45,874 isoform transcripts expressed from 13,704 genes. It was estimated 30.2% of genes undergoing AS in this analysis. Furthermore, we identified 406 specific AS events, which were generated from 281 genes, and 766 differentially expressed transcripts (DETs) in the sample collected 24 hours after inoculation of P. infestans in +RB lines. These DETs were expressed from 763 genes, and among them, 338 genes were alternatively spliced. These results indicate that both AS and differential gene expression may contribute to the resistance against P. infestans in +RB line of potato plants.
Alternative splicing; RNA sequencing; Transcriptome; Phytophthora infestans; Blight pathogen
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