Transcriptional profiling during infection of potato NLRs and Phytophthora infestans effectors using cDNA enrichment sequencing  

作　　者：Amanpreet Kaur Vikrant Singh Stephen Byrne Miles Armstrong Thomas M.Adams Brian Harrower Eleanor Gilroy Ewen Mullins Ingo Hein 

机构地区：[1]The James Hutton Institute,Invergowrie,Dundee DD25DA,Scotland,UK [2]University of Dundee,Dundee DD14HN,Scotland,UK [3]Crop Research Centre,Teagasc,Oak Park,Carlow R93 XE12,Ireland

出　　处：《The Crop Journal》2025年第1期31-40,共10页作物学报(英文版)

基　　金：supported by the Rural & Environment Science & Analytical Services (RESAS) Division of the Scottish Government through project JHI-B1-1;the Biotechnology and Biological Sciences Research Council (BBSRC) through awards BB/ S015663/1;BB/X009068/1;Research Leaders 2025 fellowship funded by European Union’s Horizon 2020 research and innovation programme under Marie Sklodowska-Curie grant agreement no. 754380;the Research/Scientific Computing teams at The James Hutton Institute and NIAB for providing computational resources and technical support for the “UK’s Crop Diversity Bioinformatics HPC” (BBSRC grant BB/ S019669/1)。

摘　　要：An accurate assessment of host and pathogen gene expression during infection is critical for understanding the molecular aspects of host-pathogen interactions.Often,pathogen-derived transcripts are difficult to ascertain at early infection stages owing to the unfavourable transcript representation compared to the host genes.In this study,we compare two sequencing techniques,RNAseq and enrichment sequencing(RenSeq and PenSeq)of cDNA,to investigate gene expression patterns in the doubled monoploid potato(DM)infected with the late blight pathogen Phytophthora infestans.Our results reveal distinct advantages of cDNA RenSeq and PenSeq over traditional RNAseq in terms of target gene representation and transcriptional quantification at early infection stages.Throughout the infection time course,cDNA enrichment sequencing enables transcriptomic analyses for more targeted host and pathogen genes.For highly expressed genes that were sampled in parallel by both cDNA enrichment and RNAseq,a high level of concordance in expression profiles is observed,indicative of at least semi-quantitative gene expression representation following enrichment.

关 键 词：RxLR effector NLRS Late blight POTATO cDNA sequencing RenSeq PenSeq RNASEQ 

分 类 号：S435.32[农业科学—农业昆虫与害虫防治]