Comparative transcriptome profiling of a resistant vs. susceptible tomato (Solanum lycopersicum) cultivar in response to infection by tomato yellow leaf curl virus.

Tianzi Chen,Tongming Zhao,Xin He,Nan Li,Tingli Liu,Yuwen Yang,Wengui Yu,Baolong Zhang,Yuanda Lv,Darren P. Martin

doi:10.1371/journal.pone.0080816

Tianzi Chen, Tongming Zhao + Show 8 more

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https://doi.org/10.1371/journal.pone.0080816

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Journal: PloS one	Publication Date: Nov 18, 2013
Citations: 120	License type: CC BY 3.0

Affiliation: Jiangsu Academy of Agricultural Sciences

Abstract

Tomato yellow leaf curl virus (TYLCV) threatens tomato production worldwide by causing leaf yellowing, leaf curling, plant stunting and flower abscission. The current understanding of the host plant defense response to this virus is very limited. Using whole transcriptome sequencing, we analyzed the differential gene expression in response to TYLCV infection in the TYLCV-resistant tomato breeding line CLN2777A (R) and TYLCV-susceptible tomato breeding line TMXA48-4-0 (S). The mixed inoculated samples from 3, 5 and 7 day post inoculation (dpi) were compared to non-inoculated samples at 0 dpi. Of the total of 34831 mapped transcripts, 209 and 809 genes were differentially expressed in the R and S tomato line, respectively. The proportion of up-regulated differentially expressed genes (DEGs) in the R tomato line (58.37%) was higher than that in the S line (9.17%). Gene ontology (GO) analyses revealed that similar GO terms existed in both DEGs of R and S lines; however, some sets of defense related genes and their expression levels were not similar between the two tomato lines. Genes encoding for WRKY transcriptional factors, R genes, protein kinases and receptor (-like) kinases which were identified as down-regulated DEGs in the S line were up-regulated or not differentially expressed in the R line. The up-regulated DEGs in the R tomato line revealed the defense response of tomato to TYLCV infection was characterized by the induction and regulation of a series of genes involved in cell wall reorganization, transcriptional regulation, defense response, ubiquitination, metabolite synthesis and so on. The present study provides insights into various reactions underlining the successful establishment of resistance to TYLCV in the R tomato line, and helps in the identification of important defense-related genes in tomato for TYLCV disease management.

Highlights

Tomato (Solanum lycopersicum) is an economically important vegetable, with 46.87% increase in total world production from 108 million tons in 2001 to 159 million tons in 2011
In order to detect gene expression at the early stages of infection, RNA isolated from the leaves of tomato yellow leaf curl virus (TYLCV)-resistant tomato breeding line CLN2777A (R) and TYLCV-susceptible tomato breeding line TMXA48-4-0 (S), before (0 dpi) and after (3, 5 and 7 dpi leaves pool together for RNA isolation and library construction according to [17]) TYLCV inoculation with
We extended the fundamental understanding of tomato response to TYLCV infection through comparing whole transcriptome changes between a TYLCV-resistant (R) line and a TYLCV-susceptible (S) line

Summary

Introduction

Tomato (Solanum lycopersicum) is an economically important vegetable, with 46.87% increase in total world production from 108 million tons in 2001 to 159 million tons in 2011 (http://faostat.fao.org/). China is a leading tomato producing industry and its production has doubled from 24 million tons between 2001 and 2011 (http://faostat.fao.org/). Since whitefly populations are difficult to control and a narrow genetic base of tomatoes is available, a major economic control strategy for this pathogen is to identify genetic resistance and transform the resistance genes into tomato [1,4,5,6]. Ty-1 and Ty-3 were found to be allelic and had been cloned [12,13]. The resistance mechanism of these genes in TYLCV resistant tomatoes remains unclear

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