Comparative transcriptome analysis of tomato (Solanum lycopersicum) in response to exogenous abscisic acid

BMC Genomics

Research Article

Liang Xiao¹  Yan Wang¹  Xin-Rong Ma¹  Xiang Tao¹  Jiao-long Sun¹  Xiao-Mei Tang¹  Xue-Feng Yan¹  Hong-Yuan Deng¹  Dan Li¹ 

[1]Chengdu Institute of Biology, Chinese Academy of Sciences, No 9, Section 4, Renmin South Road, 610041, Chengdu, China

关键词: Tomato;    Exogenous ABA;    RNA-Seq;    ABA signaling pathway;    Transcription factors;    Heat shock proteins;    Pathogen-related proteins;    ROS scavenging enzymes;   

DOI  :  10.1186/1471-2164-14-841

 received in 2013-07-30, accepted in 2013-11-27,  发布年份 2013

来源: Springer

【 摘 要 】

BackgroundAbscisic acid (ABA) can regulate the expressions of many stress-responsive genes in plants. However, in defense responses to pathogens, mounting evidence suggests that ABA plays variable roles. Little information exists about genome-wide gene expression in ABA responses in tomato (Solanum lycopersicum L.), a model fruit crop plant.ResultsGlobal transcriptome profiles of tomato leaf responses to exogenous ABA were generated using Illumina RNA-sequencing. More than 173 million base pair reads were mapped onto the tomato reference genome and the expression pattern differences between treated and control leaves were assessed. In total, 50,616 transcripts were generated. Among them, 42,583 were functionally annotated in the NCBI non-redundant database and 47,877 in the tomato genome reference. Additionally, 31,107 transcripts were categorized into 57 functional groups based on Gene Ontology terms, and 14,371 were assigned to 310 Kyoto Encyclopedia of Genes and Genomes pathways. In both the ABA treatment and control samples, 39,671 transcripts were available to analyze their expressions, of which 21,712 (54.73%) responded to exogenous ABA. Of these transcripts, 2,787 were significantly differently expressed genes (DEGs). Many known and novel ABA-induced and -repressed genes were found. Exogenous ABA can influence the ABA signaling pathway with PYR/PYL/RCARs-PP2Cs-SnRK2s as the center. Eighteen PYL genes were detected. A large number of genes related to various transcription factors, heat shock proteins, pathogen resistance, and the salicylic acid, jasmonic acid, and ethylene signaling pathways were up-regulated by exogenous ABA.ConclusionsThe results indicated that ABA has the potential to improve pathogen-resistance and abiotic stress tolerance in tomato. This study presents the global expression analysis of ABA-regulated transcripts in tomato and provides a robust database for investigating the functions of genes induced by ABA.

【 授权许可】

Unknown   
© Wang et al.; licensee BioMed Central Ltd. 2013. This article is published under license to BioMed Central Ltd. This is an open access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.