Gene network analysis and finding key genes involved in response to different bacterial strains in tomato

Document Type : Research Paper

Authors

1 Department of Production Engineering and Plant Genetics, Faculty of Agriculture, Shahid Chamran University of Ahvaz

2 Horticultural Science Research Department, Khuzestan Agricultural and Natural Resources Research and Education Center, Agricultural Research, Education and Extension Organization (AREEO), Ahvaz, Iran

3 Department of Agronomy and Plant Breeding, Khorramabad Branch, Islamic Azad University, Khorramabad, Iran.

4 Department of Plant Production and Genetic Engineering, Faculty of Agriculture, Lorestan University, Khorramabad, Iran.

Abstract

Tomato (Solanum lycopersicum) is an annual, self-pollinated and diploid plant belonging to the potato family (Solanaceae). Different types of this plant form an important part of the world's diet. Bacterial diseases are one of the most important factors limiting tomato production worldwide. In the present study, by using transcriptome (RNA-seq) analysis followed by gene network analysis, the key genes involved in response to bacterial diseases were identified and their various characteristics were investigated. The results of the transcriptome analysis showed that bacterial pathogens have different effects on the transcriptome of tomato. Further analysis revealed 913 common differentially expressed genes among different bacterial treatments. Network analysis identified five key genes named large guanine nucleotide binding protein, mitogen-activated protein kinase 5, mitogen-activated protein kinase 7, heat shock protein 90 kDa and hop-interacting protein. Further analysis of identified key genes showed that all of them contain biotic stress related regulatory elements (w-box, WRE3 and WUN-motif) in their promoter region and have an important role in responding to biotic stresses. The key genes identified in this research can be used in classic breeding programs or in production of disease-resistant transgenic plants after a more detailed examination.




Keywords: Gene networks, Plant breeding, Plant diseases, Tomato, Transcriptome

Keywords

Main Subjects


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