Volume 13, Issue 3 (2024)                   JCP 2024, 13(3): 255-268 | Back to browse issues page

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Zadeh Hosseingholi E, Molavi G, Mohammadi M S. Unraveling the changes in important molecular mechanisms of Arabidopsis thaliana infected by Botrytis cinerea: insights from in silico analysis. JCP 2024; 13 (3) :255-268
URL: http://jcp.modares.ac.ir/article-3-73891-en.html
Unraveling the changes in important molecular mechanisms of Arabidopsis thaliana infected by Botrytis cinerea: insights from in silico analysis
Elaheh Zadeh Hosseingholi 1, Ghader Molavi2 , Mohammad Sadra Mohammadi3
1- Department of Biology, Faculty of Basic Sciences, Azarbaijan Shahid Madani University, Tabriz, Iran. , zhosseingholi@gmail.com
2- Emam Hossein Hospital, Tabriz University of Medical Sciences, Hashtrood, Iran.
3- Department of Biology, Faculty of Basic Sciences, Azarbaijan Shahid Madani University, Tabriz, Iran.
Abstract:   (22 Views)
Botrytis cinerea is one of the most important harmful fungi affecting agricultural products. This study focused on the expression changes of Arabidopsis thaliana infected with this fungus. The expression dataset of a microarray and two RNA-sequencing were integrated using the respective software. The list of differentially expressed genes was extracted, and the key genes with altered expression were identified through Cytoscape software. These key genes co-expression patterns and functional enrichment were analyzed. Subsequently, microRNAs and transcription factors associated with these genes were predicted. Ten genes, including GAPA-2, SBPASE, CRB, HCEF1, CaS, ATPD, LIL3:1, PSAH2, PRK, and PMDH2, were identified as crucial down-regulated genes. Additionally, ten genes, namely WRKY33, CZF1, SZF1, STZ, ERF11, RHL41, BAP1, AT1G07135, CMPG2, and TET8, were highlighted as key up-regulated genes. The key roles of the hub genes with a decreased expression included processes and pathways associated with the reductive pentose phosphate cycle, photosynthesis, cold response, fructose and sucrose metabolism, defense response against bacteria, and gluconeogenesis. The key over-expressed genes played important roles in responding to chitin, oxygen deprivation, temperature fluctuations, injuries, fungal attacks, and gene transcription functions. Key genes were associated with ath-miR850, ath-miR393a-5p, and ath-miR393b-5p. Transcription factor SPL7 was linked to the transcription of down-regulated key genes, while transcription factors SARD1, PIF5, CAMTA1, HY5, WRKY33, TOC1, CAMTA3, CAMTA2, BZR1, FAR1, and CAMTA5 were also predicted to be associated with up-regulated genes. Some of these results have not previously been reported. Therefore, they could be used to design practical experiments exploring the interaction between plants and pathogenic fungi.
 
Keywords: Microarray, RNA-sequencing, Botrytis cinerea, Arabidopsis thaliana
Full-Text [PDF 756 kb]   (10 Downloads)    
Article Type: Original Research | Subject: Mycology and Fungal Plant Diseases
Received: 2024/02/16 | Accepted: 2024/12/17 | Published: 2024/12/18
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