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. 2022 Feb 12;11(4):502.
doi: 10.3390/plants11040502.

Meta-Analysis of Common and Differential Transcriptomic Responses to Biotic and Abiotic Stresses in Arabidopsis thaliana

Yaser Biniaz  1 , Aminallah Tahmasebi  2   3 , Alireza Afsharifar  1 , Ahmad Tahmasebi  4 , Péter Poczai  5   6   7
Affiliations

Meta-Analysis of Common and Differential Transcriptomic Responses to Biotic and Abiotic Stresses in Arabidopsis thaliana

Yaser Biniaz et al. Plants (Basel). .

Abstract

Environmental stresses adversely affect crop growth and yield, resulting in major losses to plants. These stresses occur simultaneously in nature, and we therefore conducted a meta-analysis in this study to identify differential and shared genes, pathways, and transcriptomic mechanisms involved in Arabidopsis response to biotic and abiotic stresses. The results showed a total of 436/21 significant up-/downregulated differentially expressed genes (DEGs) in response to biotic stresses, while 476 and 71 significant DEGs were respectively up- and downregulated in response to abiotic stresses in Arabidopsis thaliana. In addition, 21 DEGs (2.09%) were commonly regulated in response to biotic and abiotic stresses. Except for WRKY45 and ATXTH22, which were respectively up-/down- and down-/upregulated in response to biotic and abiotic stresses, other common DEGs were upregulated in response to all biotic and abiotic treatments. Moreover, the transcription factors (TFs) bHLH, MYB, and WRKY were the common TFs in response to biotic and abiotic stresses. In addition, ath-miR414 and ath-miR5658 were identified to be commonly expressed in response to both biotic and abiotic stresses. The identified common genes and pathways during biotic and abiotic stresses may provide potential candidate targets for the development of stress resistance breeding programs and for the genetic manipulation of crop plants.

Keywords: Arabidopsis thaliana; biotic and abiotic stresses; plant response to multiple stresses; plant-stress interaction; transcriptome data.

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Conflict of interest statement

The authors declare no conflict of interest.

Figures

Figure 1
Figure 1
Identification of genes involved in biotic and abiotic stresses. Comparison of differentially expressed genes (DEGs) during abiotic and biotic stress responses. Four-way Venn diagrams showing co-occurrence and up-/downregulation of DEGs in response to various abiotic and biotic stresses.
Figure 2
Figure 2
Gene ontology enrichment analysis of the DEGs under abiotic (a,c,e) and biotic (b,d,f) stresses. The enriched genes were sorted into three categories according to gene function and biological process, i.e., genes involved in molecular functions and genes responsible for synthesis and organization of cellular components.
Figure 3
Figure 3
A protein-protein interaction network highlights hub genes involved in biotic and abiotic stresses in Arabidopsis. The most important hubs are ranked based on their importance in the network. The red, orange, and yellow nodes indicate the hub genes in each module.
Figure 4
Figure 4
Meta-Analysis of an Expression Dataset.
See this image and copyright information in PMC

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