Genome wide expression analysis of WRKY genes in tomato (Solanum lycopersicum) under drought stress

Karkute, Suhas Gorakh; Gujjar, Ranjit Singh; Rai, Anurag; Akhtar, Moin; Singh, Major; Singh, Bijendra

doi:10.1016/j.plgene.2017.11.002

Cited by 73 publications

(59 citation statements)

References 53 publications

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“…It was reported in rice that overexpression of OsNAC5, 6, 7, and 9 genes result in enlarged root and enhanced drought tolerance [12]. The SlWRKY58 and SlWRKY72 genes have been shown to be associated with improved drought tolerance in tomatoes [13]. Dossa et al [14] introduced AP2si16 as a potential candidate gene in breeding programs for drought tolerance, in a study on the AP2/ERF genes of Sesame.…”

Section: Introductionmentioning

confidence: 99%

Transcription Factors and microRNA Genes Regulatory Network Construction Under Drought Stress in Sesame (Sesamum indicum L.)

Baghery

Kazemitabar

Dehestani

et al. 2020

Preprint

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Background: Drought is one of the most common environmental stresses affecting crops yield and quality. Sesame is an important oilseed crop that most likely faces drought during its growth due to growing in semi-arid and arid areas. Plants responses to drought controlled by regulatory mechanisms. Despite this importance, there is little information about Sesame regulatory mechanisms against drought stress. Results: 458 drought-related genes were identified using comprehensive RNA-seq data analysis of two susceptible and tolerant sesame genotypes under drought stress. These drought-responsive genes were included secondary metabolites biosynthesis-related Like F3H, sucrose biosynthesis-related like SUS2, transporters like SUC2, and protectives like LEA and HSP families. Interactions between identified genes and regulators including TFs and miRNAs were predicted using bioinformatics tools and related regulatory gene networks were constructed. Key regulators and relations of Sesame under drought stress were detected by network analysis. TFs belonged to DREB (DREB2D), MYB (MYB63), ZFP (TFIIIA), bZIP (bZIP16), bHLH (PIF1), WRKY (WRKY30) and NAC (NAC29) families were found among key regulators. mRNAs like miR399, miR169, miR156, miR5685, miR529, miR395, miR396, and miR172 also found as key drought regulators. Furthermore, a total of 117 TFs and 133 miRNAs that might be involved in drought stress were identified with this approach. Conclusions: Most of the identified TFs and almost all of the miRNAs are introduced for the first time as potential regulators of drought response in Sesame. These regulators accompany with identified drought-related genes could be valuable candidates for future studies and breeding programs on Sesame under drought stress. Keywords: Sesamum indicum, Drought stress, Regulatory networks, miRNA, Transcription Factors.

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Section: Introductionmentioning

confidence: 99%

Transcription Factors and microRNA Genes Regulatory Network Construction Under Drought Stress in Sesame (Sesamum indicum L.)

Baghery

Kazemitabar

Dehestani

et al. 2020

Preprint

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“…The most studies have shown that WRKY proteins have the ability which makes it specifically bind to the W-box motif (TTGAC/T) that regularly found in the promoter region of the stress related genes when the plant gets exposed to the stress conditions [14,61]. For instance, SlWRKY30, SlWRKY83 and SlWRKY75 genes in tomato have been upregulated in drought [62]. Similarly, SlWRKY72 gene has a significant role in basal immunity and makes the plant withstand the pathogen attack when the pathogen gets conducive environment and has shown a positive role in abiotic stress tolerance.…”

Section: Wrky Transcription Factor In Solanaceousmentioning

confidence: 99%

“…This is the reason why SA is used regularly to study how stress affects the plant growth and development [75]. Importantly, StWRKY72 gene in potato has been also highly up-regulated under stress treatment that sounds its importance better in developing a resistant transgenic line in solanaceous crop to make sure that the developed plant can grow under a water shortage and help in marginalized land utilization utmost [62].…”

Section: Wrky Transcription Factor In Solanaceousmentioning

confidence: 99%

“…The genome wide analyses of each transcription factor have been completed and "-"indicates the genome wide analysis was not done yet. Potato's WRKY [63] Dof [58], NAC [145]; ARF [192]; ERF [181] Pepper WRKY [193] ERF [194]; Dof [51] MYB [103]; ARF [190]; NAC [195] Tomato WRKY [62] Dof [53] MYB [88] HSF [120] ARF [196] ERF [171]; Eggplant's WRKY [197] Dof [52] MYB [84].…”

Section: List Of Major Transcription Factors In Major Solanaceous Foomentioning

confidence: 99%

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The Role of Major Transcription Factors in Solanaceous Food Crops under Different Stress Conditions: Current and Future Perspectives

Tolosa

Zhengbin

2020

Plants

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Plant growth, development, and productivity are adversely affected by environmental stresses such as drought (osmotic stress), soil salinity, cold, oxidative stress, irradiation, and diverse diseases. These impacts are of increasing concern in light of climate change. Noticeably, plants have developed their adaptive mechanism to respond to environmental stresses by transcriptional activation of stress-responsive genes. Among the known transcription factors, DoF, WRKY, MYB, NAC, bZIP, ERF, ARF and HSF are those widely associated with abiotic and biotic stress response in plants. Genome-wide identification and characterization analyses of these transcription factors have been almost completed in major solanaceous food crops, emphasizing these transcription factor families which have much potential for the improvement of yield, stress tolerance, reducing marginal land and increase the water use efficiency of solanaceous crops in arid and semi-arid areas where plant demand more water. Most importantly, transcription factors are proteins that play a key role in improving crop yield under water-deficient areas and a place where the severity of pathogen is very high to withstand the ongoing climate change. Therefore, this review highlights the role of major transcription factors in solanaceous crops, current and future perspectives in improving the crop traits towards abiotic and biotic stress tolerance and beyond. We have tried to accentuate the importance of using genome editing molecular technologies like CRISPR/Cas9, Virus-induced gene silencing and some other methods to improve the plant potential in giving yield under unfavorable environmental conditions.

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“…Since the rst WRKY gene (SPF1) was examined in sweetpotato (Ipomoea batatas) [28], numerous members of WRKY gene family have been identi ed in a variety of plant species, including 75 from Arabidopsis, 97 from wild rice, 83 from tomato, and 119 from corn [29,30,24] (for detail to see Additional le 1, Table S1). Increasing reports demonstrate that WRKY proteins function importantly in plant defense against various biotic and abiotic stresses.…”

Section: Introductionmentioning

confidence: 99%

Genome-wide identification and functional characterization of Camelina sativa WRKY gene family in response to abiotic stress

Song

Cui

She

et al. 2020

Preprint

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Background: WRKY transcription factors are a superfamily of regulators involved in diverse biological processes and stress responses in plants. However, knowledge is limited for WRKY family in camelina (Camelina sativa), an important Brassicaceae oil crop with strong tolerance against various stresses. Here, genome-wide characterization of WRKY proteins is performed to examine their gene-structures, phylogenetics, expressions, conserved motif organizations, and functional annotation to identify candidate WRKYs mediating regulation of stress resistance in camelina. Results: Total of 242 CsWRKY proteins encoded by 224 gene loci distributed uneven on chromosomes were identified, and classified into three groups via phylogenetic analysis according to their WRKY domains and zinc finger motifs. 15 CsWRKY gene loci generated 33 spliced variants. Orthologous WRKY gene pairs were identified, with 173 pairs in C. sativa and Arabidopsis genomes as well as 282 pairs for C. sativa and B. napus, respectively. 137 segmental duplication events were observed but no tandem duplication in camelina genome. Ten major conserved motifs were examined, with WRKYGQK as the most conserved and several variants existed in many CsWRKYs. Expression analysis revealed that half more CsWRKY genes were expressed constitutively, and a set of them had a tissue-specific expression. Notably, 11 CsWRKY genes exhibited significantly expression changes in plant seedlings under cold, salt, and drought stress, respectively, having preferentially inducible expression pattern in response to the stress. Conclusions: The present described a detail analysis of CsWRKY gen family and their expression profiled in twelve tissues and under several stress conditions. Segmental duplication is the major force for large expansion of this gene family, and a strong purifying pressure happened for CsWRKY proteins evolutionally. CsWRKY proteins play important roles for plant development, with differential functions in different tissues. Exceptionally, eleven CsWRKYs, particularly five alternative spliced isoforms were found to be the key players possibly in mediating plant response to various stresses. Overall, our results provide a foundation for understanding roles of CsWRKYs and the precise mechanism through which CsWRKYs regulate high stress resistance to stress as well as development of stress tolerance cultivars for Cruciferae crops.

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Genome wide expression analysis of WRKY genes in tomato (Solanum lycopersicum) under drought stress

Cited by 73 publications

References 53 publications

Transcription Factors and microRNA Genes Regulatory Network Construction Under Drought Stress in Sesame (Sesamum indicum L.)

Transcription Factors and microRNA Genes Regulatory Network Construction Under Drought Stress in Sesame (Sesamum indicum L.)

The Role of Major Transcription Factors in Solanaceous Food Crops under Different Stress Conditions: Current and Future Perspectives

Genome-wide identification and functional characterization of Camelina sativa WRKY gene family in response to abiotic stress

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