Deciphering the role of miRNA in reprogramming plant responses to drought stress

Singh, Archana; Jain, Deepti; Pandey, Jyotsna L; Yadav, Manisha; Bansal, Kailash C.; Singh, Ishwar

doi:10.1080/07388551.2022.2047880

Cited by 22 publications

(11 citation statements)

References 177 publications

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“…Among the predicted miRNAs, there were some known stress-related miRNAs, such as miR1122, miR156, miR159, miR160, miR167, miR399, miR408, and miR444. In several plant species, these miRNAs regulate how plants respond to environmental challenges, including salt, drought, and nutrient deprivation ( Islam et al., 2022a ; Islam et al., 2022b ; Singh et al., 2022 ). For instance, miR160 controls hormonal signaling pathways in response to salt stress in wheat ( Lu et al., 2011 ) and rice ( Barrera-Figueroa et al., 2012 ).…”

Section: Discussionmentioning

confidence: 99%

Identifying long non-coding RNAs involved in heat stress response during wheat pollen development

Babaei,

Bhalla,

Singh

2024

Front. Plant Sci.

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IntroductionWheat is a staple food crop for over one-third of the global population. However, the stability of wheat productivity is threatened by heat waves associated with climate change. Heat stress at the reproductive stage can result in pollen sterility and failure of grain development.MethodsThis study used transcriptome data analysis to explore the specific expression of long non-coding RNAs (lncRNAs) in response to heat stress during pollen development in four wheat cultivars. Results and discussionWe identified 11,054 lncRNA-producing loci, of which 5,482 lncRNAs showed differential expression in response to heat stress. Heat-responsive lncRNAs could target protein-coding genes in cis and trans and in lncRNA-miRNA-mRNA regulatory networks. Gene ontology analysis predicted that target protein-coding genes of lncRNAs regulate various biological processes such as hormonal responses, protein modification and folding, response to stress, and biosynthetic and metabolic processes. We also noted some paired lncRNA/protein-coding gene modules and some lncRNA-miRNA-mRNA regulatory modules shared in two or more wheat cultivars. These modules were related to regulating plant responses to heat stress, such as heat-shock proteins and transcription factors, and protein domains, such as MADS-box, Myc-type, and Alpha crystallin/Hsp20 domain. ConclusionOur results provide the basic knowledge and molecular resources for future functional studies investigating wheat reproductive development under heat stress.

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Section: Discussionmentioning

confidence: 99%

Identifying long non-coding RNAs involved in heat stress response during wheat pollen development

Babaei,

Bhalla,

Singh

2024

Front. Plant Sci.

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“…It was found that the miR166 family can regulate biosynthesis and metabolism to control soybean plant height and shape [37]. In drought stress studies, both the miR166 and miR169 families played important regulatory roles [38]. These highly conserved miRNA families play a variety of roles in plant growth.…”

Section: Discussionmentioning

confidence: 99%

Identifying the Soybean microRNAs Related to Phytophthora sojae Based on RNA Sequencing and Bioinformatics Analysis

Zhang

Song

Tian

et al. 2023

IJMS

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Phytophthora root rot in soybeans is caused by a pathogen called Phytophthora sojae (P. sojae), which results in a significant decrease in soybean production within affected regions. MicroRNAs (miRNAs) are a class of small non-coding RNA molecules that play a key post-transcriptional regulatory role in eukaryotes. In this paper, the miRNAs that respond to P. sojae were analyzed from the gene level to complement the study of molecular resistance mechanisms in soybean. The study utilized high-throughput sequencing of soybean data to predict miRNAs that respond to P. sojae, analyze their specific functions, and verify regulatory relationships using qRT-PCR. The results showed that the miRNAs in soybean respond to P. sojae infection. MiRNAs can be transcribed independently, suggesting the presence of transcription factor binding sites in the promoter regions. Additionally, we performed an evolutionary analysis on conserved miRNAs that respond to P. sojae. Finally, we investigated the regulatory relationships among miRNAs, genes, and transcription factors, and identified five regulatory patterns. These findings lay the groundwork for future studies on the evolution of miRNAs responsive to P. sojae.

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“…MiRNAs comprise a class of small (20- to 24-nucleotide) non-coding RNAs, involved in the post-transcriptional regulation of target genes through either degradation of the targeted messenger RNAs or translational inhibition. A wide range of miRNAs are associated with plant developmental processes and responsiveness to abiotic stress in a cultivar of plant species [ 42 , 43 , 44 ]. Under drought stress, numerous miRNAs including miR159 and miR156 , were reported to be up-regulated or down-regulated in order to modulate the expression of drought-responsive genes and activate drought-associated biochemical pathways [ 43 , 45 , 46 ].…”

Section: Introductionmentioning

confidence: 99%

Genetic and Epigenetic Responses of Autochthonous Grapevine Cultivars from the ‘Epirus’ Region of Greece upon Consecutive Drought Stress

Maniatis,

Tani,

Katsileros

et al. 2023

Plants

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Within the framework of preserving and valorizing the rich grapevine germplasm of the Epirus region of Greece, indigenous grapevine (Vitis vinifera L.) cultivars were characterized and assessed for their resilience to abiotic stresses in the context of climate change. The cultivars ‘Debina’ and ‘Dichali’ displayed significant differences in their response to drought stress as judged by morpho-physiological analysis, indicating higher drought tolerance for Dichali. Hence, they were selected for further study aiming to identify genetic and epigenetic mechanisms possibly regulating drought adaptability. Specifically, self-rooted and heterografted on ‘Richter 110’ rootstock plants were subjected to two phases of drought with a recovery period in between. Gene expression analysis was performed for two stress-related miRNAs and their target genes: (a) miRNA159 and putative targets, VvMYB101, VvGATA-26-like, VvTOPLESS-4-like and (b) miRNA156 and putative target gene VvCONSTANS-5. Overall, grafted plants exhibited a higher drought tolerance than self-rooted plants, suggesting beneficial rootstock–scion interactions. Comparative analysis revealed differential gene expression under repetitive drought stresses between the two cultivars as well as between the self-rooted and grafted plants. ‘Dichali’ exhibited an up-regulation of most of the genes examined, which may be associated with increased tolerance. Nevertheless, the profound down-regulation of VvTOPLESS-4-like (a transcriptional co-repressor of transcription factors) upon drought and the concomitant up-regulation of miRNA159 highlights the importance of this ‘miRNA-target’ module in drought responsiveness. DNA methylation profiling using MSAP analysis revealed differential methylation patterns between the two genotypes in response to drought. Further investigations of gene expression and DNA methylation will contribute to our understanding of the epigenetic mechanisms underlying grapevine tolerance to drought stress.

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Deciphering the role of miRNA in reprogramming plant responses to drought stress

Cited by 22 publications

References 177 publications

Identifying long non-coding RNAs involved in heat stress response during wheat pollen development

Identifying long non-coding RNAs involved in heat stress response during wheat pollen development

Identifying the Soybean microRNAs Related to Phytophthora sojae Based on RNA Sequencing and Bioinformatics Analysis

Genetic and Epigenetic Responses of Autochthonous Grapevine Cultivars from the ‘Epirus’ Region of Greece upon Consecutive Drought Stress

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