Sequence variation in genes encoding miRNAs/targets and other related approaches for possible use in crop improvement

Gupta, P. K.

doi:10.1111/pbr.12758

Cited by 8 publications

(3 citation statements)

References 92 publications

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“…Several miRNAs identified and characterized in crop plants were found to be involved in the development processes, phytohormone signaling, flowering, sex determination, and biotic/abiotic stress responses [45]. Lately, miRNA-based molecular markers have been developed and used for various purposes in crop plants, including genetic diversity analysis [16,24,46]. SSRs, among other molecular markers, were extensively used for genetic diversity analysis, QTL mapping, genome-wide association analysis, and marker-assisted breeding [47,48].…”

Section: Discussionmentioning

confidence: 99%

Development and use of miRNA-derived SSR markers for the study of genetic diversity, population structure, and characterization of genotypes for breeding heat tolerant wheat varieties

et al. 2021

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Heat stress is an important abiotic factor that limits wheat production globally, including south-east Asia. The importance of micro (mi) RNAs in gene expression under various biotic and abiotic stresses is well documented. Molecular markers, specifically simple sequence repeats (SSRs), play an important role in the wheat improvement breeding programs. Given the role of miRNAs in heat stress-induced transcriptional regulation and acclimatization, the development of miRNA-derived SSRs would prove useful in studying the allelic diversity at the heat-responsive miRNA-genes in wheat. In the present study, efforts have been made to identify SSRs from 96 wheat heat-responsive miRNA-genes and their characterization using a panel of wheat genotypes with contrasting reactions (tolerance/susceptible) to heat stress. A set of 13 miRNA-derived SSR markers were successfully developed as an outcome. These miRNA-SSRs are located on 11 different common wheat chromosomes (2A, 3A, 3B, 3D, 4D, 5A, 5B, 5D, 6A, 6D, and 7A). Among 13 miRNA-SSRs, seven were polymorphic on a set of 37 selected wheat genotypes. Within these polymorphic SSRs, three makers, namely HT-169j, HT-160a, and HT-160b, were found promising as they could discriminate heat-tolerant and heat-susceptible genotypes. This is the first report of miRNA-SSR development in wheat and their deployment in genetic diversity and population structure studies and characterization of trait-specific germplasm. The study suggests that this new class of molecular makers has great potential in the marker-assisted breeding (MAB) programs targeted at improving heat tolerance and other adaptability or developmental traits in wheat and other crops.

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Section: Discussionmentioning

confidence: 99%

Development and use of miRNA-derived SSR markers for the study of genetic diversity, population structure, and characterization of genotypes for breeding heat tolerant wheat varieties

et al. 2021

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“…The genomic context of rsRNA, especially lncRNAs, has a direct bearing on the efficiency of CRISPR‐based approaches (Summanwar et al, 2020). In addition, naturally existing sequence variants and species‐specific rsRNAs might possess distinct expression and/or function and be better suited for manipulating certain traits (Gautam & Gupta, 2020). Detailed information about the rsRNA mediated regulation (in cis / trans , transcript degradation/locus methylation) and target gene function is essential for designing a candidate‐specific approach (Summanwar et al, 2020).…”

Section: Knowledge‐driven Roadmap For Candidate Selection: Rsrna Vs Targetmentioning

confidence: 99%

Regulatory short RNAs: A decade's tale for manipulating salt tolerance in plants

Negi

Mishra

Ganapathi

et al. 2021

Physiologia Plantarum

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Salt stress is a globally increasing environmental detriment to crop growth and productivity. Exposure to salt stress evokes a complex medley of cellular signals, which rapidly reprogram transcriptional and metabolic networks to shape plant phenotype. To date, genetic engineering approaches were used with success to enhance salt tolerance; however, their performance is yet to be evaluated under realistic field conditions. Regulatory short non‐coding RNAs (rsRNAs) are emerging as next‐generation candidates for engineering salt tolerance in crops. In view of this, the present review provides a comprehensive analysis of a decade's worth of functional studies on non‐coding RNAs involved in salt tolerance. Further, we have integrated this knowledge of rsRNA‐mediated regulation with the current paradigm of salt tolerance to highlight two regulatory complexes (RCs) for regulating salt tolerance in plants. Finally, a knowledge‐driven roadmap is proposed to judiciously utilize RC component(s) for enhancing salt tolerance in crops.

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“…It is worth mentioning the usefulness of the described tools not only in miRNA functional analyses but also as an effective approach for improving the agronomic traits in model and crop plants (reviewed in [ 181 , 182 , 183 ]).…”

Section: Conclusion and Future Perspectivesmentioning

confidence: 99%

Research Tools for the Functional Genomics of Plant miRNAs During Zygotic and Somatic Embryogenesis

Wójcik

2020

IJMS

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During early plant embryogenesis, some of the most fundamental decisions on fate and identity are taken making it a fascinating process to study. It is no surprise that higher plant embryogenesis was intensively analysed during the last century, while somatic embryogenesis is probably the most studied regeneration model. Encoded by the MIRNA, short, single-stranded, non-coding miRNAs, are commonly present in all Eukaryotic genomes and are involved in the regulation of the gene expression during the essential developmental processes such as plant morphogenesis, hormone signaling, and developmental phase transition. During the last few years dedicated to miRNAs, analytical methods and tools have been developed, which have afforded new opportunities in functional analyses of plant miRNAs, including (i) databases for in silico analysis; (ii) miRNAs detection and expression approaches; (iii) reporter and sensor lines for a spatio-temporal analysis of the miRNA-target interactions; (iv) in situ hybridisation protocols; (v) artificial miRNAs; (vi) MIM and STTM lines to inhibit miRNA activity, and (vii) the target genes resistant to miRNA. Here, we attempted to summarise the toolbox for functional analysis of miRNAs during plant embryogenesis. In addition to characterising the described tools/methods, examples of the applications have been presented.

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Sequence variation in genes encoding miRNAs/targets and other related approaches for possible use in crop improvement

Cited by 8 publications

References 92 publications

Development and use of miRNA-derived SSR markers for the study of genetic diversity, population structure, and characterization of genotypes for breeding heat tolerant wheat varieties

Development and use of miRNA-derived SSR markers for the study of genetic diversity, population structure, and characterization of genotypes for breeding heat tolerant wheat varieties

Regulatory short RNAs: A decade's tale for manipulating salt tolerance in plants

Research Tools for the Functional Genomics of Plant miRNAs During Zygotic and Somatic Embryogenesis

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