MicroRNAs: potential target for genome editing in plants for traits improvement

Mangrauthia, Satendra K.; Maliha, A; Prathi, Naresh Babu; Marathi, Balram

doi:10.1007/s40502-017-0326-8

Cited by 15 publications

(6 citation statements)

References 189 publications

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“…Deeper analysis and exploration are needed to understand interactions of lncRNAs and potential target genes, especially those located close to protein-coding genes, in terms of their expression and influence on tolerance to hypoxia stress in cucumber. Understanding of the influence of miRNA on lncRNA and mRNA regulation is really challenging, since one miRNA can regulate more than one target gene, which consequently affects several pathways in plants [ 71 ].…”

Section: Discussionmentioning

confidence: 99%

Waterlogging-Stress-Responsive LncRNAs, Their Regulatory Relationships with miRNAs and Target Genes in Cucumber (Cucumis sativus L.)

Kęska

Szcześniak

Adamus

et al. 2021

IJMS

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Low oxygen level is a phenomenon often occurring during the cucumber cultivation period. Genes involved in adaptations to stress can be regulated by non-coding RNA. The aim was the identification of long non-coding RNAs (lncRNAs) involved in the response to long-term waterlogging stress in two cucumber haploid lines, i.e., DH2 (waterlogging tolerant—WL-T) and DH4 (waterlogging sensitive—WL-S). Plants, at the juvenile stage, were waterlogged for 7 days (non-primed, 1xH), and after a 14-day recovery period, plants were stressed again for another 7 days (primed, 2xH). Roots were collected for high-throughput RNA sequencing. Implementation of the bioinformatic pipeline made it possible to determine specific lncRNAs for non-primed and primed plants of both accessions, highlighting differential responses to hypoxia stress. In total, 3738 lncRNA molecules were identified. The highest number (1476) of unique lncRNAs was determined for non-primed WL-S plants. Seventy-one lncRNAs were depicted as potentially being involved in acquiring tolerance to hypoxia in cucumber. Understanding the mechanism of gene regulation under long-term waterlogging by lncRNAs and their interactions with miRNAs provides sufficient information in terms of adaptation to the oxygen deprivation in cucumber. To the best of our knowledge, this is the first report concerning the role of lncRNAs in the regulation of long-term waterlogging tolerance by priming application in cucumber.

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Section: Discussionmentioning

confidence: 99%

Waterlogging-Stress-Responsive LncRNAs, Their Regulatory Relationships with miRNAs and Target Genes in Cucumber (Cucumis sativus L.)

Kęska

Szcześniak

Adamus

et al. 2021

IJMS

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“…In addition, studies showed that genome editing with site-specific nucleases, especially with type II clustered regularly interspaced short palindromic repeats (CRISPR)/ CRISPR-associated protein 9 (Cas9) system, is the powerful genome editing approach for functional studies in plants (Basso et al 2019;Chen et al 2019;Mangrauthia et al 2017b). CRISPR/Cas9 has shown the possibility to overcome the limitations associated with RNAi by contributing to complete gene knockout and reduced off-target activities (Basso et al 2019).…”

Section: Harnessing the Regulatory Ncrnas For Crop Improvementmentioning

confidence: 99%

Regulatory non-coding RNAs: a new frontier in regulation of plant biology

Bhogireddy

Mangrauthia

Kumar

et al. 2021

Funct Integr Genomics

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Beyond the most crucial roles of RNA molecules as a messenger, ribosomal, and transfer RNAs, the regulatory role of many non-coding RNAs (ncRNAs) in plant biology has been recognized. ncRNAs act as riboregulators by recognizing specific nucleic acid targets through homologous sequence interactions to regulate plant growth, development, and stress responses. Regulatory ncRNAs, ranging from small to long ncRNAs (lncRNAs), exert their control over a vast array of biological processes. Based on the mode of biogenesis and their function, ncRNAs evolved into different forms that include microRNAs (miRNAs), small interfering RNAs (siRNAs), miRNA variants (isomiRs), lncRNAs, circular RNAs (circRNAs), and derived ncRNAs. This article explains the different classes of ncRNAs and their role in plant development and stress responses. Furthermore, the applications of regulatory ncRNAs in crop improvement, targeting agriculturally important traits, have been discussed.

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“…The role of several major components of miR156-SPLs based genetic networks such as miRNAs, miRNA coded peptides (mipeps), mRNA transcripts, relay proteins, ions, and phytohormones are still unknown. But the recent discovery of more sophisticated genetic manipulation tools such as Meganucleases, ZNF proteins, TALENs, and CRISPR/Cas9 [118] will offer more opportunities by creating accurate mutations to unravel the roles of miR156-moulded-SPL modules in lignocellulosic crops.…”

Section: Biogenesis and Action Of The Mir156mentioning

confidence: 99%

The miR156: A Master Regulator to Harmonize Complex Biofuel Traits in Lignocellulosic Biomass Crops

Singh¹

2020

Preprint

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Currently, energy security and environmental degradation are the two biggest challenges before humanity that can be surmounted with the use of green and sustainable biofuels produced from lignocellulosic crops. In the future, to ensure adequate and cost-effective supply of biofuels, it requires a sufficient amount of amenable and quality lignocellulosic feedstocks. Therefore, agricultural yields of lignocellulosic biomass crops should be substantially increased by intense genetic maneuvering of key gene regulatory mechanisms and signaling pathways that control plant biomass yield. Recently, numerous miRNAs families are identified, characterized, and validated across the plant kingdom. Plant microRNAs (miRNAs) are 21 to 24 nucleotides long, non-coding small RNAs, act as regulators of their target genes via inducing modifications in transcription, translation, and epigenome. MiRNAs represent many hallmark characteristics like sequence-specific regulation, tissue, and species-specific expression, evolutionary conservation, and functional diversity. They coordinate well physiological and life cycle processes in plants under adverse environmental conditions. Hence, miRNAs offer accurate, precise, and efficient regulatory switches in the miRNA-targeted genetic networks. It is evident from the study of the miR156 family and its target SQUAMOSA PROMOTER BINDING PROTEIN-LIKE (SPL) genes network that controls highly significant agronomic traits in crop plants. The miR156/SPL module acts as a master circuit that synchronizes many intricate complex biological functions such as growth and development, and metabolic processes by sensing internal and external environmental signals in plants. Therefore, miR156 can prove a potential target for miRNAs based plant biotechnology to harmonize complex biofuel traits and improve biomass yield in lignocellulosic biomass crops.

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MicroRNAs: potential target for genome editing in plants for traits improvement

Cited by 15 publications

References 189 publications

Waterlogging-Stress-Responsive LncRNAs, Their Regulatory Relationships with miRNAs and Target Genes in Cucumber (Cucumis sativus L.)

Waterlogging-Stress-Responsive LncRNAs, Their Regulatory Relationships with miRNAs and Target Genes in Cucumber (Cucumis sativus L.)

Regulatory non-coding RNAs: a new frontier in regulation of plant biology

The miR156: A Master Regulator to Harmonize Complex Biofuel Traits in Lignocellulosic Biomass Crops

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