MicroRNA-Mediated Gene Silencing in Plant Defense and Viral Counter-Defense

Liu, Sheng Rui; Zhou, Jing; Hu, Chun Gen; Wei, Chao; Zhang, Jin‐Zhi

doi:10.3389/fmicb.2017.01801

Cited by 97 publications

(57 citation statements)

References 119 publications

(197 reference statements)

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“…These molecules play an important role in posttranscriptional regulation by the inhibition of the expression of target genes by binding to mRNA [1]. Eukaryotic organisms, such as plants and animals, and some viruses express this type of molecules [2,3]. Lin-4 is the first miRNA that was identified in Caenorhabditis elegans, although later in the same organism were found 22-nt lin-4 and 21-nt let-7; currently, more than 18,226 miRNAs are reported [4].…”

Section: Definition Of Mirnamentioning

confidence: 99%

“…miR395 is another miRNA that has an influence on PA biosynthesis [30]. Some miRNAs (U436803, U977315, U805963, U3938865, and U4351355) regulate fatty acid and flavonoid biosynthesis in Lonicera japonica [2,3]. The characterization in A. thaliana shows that miR858a targets MYB transcription factors that are involved in flavonoid biosynthesis, growth, and development.…”

Section: Flavonoidsmentioning

confidence: 99%

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MicroRNAs Associated with Secondary Metabolites Production

Vargas-Hernández¹,

Vázquez-Marrufo²,

Agustín³

et al. 2019

Plant Physiological Aspects of Phenolic Compounds

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MicroRNAs (miRNAs) are noncoding RNAs that play an important role in the regulation of the genetic expression in animals and plants by targeting mRNAs for cleavage or translational repression. Several miRNAs regulate the plant development, the metabolism, and the responses to biotic and abiotic stresses. Characterization of an miRNA has helped to show its role in fine tuning the mechanisms of posttranscriptional gene regulation. Although there is a lot of information related to miRNA regulation of some processes, the role of miRNA involved in the regulation of biosynthesis of secondary plant product is still poorly understood. In this chapter, we summarize the identification and characterization of miRNAs that participate in the regulation of the biosynthesis of secondary metabolites in plants and their use in the strategies to manipulate a controlled manipulation.

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Section: Definition Of Mirnamentioning

confidence: 99%

Section: Flavonoidsmentioning

confidence: 99%

MicroRNAs Associated with Secondary Metabolites Production

Vargas-Hernández¹,

Vázquez-Marrufo²,

Agustín³

et al. 2019

Plant Physiological Aspects of Phenolic Compounds

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show abstract

“…For this significant discovery, Fire and Mello were awarded with the Nobel Prize in Physiology or Medicine in the year 2006. Since then, this phenomenon has been extensively applied to suppress gene function and has become a common tool for the functional analysis of the genome (Sharma et al, 2013;Younis et al, 2014;Mermigka et al, 2015;Guo et al, 2016;Liu et al, 2017;Carbonell and Darosa 2017;Hua et al, 2018). Some applications of gene silencing have been represented in the Table 1. Key Features of RNAi includes, silencing at post transcriptional level, double stranded nature of silencing molecule, presence of catalytic and amplification process, heritable and systemic silencing, extremely high specificity of the silencing process.…”

Section: History Of Rnaimentioning

confidence: 99%

Gene Silencing: The Mechanism to Down Regulate the Target Gene

Shreya¹,

Pandey²,

Bhandari³

2018

IJBSM

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Gene silencing is one of the most efficient and promising functional genomics tools which down regulates the expression of a gene in a very precise manner and has significant impact on crop improvement. Silencing of a target gene can be achieved at two levels; transcriptional and post-transcriptional stages. In broader sense, transcriptional gene silencing occurs through the repression of the process of transcription while the post transcriptional gene silencing can occur through the degradation of the mRNA. Small RNA molecules like siRNAs & miRNAs are key players which mediate the mechanism of gene silencing. These small RNA molecules are generated through Dicer digestion of the endogenous or exogenous dsRNA by which RISC (RNA induced gene silencing complex) is activated which inhibits expression of a gene. Apart from these small RNA molecules, viruses can also accomplish gene silencing which is known as VIGS (Virus induced gene silencing). VIGS consists of cloning and inserting plant endogenous gene sequences in recombinant viral vectors, which are then inoculated in plants, triggering RNA interference. Gene silencing as reverse genetic tool, has been exploited successfully to build up the resistant against biotic (insect/pest, nematodes, viruses etc.) and abiotic stresses (drought, salinity, frost etc.), and for the enhancement of yield and quality parameters. With the development of cutting edge biotechnological tools and techniques, it is now affordable to knock down/down regulate the expression of any undesirable gene. Ultimately this kind of technology can be important to global food security and sustainability.

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“…A full complementarity binding between target mRNA and miRNA sequence results in endonucleolytic cleavage and disruption. Contrary to this, partial target-site complementarity characteristically down-regulates target-gene expression by suppressing translation of target mRNA (Liu et al 2017). The present study identifies suitable sugarcane-encoded miRNAs to exhibit a stronger degree of target-site complementarities within the ORF1, ORF2 and ORF3 of SCBGAV.…”

Section: Discussionmentioning

confidence: 99%

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Supplemental Information 2: SCBGAV Gene Position table.1

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Sugarcane Bacilliform Guadeloupe A Virus (SCBGAV, genus Badnavirus, family Caulimoviridae) is an emerging, deleterious pathogen of sugarcane which presents a substantial barrier to producing high sugarcane earnings. The circular, double-stranded (ds) DNA genome of SCBGAV (7.4 Kb) is composed of three open reading frames (ORF) that replicate by a reverse transcriptase. In the current study, we used miRNA target prediction algorithms to identify and comprehensively analyze the genome-wide sugarcane (Saccharum officinarum L.)-encoded microRNA (miRNA) targets against the SCBGAV. A total of 28 potential mature target miRNAs were retrieved from the miRBase database and were further analyzed for hybridization to the SCBGAV genome. Multiple computational approaches-including miRNA-target seed pairing, multiple target positions, minimum free energy, target site accessibility, maximum complementarity, pattern recognition and minimum folding energy for attachments-were considered by all algorithms. Only 4 sugarcane miRNAs are selected for SCBGAV silencing. Among those 4, sof-miR396 was identified as the top effective candidate, capable of targeting the vital ORF3 which encodes polyprotein of the SCBGAV genome. miRanda, RNA22 and RNAhybrid algorithms predicted hybridization of sof-miR396 at common locus position 3394. A Circos plot was created to study the network visualization of sugarcane-encoded miRNAs with SCBGAV genes determines detailed evidence for any ideal targets of SCBGAV ORFs by precise miRNAs. The present study concludes a comprehensive report towards the creation of SCBGAV-resistant sugarcane through the expression analysis of the identified miRNAs.

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MicroRNA-Mediated Gene Silencing in Plant Defense and Viral Counter-Defense

Cited by 97 publications

References 119 publications

MicroRNAs Associated with Secondary Metabolites Production

MicroRNAs Associated with Secondary Metabolites Production

Gene Silencing: The Mechanism to Down Regulate the Target Gene

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