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              -methyl-adenosine level in Nicotiana tabacum is associated with tobacco mosaic virus

Li, Zhurui; Shi, Jing; Yu, Lu; Zhao, Xiaozhen; Ran, Longlu; De-yu, HU; Song, Baoan

doi:10.1186/s12985-018-0997-4

Cited by 54 publications

(48 citation statements)

References 42 publications

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“…As in animals, the N 6 ‐methylation of adenosine residues in nuclear‐encoded mRNAs in land plants is positioned predominantly towards the 3′‐end of the transcript (Bodi et al , ; Dominissini et al , ; Chen and Liu, ; Luo et al , ; Ke et al , ; Wan et al , ; Burgess et al , ; Li et al , ; Scutenaire et al , ; Wei et al , ). This was also supported by Nanopore direct RNA sequencing of Arabidopsis plants (Parker et al , ).…”

Section: Introductionmentioning

confidence: 99%

“…This was also supported by Nanopore direct RNA sequencing of Arabidopsis plants (Parker et al , ). The significance of m 6 A is apparent in mutant plants with reduced levels of m 6 A that show embryogenesis defects and altered growth and developmental phenotypes (Zhong et al , ; Bodi et al , ; Wan et al , ; Shen et al , ; Růžička et al , ; Arribas‐Hernández et al , ; Chen et al , ; Li et al , ; Wei et al , ). Global m 6 A‐RIP‐seq analyses also indicated the presence of m 6 A within organellar (i.e.…”

Section: Introductionmentioning

confidence: 99%

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Topologies of N⁶‐adenosine methylation (m⁶A) in land plant mitochondria and their putative effects on organellar gene expression

et al. 2019

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Summary Mitochondria serve as major sites of ATP production and play key roles in many other metabolic processes that are critical to the cell. As relicts of an ancient bacterial endosymbiont, mitochondria contain their own hereditary material (i.e. mtDNA, or mitogenome) and a machinery for protein biosynthesis. The expression of the mtDNA in plants is complex, particularly at the post‐transcriptional level. Following transcription, the polycistronic pre‐RNAs undergo extensive modifications, including trimming, splicing and editing, before being translated by organellar ribosomes. Our study focuses on N6‐methylation of adenosine ribonucleotides (m6A‐RNA) in plant mitochondria. m6A is a prevalent modification in nuclear‐encoded mRNAs. The biological significance of this dynamic modification is under investigation, but it is widely accepted that m6A mediates structural switches that affect RNA stability and/or activity. Using m6A‐pulldown/RNA‐seq (m6A‐RIP‐seq) assays of Arabidopsis and cauliflower mitochondria, we provide information on the m6A‐RNA landscapes in Arabidopsis thaliana and Brassica oleracea mitochondria. The results show that m6A targets different types of mitochondrial transcripts, including known genes, mtORFs, as well as non‐coding (transcribed intergenic) RNA species. While ncRNAs undergo multiple m6A modifications, N6‐methylation of adenosine residues with mRNAs seem preferably positioned near start codons and may modulate their translatability.

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Section: Introductionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Topologies of N⁶‐adenosine methylation (m⁶A) in land plant mitochondria and their putative effects on organellar gene expression

et al. 2019

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“…Except for the 5′-cap and poly(A)-tail, our knowledge of the plant epitranscriptome is so far limited to uridylation (de Almeida et al 2018a, b), m 6 A Li et al 2014cLi et al , 2018, and m 5 C (Cui et al 2017;David et al 2017). Plant mRNAs are likely to carry other types of modifications but their existence and roles remain to be explored.…”

Section: Chemical Rna Modifications: a New Layer Of Posttranscriptionmentioning

confidence: 99%

“…The Arabidopsis genome codes for a sixth putative homolog of human ALKBH5 (AtALKBH10C), but it is most likely not an active demethylase as it has a degenerate catalytic site (our unpublished data). Besides Arabidopsis, these enzymes can be found in agronomically important plants, for instance, the presence of ALKB demethylase orthologues was detected in Nicotiana sylvestris (Li et al 2018), Zea mays, Oryza sativa, Marchantia polymorpha, and Solanum lycopersicum. No homolog of the FTO demethylase was found to exist in plant genomes (our unpublished data).…”

Section: The Plant Writer and Eraser Systemsmentioning

confidence: 99%

“…Indeed, hypomethylated mutants show reduced root growth, aberrant gravitropic responses, abnormal root cap formation, and deficient vascular development (linked to defective protoxylem development). The m 6 A mark and its control is also most likely necessary not only for the response of the plant to viral infection (Martínez-Pérez et al 2017;Li et al 2018) but also for environmental growth conditions and stress exposure Anderson et al 2018). In Arabidopsis, the viral RNA of AMV was found to have m 6 A residues upon infection and to be demethylated in vivo by ALKBH9B (Martínez-Pérez et al 2017).…”

Section: A Physiological Cellular and Molecular Rolesmentioning

confidence: 99%

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Chemical RNA Modifications: The Plant Epitranscriptome

LitholdoJr.

Bousquet‐Antonelli

2019

Epigenetics in Plants of Agronomic Importance: Fundamentals and Applications

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RNA post-transcriptional modifications create an additional layer to control mRNA transcription, fate, and expression. Considering that they are nongenetically encoded, can be of reversible nature, and involved in fine-tuning gene expression, the landscape of RNA modifications has been coined the "RNA epigenome" or "epitranscriptome." Our knowledge of the plant epitranscriptome is so far limited to 3′-uridylation and internal m 6 A and m 5 C modifications in Arabidopsis. m 6 A is the most abundant and well-studied modification on mRNAs, and involves the activities of evolutionarily conserved "writer" (methyltransferase), "reader" (RNA binding proteins), and "eraser" (demethylases) proteins. In Arabidopsis, m 6 A is crucial for embryogenesis, post-embryonic growth, development, phase transition, and defense responses. Conversely to animals, our understanding of the roles of m 6 A is limited to the finding that it is an mRNA stabilizing mark. Yet likely to exist, its roles in controlling plant mRNA maturation, trafficking, storage, and translation remain unexplored. The m 5 C mark is much less abundant on the transcriptome and our knowledge in plants is more limited. Nonetheless, it is also an important epitranscriptomic mark involved in plant development and adaptive response. Here, we explore the current information on m 6 A and m 5 C marks and report knowledge on their distribution, features, and molecular, cellular, and physiological roles, therefore, uncovering the fundamental importance in plant development and acclimation of RNA epigenetics. Likely to be widespread in the green lineage and given their crucial roles in eukaryotes, the fostering of data and knowledge of epitranscriptome from cultivated plant species is of the utmost importance.

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CRISPR/dCas13(Rx) Derived RNA N⁶‐methyladenosine (m⁶A) Dynamic Modification in Plant

Yu,

Alariqi,

et al. 2024

Advanced Science

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N6‐methyladenosine (m6A) is the most prevalent internal modification of mRNA and plays an important role in regulating plant growth. However, there is still a lack of effective tools to precisely modify m6A sites of individual transcripts in plants. Here, programmable m6A editing tools are developed by combining CRISPR/dCas13(Rx) with the methyltransferase GhMTA (Targeted RNA Methylation Editor, TME) or the demethyltransferase GhALKBH10 (Targeted RNA Demethylation Editor, TDE). These editors enable efficient deposition or removal of m6A modifications at targeted sites of endo‐transcripts GhECA1 and GhDi19 within a broad editing window ranging from 0 to 46 nt. TDE editor significantly decreases m6A levels by 24%–76%, while the TME editor increases m6A enrichment, ranging from 1.37‐ to 2.51‐fold. Furthermore, installation and removal of m6A modifications play opposing roles in regulating GhECA1 and GhDi19 mRNA transcripts, which may be attributed to the fact that their m6A sites are located in different regions of the genes. Most importantly, targeting the GhDi19 transcript with TME editor plants results in a significant increase in root length and enhanced drought resistance. Collectively, these m6A editors can be applied to study the function of specific m6A modifications and have the potential for future applications in crop improvement.

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N 6 -methyl-adenosine level in Nicotiana tabacum is associated with tobacco mosaic virus

Abstract: Background: N 6 -methyl-adenosine (m

Cited by 54 publications

References 42 publications

Topologies of N⁶‐adenosine methylation (m⁶A) in land plant mitochondria and their putative effects on organellar gene expression

Topologies of N⁶‐adenosine methylation (m⁶A) in land plant mitochondria and their putative effects on organellar gene expression

Chemical RNA Modifications: The Plant Epitranscriptome

CRISPR/dCas13(Rx) Derived RNA N⁶‐methyladenosine (m⁶A) Dynamic Modification in Plant

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N 6 -methyl-adenosine level in Nicotiana tabacum is associated with tobacco mosaic virus

Abstract: Background: N 6 -methyl-adenosine (m

Cited by 54 publications

References 42 publications

Topologies of N6‐adenosine methylation (m6A) in land plant mitochondria and their putative effects on organellar gene expression

Topologies of N6‐adenosine methylation (m6A) in land plant mitochondria and their putative effects on organellar gene expression

Chemical RNA Modifications: The Plant Epitranscriptome

CRISPR/dCas13(Rx) Derived RNA N6‐methyladenosine (m6A) Dynamic Modification in Plant

Contact Info

Product

Resources

About

Topologies of N⁶‐adenosine methylation (m⁶A) in land plant mitochondria and their putative effects on organellar gene expression

Topologies of N⁶‐adenosine methylation (m⁶A) in land plant mitochondria and their putative effects on organellar gene expression

CRISPR/dCas13(Rx) Derived RNA N⁶‐methyladenosine (m⁶A) Dynamic Modification in Plant