Genome-Wide Maps of m6A circRNAs Identify Widespread and Cell-Type-Specific Methylation Patterns that Are Distinct from mRNAs

Zhou, Chan; Molinié, Benoit; Daneshvar, K.; Pondick, Joshua V.; Wang, Jinkai; Wittenberghe, Nicholas O. Van; Xing, Yi; Giallourakis, Cosmas; Mullen, Alan C.

doi:10.1016/j.celrep.2017.08.027

Cited by 321 publications

(335 citation statements)

References 60 publications

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“…2b). As they do not have a cap, ribosomes need to be internally recruited onto circRNAs, which may be mediated by m 6 A modifications before the start codon 164,166 . Together, these recent data suggest that reversible RNA methylation, directly or through its impact on local RNA structural topology, is a general feature of mRNA function and acts to increase translation initiation.…”

Section: Rna Modifications Promote Translationmentioning

confidence: 99%

Functional 5′ UTR mRNA structures in eukaryotic translation regulation and how to find them

Leppek

Das

Barna

2017

Nat Rev Mol Cell Biol

598

572

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RNA molecules can fold into intricate shapes that can provide an additional layer of control of gene expression beyond that of their sequence. In this Review, we discuss the current mechanistic understanding of structures in 5′ untranslated regions (UTRs) of eukaryotic mRNAs and the emerging methodologies used to explore them. These structures may regulate cap-dependent translation initiation through helicase-mediated remodelling of RNA structures and higher-order RNA interactions, as well as cap-independent translation initiation through internal ribosome entry sites (IRESs), mRNA modifications and other specialized translation pathways. We discuss known 5′ UTR RNA structures and how new structure probing technologies coupled with prospective validation, particularly compensatory mutagenesis, are likely to identify classes of structured RNA elements that shape post-transcriptional control of gene expression and the development of multicellular organisms.

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Section: Rna Modifications Promote Translationmentioning

confidence: 99%

Functional 5′ UTR mRNA structures in eukaryotic translation regulation and how to find them

Leppek

Das

Barna

2017

Nat Rev Mol Cell Biol

598

572

View full text Add to dashboard Cite

show abstract

“…Lastly, the effects of m6A regulation of cellular RNA concerns more than just the coding transcriptome. The presence of m6A in non-coding RNAs is highly evident, capturing long non-coding RNAs , various types of small non-coding RNAs (Alarc on et al 2015b; Warda et al 2017), and circular RNAs Zhou et al 2017). Due to the limited understanding of the functional relevance of the majority of non-coding RNAs in the brain, the true scope of m6A function may be far broader than what we discuss in the current review.…”

Section: Closing Remarks and Outlookmentioning

confidence: 85%

“…; Zhou et al . ). Due to the limited understanding of the functional relevance of the majority of non‐coding RNAs in the brain, the true scope of m6A function may be far broader than what we discuss in the current review.…”

Section: Closing Remarks and Outlookmentioning

confidence: 97%

The m6A‐epitranscriptomic signature in neurobiology: from neurodevelopment to brain plasticity

Widagdo

Anggono

2018

Journal of Neurochemistry

120

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Research over the past decade has provided strong support for the importance of various epigenetic mechanisms, including DNA and histone modifications in regulating activity-dependent gene expression in the mammalian central nervous system. More recently, the emerging field of epitranscriptomics revealed an equally important role of post-transcriptional RNA modifications in shaping the transcriptomic landscape of the brain. This review will focus on the methylation of the adenosine base at the N6 position, termed N methyladenosine (m6A), which is the most abundant internal modification that decorates eukaryotic messenger RNAs. Given its prevalence and dynamic regulation in the adult brain, the m6A-epitranscriptome provides an additional layer of regulation on RNA that can be controlled in a context- and stimulus-dependent manner. Conceptually, m6A serves as a molecular switch that regulates various aspects of RNA function, including splicing, stability, localization, or translational control. The versatility of m6A function is typically determined through interaction or disengagement with specific classes of m6A-interacting proteins. Here we review recent advances in the field and provide insights into the roles of m6A in regulating brain function, from development to synaptic plasticity, learning, and memory. We also discuss how aberrant m6A signaling may contribute to neurodevelopmental and neuropsychiatric disorders.

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“…More than 60% of m6A modifications are located in the start codon of chloroplastassociated proteins and certain photosynthesis-related genes also show an abundance of m6A sites, indicating that m6A may have unique functions associated with photosynthesis (Li et al, 2014b;Luo et al, 2014). Studies mapping m6A report that this modification is also strongly enriched in the 5 0 UTR of human and other mammals under various stress conditions (Lee et al, 2015;Meyer and Jaffrey, 2017;Wang et al, 2015b;Zhou et al, 2015).…”

Section: Introductionmentioning

confidence: 99%

N6‐methyladenosine regulatory machinery in plants: composition, function and evolution

Yue

Nie

Yan

2019

Plant Biotechnology Journal

141

115

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Summary N6‐methyladenosine (m6A) RNA methylation, one of the most pivotal internal modifications of RNA , is a conserved post‐transcriptional mechanism to enrich and regulate genetic information in eukaryotes. The scope and function of this modification in plants has been an intense focus of study, especially in model plant systems. The characterization of plant m6A writers, erasers and readers, as well as the elucidation of their functions, is currently one of the most fascinating hotspots in plant biology research. The functional analysis of m6A in plants will be booming in the foreseeable future, which could contribute to crop genetic improvement through epitranscriptome manipulation. In this review, we systematically analysed and summarized recent advances in the understanding of the structure and composition of plant m6A regulatory machinery, and the biological functions of m6A in plant growth, development and stress response. Finally, our analysis showed that the evolutionary relationships between m6A modification components were highly conserved across the plant kingdom.

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Genome-Wide Maps of m6A circRNAs Identify Widespread and Cell-Type-Specific Methylation Patterns that Are Distinct from mRNAs

Cited by 321 publications

References 60 publications

Functional 5′ UTR mRNA structures in eukaryotic translation regulation and how to find them

Functional 5′ UTR mRNA structures in eukaryotic translation regulation and how to find them

The m6A‐epitranscriptomic signature in neurobiology: from neurodevelopment to brain plasticity

N6‐methyladenosine regulatory machinery in plants: composition, function and evolution

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