Comprehensive Analysis of Differential m6A RNA Methylomes in the Hippocampus of Cocaine-Conditioned Mice

Xue, Aiqin; Huang, Yan; Li, Meng; Qian, Wei; Bu, Qian

doi:10.1007/s12035-021-02363-4

Cited by 13 publications

(9 citation statements)

References 41 publications

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“…Given that m6A peaks are enriched in the consensus motif RRACH, we next asked whether the composition of submotifs was different among genic regions. Our results showed that all the m6A peaks in the 3′UTRs, CDSs, and 5′UTRs were more likely to be found in the GGACH submotif (Supplementary Figure S6C), which is consistent with a previous study showing that the most significantly enriched motifs in m6A peaks were characterized by the canonical GGACH (H=U/A) sequence Xue et al, 2021).…”

Section: Potential Mechanisms Associated With Different M6a Topologie...supporting

confidence: 92%

m6A Topological Transition Coupled to Developmental Regulation of Gene Expression During Mammalian Tissue Development

Yang

Jiao

et al. 2022

Front. Cell Dev. Biol.

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N6-methyladenosine (m6A) is the most prevalent internal modification and reversible epitranscriptomic mark in messenger RNAs (mRNAs) and plays essential roles in a variety of biological processes. However, the dynamic distribution patterns of m6A and their significance during mammalian tissue development are poorly understood. Here, we found that based on m6A distribution patterns, protein-coding genes were classified into five groups with significantly distinct biological features and functions. Strikingly, comparison of the m6A methylomes of multiple mammalian tissues between fetal and adult stages revealed dynamic m6A topological transition during mammalian tissue development, and identified large numbers of genes with significant m6A loss in 5′UTRs or m6A gain around stop codons. The genes with m6A loss in 5′UTRs were highly enriched in developmental stage-specific genes, and their m6A topological transitions were strongly associated with gene expression regulation during tissue development. The genes with m6A gain around the stop codons were associated with tissue-specific functions. Our findings revealed the existence of different m6A topologies among protein-coding genes that were associated with distinct characteristics. More importantly, these genes with m6A topological transitions were crucial for tissue development via regulation of gene expression, suggesting the importance of dynamic m6A topological transitions during mammalian tissue development.

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Section: Potential Mechanisms Associated With Different M6a Topologie...supporting

confidence: 92%

m6A Topological Transition Coupled to Developmental Regulation of Gene Expression During Mammalian Tissue Development

Yang

Jiao

et al. 2022

Front. Cell Dev. Biol.

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“…In recent years, mRNA modi cation, especially m6A, has drawn lots of attention. m6A has been indicated involving in various biological processes, such as cell proliferation, invasion, metastasis, immune system evasion, stress response, tumorigenesis, and so on [36][37][38][39][40][41][42][43][44]. m5C, as a new modi cation factor, also is related to tumor translation, occurrence and metastasis.…”

Section: Discussionmentioning

confidence: 99%

5-methylcytosine profile of mRNA in breast cancer brain metastasis

Cai

Jiang

Zhang

et al. 2022

Preprint

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Background: 5-methylcytosine (m5C) modification is involved in various physiological process of diseases. Great amount of research has been conducted to reveal the m5C profile, while the m5C profile of mRNA in breast cancer brain metastasis is unknown. Materials & methods: We performed methylated RNA immunoprecipitation sequencing (MeRIP-seq) to identify the m5C profile of mRNA in breast cancer brain metastasis cells (231-BR cells). Results: mRNA m5C profiles showed difference in peak numbers, length and modification level between 231-BR cells and its parental nonspecific metastatic MDA-MB-231 cells. Compared with the control cells, we gained 1048 higher and 1866 lower methylation peaks in 231-BR cells. The most significant differentially methylated genes in m5C level included NSCN7, YBX3, SHANK1, MMP9, and LCN2. In addition, through GO and KEGG analysis, differently m5C methylated genes were chiefly engaged in the pathways of cancer cell focal adhesion, basal carcinoma, and endocytosis. Finally, the conjoint analysis of mRNA expression and RNA m5C modification was performed and that there are 346 genes showed coefficient changes. Conclusion: This study may comply a novel vision as a basis for subsequent mechanism research of breast cancer brain metastasis.

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“…Other than that, FTO was reported to be part of the regulation of BDNF processing [186]. FTO demethylase, but not METTL3 and METTL14, was downregulated in the hippocampus following COC-induced CPP, leading to a higher level of m 6 A [187]. Mice lacking the FTO gene exhibited lower body weight and decreased anxiety-and depression-like behaviors, mediated by changes in the gut microbiota [188].…”

Section: Epitranscriptomics and Psychostimulant Addictionmentioning

confidence: 99%

Breaking the Chains: Advances in Substance Addiction Research through Single-Cell Sequencing, Epigenetics, and Epitranscriptomic

Filošević Vujnović,

Stanković Matić,

Saftić Martinović

et al. 2024

Future Pharmacology

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Addiction is a complex brain disease influenced by genetic, environmental, and neurological factors. Psychostimulants, cocaine, and methamphetamine influence different cell types in different brain regions, with a focus on the neurons responsible for rewarding effects in the nucleus accumbens (NAc) and ventral tegmental area (VTA). Known markers for psychostimulant-induced neuronal plasticity in combination with droplet-based high-throughput single-cell sequencing divided the heterogeneity of cell populations in NAc and VTA into clusters, where all cells of the same type do not respond equally to exposure to psychostimulants. To explain psychostimulant-induced neuronal plasticity as changes in the amplitude and phase shifts of gene expression, we focused on epigenetic mechanisms of DNA and chromatin modifications, as well as DNA accessibility. We also comment on epitranscriptomics as a novel approach in the study of messenger RNA posttranslational modification, which regulates translation and potentially localized transcription in synapses in order to address the molecular chains that connect addiction from changes in gene expression to synaptic and, finally, neuronal plasticity.

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Comprehensive Analysis of Differential m6A RNA Methylomes in the Hippocampus of Cocaine-Conditioned Mice

Cited by 13 publications

References 41 publications

m6A Topological Transition Coupled to Developmental Regulation of Gene Expression During Mammalian Tissue Development

m6A Topological Transition Coupled to Developmental Regulation of Gene Expression During Mammalian Tissue Development

5-methylcytosine profile of mRNA in breast cancer brain metastasis

Breaking the Chains: Advances in Substance Addiction Research through Single-Cell Sequencing, Epigenetics, and Epitranscriptomic

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