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Folic acid regulates neural mRNA m6A epitranscriptome via one-carbon metabolism in Drosophila and mammals

ABSTRACT: Folic acid regulates neural mRNA m6A epitranscriptome via one-carbon metabolism in Drosophila and mammals

PROVIDER: PRJNA1153272 | ENA |

REPOSITORIES: ENA

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Folic acid regulates neural mRNA m6A epitranscriptome via one-carbon metabolism in Drosophila and mammals

Project description:Folic acid is one of the B vitamins and is involved into neural function and brain development. Increasing evidence showed that folic acid can regulate neural gene function through DNA modification, while regulatory roles of folic acid in RNA modification remain largely unknown. In this study, we investigated the role of folic acid in regulating neural mRNA m6A epitranscriptome in Drosophila and mammals. We found that the folate treatment induced a significant increase in mRNA m6A levels compared to the control group in Drosophila and S2 cells. MeRIP-seq analysis indicated that carbon metabolism pathway and neural-related pathways were mainly affected. Subsequently, we migrated our validation experiments to human cells, our results showed that folate also affected mRNA m6A modification through one-carbon metabolic pathway in human cells, especially in neuronal cells. We also validated the effect of folic acid on mRNA methylation in mice, the results showed that folic acid treatment can significantly increase the expression of m6A-related proteins (Mettl3, Mettl14, FTO) and neural mRNA m6A methylation levels in mice brain. Moreover, we found that folic-acid producing Lactobacillus plantarum can significantly affects the m6A modification of mRNA in the host. In conclusion, we demonstrated that folic acid can participate in mRNA m6A modification through one-carbon metabolic pathway in Drosophila and mammals, and found that it has a significant effect on neural-related genes and pathways.

2025-08-01 | GSE275843 | GEO

Mouse retina m6A epitranscriptome

Project description:m6A epitranscriptome of postnatal day 6 mouse retina was sequenced using MeRIP-seq.

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ONE-seq: epitranscriptome and gene-specific profiling of NAD-capped RNA

Project description:The hub metabolite, nicotinamide adenine dinucleotide (NAD), can be used as an initiating nucleotide in RNA synthesis to result in NAD-capped RNAs (NAD-RNA). Since NAD has been heightened as one of the most essential modulators in aging and various age-related diseases, its attachment to RNA might indicate a yet-to-be discovered mechanism that impacts adult life-course. However, the unknown identity of NAD-linked RNAs in adult and aging tissues has hindered functional studies. Here, we introduce ONE-seq method to identify the RNA transcripts that contain NAD cap. ONE-seq has been optimized to use only one-step chemo-enzymatic biotinylation, followed by streptavidin capture and the nudix phosphohydrolase NudC-catalyzed elution, to specifically recover NAD-capped RNAs for epitranscriptome and gene-specific analyses. Our data describes more than a thousand of previously unknown NAD-RNAs in the mouse liver and reveals epitranscriptome-wide dynamics of NAD-RNAs with age.ONE-seq empowers the identification of NAD-capped RNAs that are responsive to distinct physiological states, facilitating functional investigation into this modification.

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ONE-seq: epitranscriptome and gene-specific profiling of NAD-capped RNA

Project description:ONE-seq: epitranscriptome and gene-specific profiling of NAD-capped RNA

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m6A level and isoform characterization sequencing (m6A-LAIC-seq) reveal the census and complexity of the m6A epitranscriptome

Project description:N6-methyladenosine (m6A) is a widespread reversible chemical modification of RNAs, implicated in many aspects of RNA metabolism. Little quantitative information exists as to either how many transcript copies of particular genes are m6A modified (âm6A levelsâ), or the relationship of m6A modification(s) to alternative RNA isoforms. To deconvolute the m6A epitranscriptome, we developed m6A level and isoform-characterization sequencing (m6A-LAIC-seq). We found that cells exhibit a broad range of non-stoichiometric m6A levels with cell type specificity. At the level of isoform characterization, we discovered widespread differences in use of tandem alternative polyadenylation (APA) sites by methylated and nonmethylated transcript isoforms of individual genes. Strikingly, there is a strong bias for methylated transcripts to be coupled with proximal APA sites, resulting in shortened 3â untranslated regions (3â-UTRs), while nonmethylated transcript isoforms tend to use distal APA sites. m6A-LAIC-seq yields a new perspective on transcriptome complexity and links APA usage to m6A modifications. m6A-LAIC-seq of H1-ESC and GM12878 cell lines, each cell line has two replicates

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neonatal and adult mouse retina m6A epitranscriptome [meRIP-seq]

Project description:m6A epitranscriptome of newborn and adult mouse retina was sequenced using MeRIP-seq

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The transcriptome and m6A-epitranscriptome during skeletal muscle differentiation

Project description:Mouse C2C12 myoblasts were used to mimic skeletal muscle differentiation in vitro.Using RNA-seq and MeRIP-seq, we generated the tascriptome and epitranscriptome data of undifferentited C2C12 myoblasts in growth medium (GM) and differentiated myotubes in differentitation medium for 4 days (D4).

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Project description:Caco-2, HT29, CCD841CoTr exposed to 10ng/mL, 100ng/mL and 4000ng/mL folic acid Keywords: dose response

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