![Replication stress induces lncRNAs associated to replicating chromatin. a (Top) Mechanism of action of hydroxyurea (HU) RNR: ribonucleotide reductase. (Bottom) Immunoblot analysis HCT116 cells treated with HU 1 mM for 8 h followed by 3 h recovery shows the reversible effect of HU on replication stress markers p-ATR, p-p53 and γH2A.X. Experiments were performed twice with similar results. Source data are provided as a Source Data file. b Schematic of the fractionation protocol applied to isolate chromatin-associated RNAs. c Volcano plot showing the -log10(adjusted p-value) and the log2(fold-change) from the RNA-seq differential expression analysis, comparing the HU-treated vs untreated chromatin fractions. Transcripts with ± 1logFC (FDR < 0.05) are highlighted in blue (-1logFC) and red ( + 1logFC). DESeq254 two-sided, with Benjamini-Hochberg FDR correction, was used to measure differential expression. Volcano plot was drawn using ggplot2 R package. d Distribution of the log2(fold-change) of the HU-upregulated genes in the different cell cycle stages of a synchronized RNA-seq. Data points represent the log2-ratio of the number of genes in each replication phase vs the number obtained in the 100 random sets generated. (mean ±2 x standard deviation). Source data are provided as a Source Data file e Temporal expression pattern analysis of the induced lncRNAs in RNA-seq data of cells synchronized in the different phases of the cell cycle. n = 3 (one sample Wilcoxon test, no multiple testing corrections). Fold-change is defined as the ratio between the expression in one-a time point versus the expression in the pool of all the other points. Boxplots represent 25 to 75 percentiles, and whiskers are 1.5 x interquartile range (interquartile range = percentile75-percentile25). f Enrichr analysis of the promoters of the differentially expressed genes upon HU treatment, searching against the CHEA Transcription Factor Targets database. g Overlap between the promoter of the upregulated lncRNAs and the binding sites of stress-related transcription factors. The blue squares on the grid show the candidate lncRNAs that have a binding site in their promoter for the given transcription factor. Credit: Nature Communications (2024). DOI: 10.1038/s41467-024-45183-5 Discovered a RNA molecule that helps prevent DNA replication errors](https://scx1.b-cdn.net/csz/news/800a/2024/discovered-a-rna-molec.jpg)
Researchers at Cima Universidad de Navarra have found {that a} ribonucleic acid that doesn’t comprise info to make proteins (lengthy non-coding RNA) performs a vital function in signaling and repairing errors in DNA replication throughout cell division. This discovering might result in the event of latest anti-tumor therapies.
Scientists have recognized an RNA that they named “lncREST” (lengthy non-coding RNA REplication STress) and uncovered its function in triggering an efficient response to the stress induced by speedy cell division.
“LncREST localizes to chromatin (the construction through which DNA is organized within the cell). Its essential operate is to facilitate the localization of key proteins within the means of DNA replication and DNA injury restore the place they’re wanted. In actual fact, the absence of lncREST has been proven to trigger impaired stress signaling, resulting in the buildup of extreme DNA defects and, in the end, cell loss of life,” explains Luisa Statello Ph.D., first and co-corresponding writer of the research.
“Now we have found that lncREST—managed by the tumor suppressor p53—acts as a useful sensor. It ensures that the required proteins are in the suitable place on the proper time and, that genome replication doesn’t fail,” says Maite Huarte, chief of the research and principal investigator of the Non-Coding RNA and Most cancers Genome Group at Cima Universidad de Navarra.
The work, printed within the journal Nature Communications, has not solely revealed IncREST as a crucial element of the stress response however may be an efficient therapeutic goal within the struggle towards varied forms of most cancers.
“This discovery is a crucial step in direction of a greater understanding of how our cells cope with stress throughout cell division. As well as, it might open up a brand new avenue for research to develop new therapies towards most cancers cells, or enhance present ones, utilizing lncREST as a therapeutic goal,” says Statello.
The researchers, who carried out the research in colorectal most cancers cells and in mouse tumor fashions, additionally spotlight the promising situation which will outcome from combining identified inhibitors with lncREST inhibitors to attain a better therapeutic impact. “The findings might result in a mixture remedy to make use of fewer medicine and cut back toxicity to the affected person. Through the use of two inhibitors on the similar time, the possibilities of tumor cells creating resistance to therapy are diminished,” suggests Huarte.
On this research, the Cima researchers have reformulated an present expertise to detect RNA molecules within the replication course of. “Now we have developed a technique known as iROND, which permits us to determine RNAs which are situated particularly on the websites the place DNA is replicating. In actual fact, that’s how we detected lncREST related to replication websites below stress circumstances,” says Luisa Statello.
Extra info:
Luisa Statello et al, The chromatin-associated lncREST ensures efficient replication stress response by selling the meeting of fork signaling components, Nature Communications (2024). DOI: 10.1038/s41467-024-45183-5
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Centro de Investigación Médica Aplicada (CIMA) Universidad de Navarra
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