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The identification of long noncoding RNA's in various mitotic stages in A549 cells.

ABSTRACT: Long non-coding RNAs (lncRNAs), the most abundant RNA type in mammalian cells, exhibit highly tissue- and cell type-specific expression. They are typically over 500 nucleotides long, with recent estimates predicting their number to be between 31,000 and 58,000. The complex regulation of gene networks during interphase has been extensively studied. Interphase, comprising the G1, S, and G2 phases, supports critical cellular processes such as replication, transcription, and translation. In contrast, these processes are minimized during mitosis to maintain basal gene expression levels, ensuring the restoration of interphase-specific gene expression patterns after mitosis. Although there is growing insight into the persistence of interphase-specific gene regulatory mechanisms during mitosis, our understanding of the interphase-specific gene networks involved in mitosis-specific functions remains limited. Additionally, the mechanisms underlying the transition from interphase to mitosis-specific functions, including the role of lncRNAs in this transition, are not well understood. Here, we identified differentially expressed lncRNAs throughout the mitotic stages using RNA sequencing.

ORGANISM(S): Homo sapiens

PROVIDER: GSE274156 | GEO | 2026/08/28

REPOSITORIES: GEO

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Project description:Mitosis entails global alterations to chromosome structure and nuclear architecture, concomitant with transient silencing of transcription. How cells transmit transcriptional states through mitosis remains incompletely understood. While many nuclear factors dissociate from mitotic chromosomes, the observation that certain nuclear factors and chromatin features remain associated with individual loci during mitosis originated the hypothesis that they could provide transcriptional memory through mitosis. To obtain the first genome-wide view of the dynamics of chromatin structure during mitosis, we compared the DNase sensitivity of interphase and mitotic chromatin at two stages of cellular maturation in a rapidly dividingmurine erythroblastmodel. Despite global chromosome condensation visible during mitosis at the microscopic level, the chromatin accessibility landscape is largely unaltered. However, mitotic chromatin accessibility is locally dynamic, with individual loci maintaining none, some, or all of their interphase accessibility. Mitotic reduction in accessibility occurs primarily within narrow, highly hypersensitive sites that frequently coincide with transcription factor binding sites, whereas broader domains of moderate accessibility tend to be more stable. In mitosis, proximal promoters generally maintain their accessibility, whereas distal regulatory elements preferentially lose accessibility. Promoters with the highest degree of accessibility preservation in mitosis tend to also be accessible across many murine tissues in interphase. Transcription factor GATA1 exerts site-specific changes in interphase accessibility that are most pronounced at distal regulatory elements, but does not visibly influence mitotic accessibility. We conclude that features of open chromatin are remarkably stable through mitosis and are modulated at the level of individual genes and regulatory elements. Dnase-Seq data is integrated with Chip-seq [GSE36589, GSE30142] and RNA-seq to examine epigentic changes in mitosis. We performed DNase-seq on two cell lines, G1E and G1E-ER4, both on an asynchronus population, and on a sample of cells in mitosis; each of the 4 experiments in triplicate.

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The identification of long noncoding RNA's in various mitotic stages in A549 cells.

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