Discovery of a Novel Long Noncoding RNA Lx8-SINE B2 as a Marker of Pluripotency

Chen, Fuquan; Zhang, Miao; Feng, Xiao; Li, Xiaomin; Sun, Haotian; Lu, Xinyi

doi:10.1155/2021/6657597

Cited by 6 publications

(6 citation statements)

References 33 publications

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“…Many lncRNAs derived from transposable element (TE), such as retrotransposon HERVH derived lncRNA, also act as important pluripotency regulators in ESCs [34,35]. Chen et al found that lncRNA Lx8-SINE B2, which has overlapping exon1 and 3 with neighboring transposon LINE1 family Lx8 and SINE B2 in genome and contains a long intergenic non-coding RNA (lincRNA) lincRNA-1282, is highly abundant in ESCs and a marker of pluripotent mESCs [35]. Its expression is downregulated during ESC differentiation or when cultured in serum containing medium, but is upregulated in 2i containing medium [35].…”

Section: Long Noncoding Rnas Interact With Core Pluripotency Factors ...mentioning

confidence: 99%

“…Chen et al found that lncRNA Lx8-SINE B2, which has overlapping exon1 and 3 with neighboring transposon LINE1 family Lx8 and SINE B2 in genome and contains a long intergenic non-coding RNA (lincRNA) lincRNA-1282, is highly abundant in ESCs and a marker of pluripotent mESCs [35]. Its expression is downregulated during ESC differentiation or when cultured in serum containing medium, but is upregulated in 2i containing medium [35]. They further showed that core pluripotency regulators OCT4 and SOX2 directly bind to a TE ORR1D2 in promoter region of lncRNA Lx8-SINE B2, activating its expression in mESCs, which is functionally important for the expression of another key pluripotency factor c-MYC [35].…”

Section: Long Noncoding Rnas Interact With Core Pluripotency Factors ...mentioning

confidence: 99%

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RNA-Mediated Regulation of Glycolysis in Embryonic Stem Cell Pluripotency and Differentiation

Fan,

2024

Curr Stem Cell Rep

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Purpose of Review The maintenance and differentiation of embryonic stem cells are strictly coordinated with their metabolic status. As a core part of cellular metabolism, glycolysis provides energy and biomolecules important for stem cell proliferation and functions. Particularly, the differentiation of embryonic stem cells is associated with metabolic shifts between glycolysis and oxidative phosphorylation. However, how these metabolic swifts are regulated is still not completely known. This review aims to highlight recent advances in regulation of glycolysis at different stages of embryonic stem cells. Recent Findings Through modulating glycolysis, multiple types of RNA molecules and RNA-binding proteins are critically involved in regulation of the self-renewal, pluripotency, and differentiation of embryonic stem cells. Summary RNA-mediated glycolytic regulation in embryonic stem cells is important for their maintenance and transitions between different stages of differentiation. Better understanding of these riboregulatory mechanisms will have potential for future research and therapeutic innovation.

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Section: Long Noncoding Rnas Interact With Core Pluripotency Factors ...mentioning

confidence: 99%

Section: Long Noncoding Rnas Interact With Core Pluripotency Factors ...mentioning

confidence: 99%

RNA-Mediated Regulation of Glycolysis in Embryonic Stem Cell Pluripotency and Differentiation

Fan,

2024

Curr Stem Cell Rep

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“…Notably, RLTR13D6 and RLTR9 are bound by key pluripotency factors (Nanog and Oct4) and serve as enhancers to govern gene expression in mouse ESCs ( Sundaram et al., 2017 ; Todd et al., 2019 ). An ORR1D2 locus that is bound by Oct4 and Sox2 can serve as a promoter to drive the expression of a retrotransposon-derived lncRNA, Lx8-SINE B2 , which is critical for ESC metabolism ( Chen et al., 2021b , 2022 ). In mouse oocytes, intronic MTC drives the expression of the Dicer isoform ( Flemr et al., 2013 ).…”

Section: Expression and Functions Of Ervs In Mouse Escs And Early Emb...mentioning

confidence: 99%

Regulation of endogenous retroviruses in murine embryonic stem cells and early embryos

2023

Journal of Molecular Cell Biology

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Endogenous retroviruses (ERVs) are an important component of the transposable elements, which constitute ∼50% of the mammalian genome. They exhibit dynamic expression during early embryonic development and are engaged in numerous biological processes. Therefore, their expression must be closely monitored by cells. Studies on the expression regulation of ERVs have been focused on mouse embryonic stem cells (ESCs) and early embryonic development. This review encapsulates recent advances in the modulation of ERVs in mouse ESCs and preimplantation embryos. The review first touches on the classification, expression, and functions of ERVs in mouse ESCs and early embryos. Next, the review mainly discusses the ERV modulation strategies from the perspectives of transcription, epigenetic modification, nucleosome/chromatin assembly, and post-transcriptional control.

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“…All samples were examined in triplicates. Primer sequences for qPCR analysis are listed in Additional file 1: Table S1, some of which have been described previously [20,34,35].…”

Section: Rna Extraction Reverse Transcription and Quantitative Pcr (Q...mentioning

confidence: 99%

Histone chaperone HIRA complex regulates retrotransposons in embryonic stem cells

et al. 2022

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Background Histone cell cycle regulator (HIRA) complex is an important histone chaperone that mediates the deposition of the H3.3 histone variant onto chromatin independently from DNA synthesis. However, it is still unknown whether it participates in the expression control of retrotransposons and cell fate determination. Methods We screened the role of HIRA complex members in repressing the expression of retrotransposons by shRNA depletion in embryonic stem cells (ESCs) followed by RT-qPCR. RNA-seq was used to study the expression profiles after depletion of individual HIRA member. RT-qPCR and western blot were used to determine overexpression of HIRA complex members. Chromatin immunoprecipitation (ChIP)-qPCR was used to find the binding of H3.3, HIRA members to chromatin. Co-immunoprecipitation was used to identify the interaction between Hira mutant and Ubn2. ChIP-qPCR was used to identify H3.3 deposition change and western blot of chromatin extract was used to validate the epigenetic change. Bioinformatics analysis was applied for the analysis of available ChIP-seq data. Results We revealed that Hira, Ubn2, and Ubn1 were the main repressors of 2-cell marker retrotransposon MERVL among HIRA complex members. Surprisingly, Ubn2 and Hira targeted different groups of retrotransposons and retrotransposon-derived long noncoding RNAs (lncRNAs), despite that they partially shared target genes. Furthermore, Ubn2 prevented ESCs to gain a 2-cell like state or activate trophectodermal genes upon differentiation. Mechanistically, Ubn2 and Hira suppressed retrotransposons by regulating the deposition of histone H3.3. Decreased H3.3 deposition, that was associated with the loss of Ubn2 or Hira, caused the reduction of H3K9me2 and H3K9me3, which are known repressive marks of retrotransposons. Conclusions Overall, our findings shed light on the distinct roles of HIRA complex members in controlling retrotransposons and cell fate conversion in ESCs.

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Discovery of a Novel Long Noncoding RNA Lx8-SINE B2 as a Marker of Pluripotency

Cited by 6 publications

References 33 publications

RNA-Mediated Regulation of Glycolysis in Embryonic Stem Cell Pluripotency and Differentiation

RNA-Mediated Regulation of Glycolysis in Embryonic Stem Cell Pluripotency and Differentiation

Regulation of endogenous retroviruses in murine embryonic stem cells and early embryos

Histone chaperone HIRA complex regulates retrotransposons in embryonic stem cells

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