Nobuyoshi Akimitsu
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View article: Fragile X messenger ribonucleoprotein 1 (FMRP) regulates glycolytic gene expression under chronic hypoxia in HCT116 cells
Fragile X messenger ribonucleoprotein 1 (FMRP) regulates glycolytic gene expression under chronic hypoxia in HCT116 cells Open
Oxygen shortage, known as hypoxia, occurs commonly in both physiological and pathological conditions. Transcriptional regulation by hypoxia-inducible factors is a dominant regulatory mechanism controlling hypoxia-responsive genes during ac…
View article: The MTR4/hnRNPK complex surveils aberrant polyadenylated RNAs with multiple exons
The MTR4/hnRNPK complex surveils aberrant polyadenylated RNAs with multiple exons Open
View article: Multi-omics analysis using antibody-based in situ biotinylation technique suggests the mechanism of Cajal body formation
Multi-omics analysis using antibody-based in situ biotinylation technique suggests the mechanism of Cajal body formation Open
Membrane-less subcellular compartments play important roles in various cellular functions. Although techniques exist to identify components of cellular bodies, a comprehensive method for analyzing both static and dynamic states has not bee…
View article: Fragile X mental retardation protein regulates glycolytic gene expression under chronic hypoxia
Fragile X mental retardation protein regulates glycolytic gene expression under chronic hypoxia Open
Oxygen shortage, known as hypoxia, occurs commonly in both physiological and pathological conditions. Transcriptional regulation by hypoxia-inducible factors (HIFs) is a dominant regulatory mechanism controlling hypoxia-responsive genes du…
View article: LncRNA <i>ZNNT1</i> induces p53 degradation by interfering with the interaction between p53 and the SART3-USP15 complex
LncRNA <i>ZNNT1</i> induces p53 degradation by interfering with the interaction between p53 and the SART3-USP15 complex Open
Mammalian genomes encode large number of long noncoding RNAs (lncRNAs) that play key roles in various biological processes, including proliferation, differentiation, and stem cell pluripotency. Recent studies have addressed that some lncRN…
View article: Integrative omics indicate FMRP sequesters mRNA from translation and deadenylation in human neuronal cells
Integrative omics indicate FMRP sequesters mRNA from translation and deadenylation in human neuronal cells Open
View article: Long noncoding RNA and phase separation in cellular stress response
Long noncoding RNA and phase separation in cellular stress response Open
Stress response is important for sensing and adapting to environmental changes. Recently, RNA-protein (RNP) condensates, which are a type of membrane-less organelle formed by liquid–liquid phase separation, have been proposed to regulate t…
View article: hnRNPH1-MTR4 complex-mediated regulation of <i>NEAT1v2</i> stability is critical for <i>IL8</i> expression
hnRNPH1-MTR4 complex-mediated regulation of <i>NEAT1v2</i> stability is critical for <i>IL8</i> expression Open
Many long noncoding RNAs (lncRNAs) are localized in the nucleus and play important roles in various biological processes, including cell proliferation, differentiation and antiviral response. Yet, it remains unclear how some nuclear lncRNA…
View article: A histone modifier, ASXL1, interacts with NONO and is involved in paraspeckle formation in hematopoietic cells
A histone modifier, ASXL1, interacts with NONO and is involved in paraspeckle formation in hematopoietic cells Open
Paraspeckles are membraneless organelles formed through liquid-liquid phase separation and consist of multiple proteins and RNAs, including NONO, SFPQ, and NEAT1. The role of paraspeckles and the component NONO in hematopoiesis remains unk…
View article: Human U90926 orthologous long non-coding RNA as a novel biomarker for visual prognosis in herpes simplex virus type-1 induced acute retinal necrosis
Human U90926 orthologous long non-coding RNA as a novel biomarker for visual prognosis in herpes simplex virus type-1 induced acute retinal necrosis Open
Acute retinal necrosis (ARN) is a form of infectious uveitis caused by alpha herpesviruses, including herpes simplex virus type 1 (HSV-1). We previously found that the long non-coding RNA (lncRNA) U90926 is upregulated in murine retinal ph…
View article: Identification of a heat-inducible novel nuclear body containing the long noncoding RNA <i>MALAT1</i>
Identification of a heat-inducible novel nuclear body containing the long noncoding RNA <i>MALAT1</i> Open
The heat-shock response is critical for the survival of all organisms. Metastasis-associated long adenocarcinoma transcript 1 (MALAT1) is a long noncoding RNA localized in nuclear speckles, but its physiological role remains elusive. Here,…
View article: Activation of Sympathetic Signaling in Macrophages Blocks Systemic Inflammation and Protects against Renal Ischemia-Reperfusion Injury
Activation of Sympathetic Signaling in Macrophages Blocks Systemic Inflammation and Protects against Renal Ischemia-Reperfusion Injury Open
Significance Statement The detailed role of neural activity in inflammatory diseases is still unclear because it varies according to the disease situation and responsible cell types. This study shows that activation of β 2-adrenergic recep…
View article: Aberrant phase separation and cancer
Aberrant phase separation and cancer Open
Eukaryotic cells are intracellularly divided into numerous compartments or organelles, which coordinate specific molecules and biological reactions. Membrane‐bound organelles are physically separated by lipid bilayers from the surrounding …
View article: Fusion Genes and RNAs in Cancer Development
Fusion Genes and RNAs in Cancer Development Open
Fusion RNAs are a hallmark of some cancers. They result either from chromosomal rearrangements or from splicing mechanisms that are non-chromosomal rearrangements. Chromosomal rearrangements that result in gene fusions are particularly pre…
View article: The role of micropeptides in biology
The role of micropeptides in biology Open
View article: The Functions and Unique Features of LncRNAs in Cancer Development and Tumorigenesis
The Functions and Unique Features of LncRNAs in Cancer Development and Tumorigenesis Open
Over the past decades, research on cancer biology has focused on the involvement of protein-coding genes in cancer development. Long noncoding RNAs (lncRNAs), which are transcripts longer than 200 nucleotides that lack protein-coding poten…
View article: Loss of the fragile X syndrome protein FMRP results in misregulation of nonsense-mediated mRNA decay
Loss of the fragile X syndrome protein FMRP results in misregulation of nonsense-mediated mRNA decay Open
View article: hnRNPH1-MTR4 complex-mediated regulation of <i>NEAT1v2</i> stability is critical for <i>IL8</i> expression
hnRNPH1-MTR4 complex-mediated regulation of <i>NEAT1v2</i> stability is critical for <i>IL8</i> expression Open
Many long noncoding RNAs (lncRNAs) are localized in the nucleus and play important roles in various biological processes, including cell proliferation, differentiation and antiviral response. Yet, it remains unclear how some nuclear lncRNA…
View article: hnRNPH1-MTR4 complex-mediated regulation of <i>NEAT1v2</i> stability is critical for <i>IL8</i> expression
hnRNPH1-MTR4 complex-mediated regulation of <i>NEAT1v2</i> stability is critical for <i>IL8</i> expression Open
Many long noncoding RNAs (lncRNAs) are localized in the nucleus and play important roles in various biological processes, including cell proliferation, differentiation and antiviral response. Yet, it remains unclear how some nuclear lncRNA…
View article: Repression of PUM1-mediated mRNA decay activates translesion synthesis after DNA damage
Repression of PUM1-mediated mRNA decay activates translesion synthesis after DNA damage Open
Biological roles of Pumilio1 (PUM1) in ubiquitous cells remain unclear. Here we identify 48 degrading target mRNAs by combined analysis of transcriptome-wide mRNA stabilities and the binding of mRNAs. Further analysis revealed that cells r…
View article: Metabolic labeling of RNA using multiple ribonucleoside analogs enables the simultaneous evaluation of RNA synthesis and degradation rates
Metabolic labeling of RNA using multiple ribonucleoside analogs enables the simultaneous evaluation of RNA synthesis and degradation rates Open
Gene expression is determined by a balance between RNA synthesis and RNA degradation. To elucidate the underlying regulatory mechanisms and principles of this, simultaneous measurements of RNA synthesis and degradation are required. Here, …
View article: Vagus nerve stimulation even after injury ameliorates cisplatin-induced nephropathy via reducing macrophage infiltration
Vagus nerve stimulation even after injury ameliorates cisplatin-induced nephropathy via reducing macrophage infiltration Open
View article: Long Non-coding RNAs Involved in Pathogenic Infection
Long Non-coding RNAs Involved in Pathogenic Infection Open
Recently developed technologies have revealed that the genomes of many organisms produce transcripts that do not encode proteins. These are called non-coding RNAs. Long non-coding RNAs (lncRNAs) are important regulators of the expression o…
View article: Stability of RNA sequences derived from the coronavirus genome in human cells
Stability of RNA sequences derived from the coronavirus genome in human cells Open
View article: Systematic Analysis of Targets of Pumilio-Mediated mRNA Decay Reveals that PUM1 Repression by DNA Damage Activates Translesion Synthesis
Systematic Analysis of Targets of Pumilio-Mediated mRNA Decay Reveals that PUM1 Repression by DNA Damage Activates Translesion Synthesis Open
RNA-binding proteins (RBPs) play a pivotal role in gene expression by modulating the stability of transcripts. However, the identification of degradation target mRNAs of RBPs remains difficult. By the combined analysis of transcriptome-wid…
View article: Exploration of <i>Salmonella</i> effector mutant strains on MTR4 and RRP6 degradation
Exploration of <i>Salmonella</i> effector mutant strains on MTR4 and RRP6 degradation Open
Salmonella enterica serovar Typhimurium (Salmonella), a pathogenic bacterium, is a major cause of foodborne diseases worldwide. Salmonella injects multiple virulence factors, called effectors, into cells and causes multiple rearrangements …
View article: The DEAD-box RNA-binding protein DDX6 regulates parental RNA decay for cellular reprogramming to pluripotency
The DEAD-box RNA-binding protein DDX6 regulates parental RNA decay for cellular reprogramming to pluripotency Open
Cellular transitions and differentiation processes require mRNAs supporting the new phenotype but also the clearance of existing mRNAs for the parental phenotype. Cellular reprogramming from fibroblasts to induced pluripotent stem cells (i…
View article: Systematic Analysis of Targets of Pumilio (PUM)-Mediated mRNA Decay Identifies a Role of PUM1 in Regulating DNA Damage Response Pathway
Systematic Analysis of Targets of Pumilio (PUM)-Mediated mRNA Decay Identifies a Role of PUM1 in Regulating DNA Damage Response Pathway Open
Summary RNA-binding proteins (RBPs) play a pivotal role in gene expression by modulating the stability of transcripts; however, the identification of degradation targets of RBPs remains difficult. Here, we identified 48 target mRNAs of hum…
View article: Diminished nuclear <scp>RNA</scp> decay upon <i>Salmonella</i> infection upregulates antibacterial noncoding <scp>RNA</scp> s
Diminished nuclear <span>RNA</span> decay upon <i>Salmonella</i> infection upregulates antibacterial noncoding <span>RNA</span> s Open
View article: Micropeptides Encoded in Transcripts Previously Identified as Long Noncoding RNAs: A New Chapter in Transcriptomics and Proteomics
Micropeptides Encoded in Transcripts Previously Identified as Long Noncoding RNAs: A New Chapter in Transcriptomics and Proteomics Open
Integrative analysis using omics-based technologies results in the identification of a large number of putative short open reading frames (sORFs) with protein-coding capacity within transcripts previously identified as long noncoding RNAs …