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1.
Genome Biol ; 23(1): 211, 2022 10 12.
Article in English | MEDLINE | ID: mdl-36224582

ABSTRACT

We present two methods for enhancing the efficiency of mitochondrial DNA (mtDNA) editing in mice with DddA-derived cytosine base editors (DdCBEs). First, we fused DdCBEs to a nuclear export signal (DdCBE-NES) to avoid off-target C-to-T conversions in the nuclear genome and improve editing efficiency in mtDNA. Second, mtDNA-targeted TALENs (mitoTALENs) are co-injected into mouse embryos to cleave unedited mtDNA. We generated a mouse model with the m.G12918A mutation in the MT-ND5 gene, associated with mitochondrial genetic disorders in humans. The mutant mice show hunched appearances, damaged mitochondria in kidney and brown adipose tissues, and hippocampal atrophy, resulting in premature death.


Subject(s)
DNA, Mitochondrial , Mitochondrial Diseases , Animals , Cytosine , DNA, Mitochondrial/genetics , Endonucleases/metabolism , Gene Editing/methods , Humans , Mice , Mitochondria/genetics , Mitochondria/metabolism , Mitochondrial Diseases/genetics , Nuclear Export Signals/genetics , Transcription Activator-Like Effector Nucleases/genetics
2.
ACS Synth Biol ; 11(10): 3529-3533, 2022 10 21.
Article in English | MEDLINE | ID: mdl-36180042

ABSTRACT

The optogenetic tool LEXY consists of the second light oxygen voltage (LOV) domain of Avena sativa phototropin 1 mutated to contain a nuclear export signal. It allows exporting from the nucleus with blue light proteins of interest (POIs) genetically fused to it. Mutations slowing the dark recovery rate of the LOV domain within LEXY were recently shown to allow for better depletion of some POIs from the nucleus in Drosophila embryos and for the usage of low light illumination regimes. We investigated these variants in mammalian cells and found they increase the cytoplasmic localization of the proteins we tested after illumination, but also during the dark phases, which corresponds to higher leakiness of the system. These data suggest that, when aiming to sequester into the nucleus a protein with a cytoplasmic function, the original LEXY is preferable. The iLEXY variants are, instead, advantageous when wanting to deplete the nucleus of the POI as much as possible.


Subject(s)
Nuclear Proteins , Phototropins , Animals , Phototropins/genetics , Phototropins/metabolism , Nuclear Proteins/metabolism , Tumor Necrosis Factor Ligand Superfamily Member 14/metabolism , Nuclear Export Signals/genetics , Light , Avena/genetics , Avena/metabolism , Oxygen/metabolism , Mammals/metabolism
3.
Genes Cells ; 27(10): 621-628, 2022 Oct.
Article in English | MEDLINE | ID: mdl-35950937

ABSTRACT

TAP is a general mRNA export receptor and is highly conserved among eukaryotes. The nematode Caenorhabditis elegans has another TAP-like protein, NXF-2, but little is known about its function. In this study, we show that NXF-2 is specifically expressed in germ cells and forms a novel granular structure that is different from that of P granules and that NXF-2 granules are anchored to the nuclear periphery in the mitotic region of the hermaphrodite gonad. In contrast, NXF-2 granules are released within the whole cytoplasm in the meiotic region, where the feminization gene tra-2 starts to function. Both inhibition of XPO-1 (an ortholog of the export receptor CRM1) and mutation of the nuclear export signal of NXF-2 caused the release of NXF-2 granules from the nuclear periphery, indicating that anchoring of NXF-2 granules depends on XPO-1 function. Moreover, inhibition of NXF-2 resulted in a substantial nuclear accumulation of the reporter mRNA carrying the tra-2 3'UTR. These results suggest that, together with XPO-1, NXF-2 exports and anchors tra-2 mRNA to the nuclear periphery to avoid precocious translation until the germ cells reach the meiotic region, thereby contributing to the regulation of tra-2 mRNA expression.


Subject(s)
Caenorhabditis elegans Proteins , Caenorhabditis elegans , 3' Untranslated Regions , Animals , Caenorhabditis elegans/genetics , Caenorhabditis elegans/metabolism , Caenorhabditis elegans Proteins/genetics , Caenorhabditis elegans Proteins/metabolism , Carrier Proteins/metabolism , Germ Cells/metabolism , Membrane Proteins/metabolism , Nuclear Export Signals/genetics , Nucleocytoplasmic Transport Proteins/genetics , Nucleocytoplasmic Transport Proteins/metabolism , RNA, Messenger/genetics , RNA, Messenger/metabolism , RNA-Binding Proteins/genetics , RNA-Binding Proteins/metabolism
4.
Eur J Med Genet ; 65(3): 104441, 2022 Mar.
Article in English | MEDLINE | ID: mdl-35091116

ABSTRACT

Fragile X syndrome (FXS; MIM 300624) is an X-linked genetic disorder characterized by physical abnormalities associated with intellectual disability and a wide spectrum of neurological and psychiatric impairments. FXS occurs more frequently in males, 1 in 5000 males and 1 in 8000 females accounting for 1-2% of overall intellectual disability (ID). In more than 99% of patients, FXS results from expansions of a CGG triplet repeat (>200 in male) of the FMR1 gene. In the last years an increasing number, albeit still limited, of FXS subjects carrying FMR1 mutations including deletions, splicing errors, missense, and nonsense variants was reported. Nevertheless, the studies concerning the functional consequences of mutations in the FMR1 gene are rare so far and, therefore, we do not have sufficient knowledge regarding the genotype/phenotype correlation. We report a child carrying a hemizygous missense FMR1 (NM_002024.5:c.1325G > A p.Arg442Gln) variant, maternally inherited, associated with facial abnormalities, developmental delay, and social and communication deficits assessed with formal neuropsychological tests. The study contributes to highlighting the clinical differences between the CGG triplet repeat dependent phenotype and FMR1variant dependent phenotype and it also confirms the pathogenicity of the variant being reported for the second time in the literature.


Subject(s)
Autism Spectrum Disorder , Fragile X Mental Retardation Protein , Fragile X Syndrome , Intellectual Disability , Autism Spectrum Disorder/complications , Autism Spectrum Disorder/genetics , Female , Fragile X Mental Retardation Protein/genetics , Fragile X Mental Retardation Protein/metabolism , Fragile X Syndrome/genetics , Humans , Intellectual Disability/complications , Intellectual Disability/genetics , Male , Mutation, Missense , Nuclear Export Signals/genetics , Phenotype
5.
J Virol ; 96(1): e0148121, 2022 01 12.
Article in English | MEDLINE | ID: mdl-34643426

ABSTRACT

Porcine parvovirus (PPV) NS1, the major nonstructural protein of this virus, plays an important role in PPV replication. We show, for the first time, that NS1 dynamically shuttles between the nucleus and cytoplasm, although its subcellular localization is predominantly nuclear. NS1 contains two nuclear export signals (NESs) at amino acids 283 to 291 (designated NES2) and amino acids 602 to 608 (designated NES1). NES1 and NES2 are both functional and transferable NESs, and their nuclear export activity is blocked by leptomycin B (LMB), suggesting that the export of NS1 from the nucleus is dependent upon the chromosome region maintenance 1 (CRM1) pathway. Deletion and site-directed mutational analyses showed that NS1 contains a bipartite nuclear localization signal (NLS) at amino acids 256 to 274. Coimmunoprecipitation assays showed that NS1 interacts with importins α5 and α7 through its NLS. The overexpression of CRM1 and importins α5 and α7 significantly promoted PPV replication, whereas the inhibition of CRM1- and importin α/ß-mediated transport by specific inhibitors (LMB, importazole, and ivermectin) clearly blocked PPV replication. The mutant viruses with deletions of the NESs or NLS motif of NS1 by using reverse genetics could not be rescued, suggesting that the NESs and NLS are essential for PPV replication. Collectively, these findings suggest that NS1 shuttles between the nucleus and cytoplasm, mediated by its functional NESs and NLS, via the CRM1-dependent nuclear export pathway and the importin α/ß-mediated nuclear import pathway, and PPV proliferation was inhibited by blocking NS1 nuclear import or export. IMPORTANCE PPV replicates in the nucleus, and the nuclear envelope is a barrier to its entry into and egress from the nucleus. PPV NS1 is a nucleus-targeting protein that is important for viral DNA replication. Because the NS1 molecule is large (>50 kDa), it cannot pass through the nuclear pore complex by diffusion alone and requires specific transport receptors to permit its nucleocytoplasmic shuttling. In this study, the two functional NESs in the NS1 protein were identified, and their dependence on the CRM1 pathway for nuclear export was demonstrated. The nuclear import of NS1 utilizes importins α5 and α7 in the importin α/ß nuclear import pathway.


Subject(s)
Host-Pathogen Interactions , Karyopherins/metabolism , Parvoviridae Infections/veterinary , Parvovirus, Porcine/physiology , Receptors, Cytoplasmic and Nuclear/metabolism , Swine Diseases/metabolism , Swine Diseases/virology , Viral Nonstructural Proteins/metabolism , Animals , Cell Line , Cell Nucleus/metabolism , Cells, Cultured , Cytoplasm/metabolism , Fluorescent Antibody Technique , Humans , Karyopherins/genetics , Mice , Nuclear Export Signals/genetics , Protein Binding , Protein Transport , Receptors, Cytoplasmic and Nuclear/genetics , Swine , Viral Nonstructural Proteins/genetics , Virus Replication , Exportin 1 Protein
6.
Genes (Basel) ; 12(9)2021 09 16.
Article in English | MEDLINE | ID: mdl-34573408

ABSTRACT

Nucleophosmin (NPM1) mutations occurring in acute myeloid leukemia (AML) (about 50 so far identified) cluster almost exclusively in exon 12 and lead to common changes at the NPM1 mutants C-terminus, i.e., loss of tryptophans 288 and 290 (or 290 alone) and creation of a new nuclear export signal (NES), at the bases of exportin-1(XPO1)-mediated aberrant cytoplasmic NPM1. Immunohistochemistry (IHC) detects cytoplasmic NPM1 and is predictive of the molecular alteration. Besides IHC and molecular sequencing, Western blotting (WB) with anti-NPM1 mutant specific antibodies is another approach to identify NPM1-mutated AML. Here, we show that among 382 AML cases with NPM1 exon 12 mutations, one was not recognized by WB, and describe the discovery of a novel combination of two mutations involving exon 12. This appeared as a conventional mutation A with the known TCTG nucleotides insertion/duplication accompanied by a second event (i.e., an 8-nucleotide deletion occurring 15 nucleotides downstream of the TCTG insertion), resulting in a new C-terminal protein sequence. Strikingly, the sequence included a functional NES ensuring cytoplasmic relocation of the new mutant supporting the role of cytoplasmic NPM1 as critical in AML leukemogenesis.


Subject(s)
Leukemia, Myeloid, Acute , Nuclear Export Signals/genetics , Nucleophosmin/genetics , Active Transport, Cell Nucleus/genetics , Aged , Animals , Cells, Cultured , Cytoplasm/metabolism , Humans , Immunohistochemistry , Leukemia, Myeloid, Acute/genetics , Leukemia, Myeloid, Acute/metabolism , Leukemia, Myeloid, Acute/pathology , Male , Mice , Mutation , NIH 3T3 Cells , Nucleophosmin/chemistry , Nucleophosmin/metabolism , Protein Transport/genetics
7.
STAR Protoc ; 2(3): 100649, 2021 09 17.
Article in English | MEDLINE | ID: mdl-34278335

ABSTRACT

The cyclic GMP-AMP synthase (cGAS) is the principal DNA sensor, which binds DNA and triggers the type I interferon production. We used ISD45 or inactivated Vaccinia Virus (VACV) to stimulate cGAS and monitored cellular localization by immunofluorescence microscopy, Operetta high-content screening, and cytoplasmic/nuclear fractionation. LocNES server was used to predict cGAS nuclear export signal (NES) sequence and characterized the function by mutagenesis. This protocol provides a prototype of cGAS subcellular distribution or the identification of NES in other proteins. For complete details on the use and execution of this protocol, please refer to Sun et al. Sun et al. (2021).


Subject(s)
Microscopy, Fluorescence/methods , Molecular Biology/methods , Nuclear Export Signals/physiology , Nucleotidyltransferases/metabolism , Animals , Green Fluorescent Proteins/genetics , Green Fluorescent Proteins/metabolism , HeLa Cells , Humans , Mammals , Mutagenesis , Nuclear Export Signals/genetics , Nucleotidyltransferases/genetics , Vaccinia virus/genetics
8.
Oncogene ; 40(12): 2243-2257, 2021 03.
Article in English | MEDLINE | ID: mdl-33649538

ABSTRACT

Mdm2 antagonizes the tumor suppressor p53. Targeting the Mdm2-p53 interaction represents an attractive approach for the treatment of cancers with functional p53. Investigating mechanisms underlying Mdm2-p53 regulation is therefore important. The scaffold protein ß-arrestin2 (ß-arr2) regulates tumor suppressor p53 by counteracting Mdm2. ß-arr2 nucleocytoplasmic shuttling displaces Mdm2 from the nucleus to the cytoplasm resulting in enhanced p53 signaling. ß-arr2 is constitutively exported from the nucleus, via a nuclear export signal, but mechanisms regulating its nuclear entry are not completely elucidated. ß-arr2 can be SUMOylated, but no information is available on how SUMO may regulate ß-arr2 nucleocytoplasmic shuttling. While we found ß-arr2 SUMOylation to be dispensable for nuclear import, we identified a non-covalent interaction between SUMO and ß-arr2, via a SUMO interaction motif (SIM), that is required for ß-arr2 cytonuclear trafficking. This SIM promotes association of ß-arr2 with the multimolecular RanBP2/RanGAP1-SUMO nucleocytoplasmic transport hub that resides on the cytoplasmic filaments of the nuclear pore complex. Depletion of RanBP2/RanGAP1-SUMO levels result in defective ß-arr2 nuclear entry. Mutation of the SIM inhibits ß-arr2 nuclear import, its ability to delocalize Mdm2 from the nucleus to the cytoplasm and enhanced p53 signaling in lung and breast tumor cell lines. Thus, a ß-arr2 SIM nuclear entry checkpoint, coupled with active ß-arr2 nuclear export, regulates its cytonuclear trafficking function to control the Mdm2-p53 signaling axis.


Subject(s)
GTPase-Activating Proteins/genetics , Neoplasms/genetics , Proto-Oncogene Proteins c-mdm2/genetics , SUMO-1 Protein/genetics , Tumor Suppressor Protein p53/genetics , beta-Arrestin 2/genetics , Cell Line, Tumor , Cell Nucleus/genetics , Cell Nucleus/metabolism , Cytoskeleton/genetics , Cytoskeleton/metabolism , Humans , Mutation/genetics , Neoplasms/drug therapy , Neoplasms/pathology , Nuclear Export Signals/genetics , Signal Transduction/genetics , Sumoylation/genetics
9.
Gene ; 768: 145298, 2021 Feb 05.
Article in English | MEDLINE | ID: mdl-33181255

ABSTRACT

Fragile X syndrome (FXS) is the most common monogenetic cause of intellectual disability and autism spectrum disorders. Mostly, FXS is caused by transcriptional silencing of the FMR1 gene due to a repeat expansion in the 5' UTR, and consequently lack of the protein product FMRP. However, in rare cases FXS is caused by other types of variants in the FMR1 gene. We describe a missense variant in the FMR1 gene, identified through whole-exome sequencing, in a boy with intellectual disability and behavioral problems. The variant is located in the FMRP's nuclear export signal (NES). We performed expression and localization studies of the variant in hair roots and HEK293 cells. Our results show normal expression but significant retention of the FMRP in the cells' nucleus. This finding suggests a possible FMRP reduction at its essential functional sites in the dendrites and the synaptic compartments and possible interference of other cellular processes in the nucleus. Together, this might lead to a FXS phenotype in the boy.


Subject(s)
Fragile X Mental Retardation Protein/genetics , Intellectual Disability/genetics , Mutation, Missense/genetics , Nuclear Export Signals/genetics , 5' Untranslated Regions/genetics , Cell Line , Female , Fragile X Syndrome/genetics , HEK293 Cells , Humans , Male , Phenotype , Exome Sequencing/methods
10.
Biochim Biophys Acta Mol Cell Res ; 1868(1): 118862, 2021 01.
Article in English | MEDLINE | ID: mdl-32979422

ABSTRACT

Spastin, a microtubule-severing AAA ATPase, regulates microtubule dynamics and plays important roles in cell division and neurogenesis. Mutations in the spastin-coding gene SPAST lead to neurodegenerative disorders and cause spastic paraplegia type 4. Spastin has two main isoforms, M1 and M87, that differ only in the presence or absence of 86 N-terminal amino acids and have alternative splicing variants that lack exon4. The N-terminal region of M1 contains a hydrophobic domain, nuclear localization signal (NLS), and nuclear export signal (NES), which partly explains the differences in the two isoforms' localization. However, the mechanisms involved in regulating isoform localization, and the effects of localization on spastin functions are not fully understood. We found endogenous M1 and M87 shuttled between the nucleus and cytoplasm during the cell cycle. We identified a NES (amino acids 195-204) that spans the microtubule-interacting and endosomal-trafficking domain and exon4 region. Furthermore, the NES sequence contains both the coiled-coil and exon4 region of spastin isoforms. Highly conserved leucine 195 in exon3 and the two residues in exon4 are crucial for predicted coiled-coil formation. Mutations in NES or leptomycin B treatment reduced cytoplasmic localization and microtubule fragmentation in M87 rather than in M1. Phosphomimetic mutation of threonine 306 adjacent to the NLS (amino acids 309-312) inhibited nuclear transport of M87. Our results indicate that the newly identified NES in the spastin isoforms containing exon4 regulates the subcellular localization of spastin in coordination with NLS controlled by the phosphorylation state of spastin, and is involved in microtubule severing.


Subject(s)
Active Transport, Cell Nucleus/genetics , Microtubules/genetics , Spastic Paraplegia, Hereditary/genetics , Spastin/genetics , Adenosine Triphosphatases/genetics , Cell Cycle/genetics , Cell Nucleus/genetics , Cells, Cultured , Cytoplasm/genetics , Exons/genetics , Humans , Mutation/genetics , Nuclear Export Signals/genetics , Spastic Paraplegia, Hereditary/metabolism , Spastic Paraplegia, Hereditary/pathology
11.
Elife ; 92020 11 04.
Article in English | MEDLINE | ID: mdl-33146608

ABSTRACT

Overproduction (op) of proteins triggers cellular defects. One of the consequences of overproduction is the protein burden/cost, which is produced by an overloading of the protein synthesis process. However, the physiology of cells under a protein burden is not well characterized. We performed genetic profiling of protein burden by systematic analysis of genetic interactions between GFP-op, surveying both deletion and temperature-sensitive mutants in budding yeast. We also performed genetic profiling in cells with overproduction of triple-GFP (tGFP), and the nuclear export signal-containing tGFP (NES-tGFP). The mutants specifically interacted with GFP-op were suggestive of unexpected connections between actin-related processes like polarization and the protein burden, which was supported by morphological analysis. The tGFP-op interactions suggested that this protein probe overloads the proteasome, whereas those that interacted with NES-tGFP involved genes encoding components of the nuclear export process, providing a resource for further analysis of the protein burden and nuclear export overload.


Subject(s)
Active Transport, Cell Nucleus/genetics , Nuclear Export Signals/genetics , Proteasome Endopeptidase Complex , Saccharomyces cerevisiae Proteins/metabolism , Saccharomyces cerevisiae/genetics , Cell Nucleus/metabolism , Genetic Profile , Genomics , Green Fluorescent Proteins , Mutation , Protein Biosynthesis/genetics , Saccharomyces cerevisiae/metabolism , Saccharomyces cerevisiae Proteins/genetics
12.
Mol Biol Cell ; 31(17): 1879-1891, 2020 08 01.
Article in English | MEDLINE | ID: mdl-32520643

ABSTRACT

The E571K mutation of CRM1 is highly prevalent in some cancers, but its mechanism of tumorigenesis is unclear. Glu571 of CRM1 is located in its nuclear export signal (NES)-binding groove, suggesting that binding of select NESs may be altered. We generated HEK 293 cells with either monoallelic CRM1WT/E571K or biallelic CRM1E571K/E571K using CRISPR/Cas9. We also combined analysis of binding affinities and structures of 27 diverse NESs for wild-type and E571K CRM1 with structure-based bioinformatics. While most NESs bind the two CRM1 similarly, NESs from Mek1, eIF4E-transporter, and RPS2 showed >10-fold affinity differences. These NESs have multiple charged side chains binding close to CRM1 position 571, but this feature alone was not sufficient to predict different binding to CRM1(E571K). Consistent with eIF4E-transporter NES binding weaker to CRM1(E571K), eIF4E-transporter was mislocalized in tumor cells carrying CRM1(E571K). This serves as proof of concept that understanding how CRM1(E571K) affects NES binding provides a platform for identifying cargoes that are mislocalized in cancer upon CRM1 mutation. Finally, we showed that large affinity changes seen with some NES peptides (of Mek1 and RPS2) do not always translate to the full-length cargoes, suggesting limitations with current NES prediction methods. Therefore, comprehensive studies like ours are imperative to identify CRM1 cargoes with real pathogenic potential.


Subject(s)
Karyopherins/genetics , Nuclear Export Signals/genetics , Receptors, Cytoplasmic and Nuclear/genetics , Active Transport, Cell Nucleus , Amino Acid Sequence/genetics , Cell Nucleus/metabolism , Crystallography, X-Ray/methods , HEK293 Cells , Humans , Karyopherins/metabolism , MAP Kinase Kinase 1/metabolism , Models, Molecular , Mutation/genetics , Nucleocytoplasmic Transport Proteins/metabolism , Protein Binding/genetics , Receptors, Cytoplasmic and Nuclear/metabolism , Ribosomal Proteins/metabolism , ran GTP-Binding Protein/genetics , ran GTP-Binding Protein/metabolism , Exportin 1 Protein
13.
FEBS Lett ; 594(10): 1596-1607, 2020 05.
Article in English | MEDLINE | ID: mdl-32052428

ABSTRACT

Replication protein A (RPA), a heterotrimeric complex, is the major single-stranded DNA binding protein in eukaryotes. Recently, we characterized RPA from Trypanosoma cruzi, showing that it is involved in DNA replication and DNA damage response in this organism. Better efficiency in differentiation from epimastigote to metacyclic trypomastigote forms was observed in TcRPA-2 subunit heterozygous knockout cells, suggesting that RPA is involved in this process. Here, we show that RPA cellular localization changes during the T. cruzi life cycle, with RPA being detected only in the cytoplasm of the metacyclic and bloodstream trypomastigotes. We also identify a nuclear export signal (NES) in the trypanosomatid RPA-2 subunit. Mutations in the negatively charged residues of RPA-2 NES impair the differentiation process, suggesting that RPA exportation affects parasite differentiation into infective forms.


Subject(s)
Cell Nucleus/metabolism , Life Cycle Stages , Morphogenesis , Replication Protein A/metabolism , Trypanosoma cruzi/growth & development , Trypanosoma cruzi/metabolism , Active Transport, Cell Nucleus , Amino Acid Sequence , Animals , Chagas Disease/blood , Chagas Disease/parasitology , Computer Simulation , Cytoplasm/metabolism , Morphogenesis/genetics , Nuclear Export Signals/genetics , Nuclear Export Signals/physiology , Replication Protein A/genetics , Trypanosoma cruzi/cytology
14.
J Cell Sci ; 133(4)2020 02 24.
Article in English | MEDLINE | ID: mdl-32005696

ABSTRACT

USP16 (also known as UBP-M) has emerged as a histone H2AK119 deubiquitylase (DUB) implicated in the regulation of chromatin-associated processes and cell cycle progression. Despite this, available evidence suggests that this DUB is also present in the cytoplasm. How the nucleo-cytoplasmic transport of USP16, and hence its function, is regulated has remained elusive. Here, we show that USP16 is predominantly cytoplasmic in all cell cycle phases. We identified the nuclear export signal (NES) responsible for maintaining USP16 in the cytoplasm. We found that USP16 is only transiently retained in the nucleus following mitosis and then rapidly exported from this compartment. We also defined a non-canonical nuclear localization signal (NLS) sequence that plays a minimal role in directing USP16 into the nucleus. We further established that this DUB does not accumulate in the nucleus following DNA damage. Instead, only enforced nuclear localization of USP16 abolishes DNA double-strand break (DSB) repair, possibly due to unrestrained DUB activity. Thus, in contrast to the prevailing view, our data indicate that USP16 is actively excluded from the nucleus and that this DUB might indirectly regulate DSB repair.This article has an associated First Person interview with the first author of the paper.


Subject(s)
Cell Nucleus , Nuclear Export Signals , Active Transport, Cell Nucleus , Cell Nucleus/genetics , Cell Nucleus/metabolism , Cytoplasm/genetics , Cytoplasm/metabolism , Interphase , Nuclear Export Signals/genetics , Nuclear Localization Signals/genetics , Nuclear Localization Signals/metabolism
15.
Elife ; 82019 11 22.
Article in English | MEDLINE | ID: mdl-31755865

ABSTRACT

We previously demonstrated that CRM1, a major nuclear export factor, accumulates at Hox cluster regions to recruit nucleoporin-fusion protein Nup98HoxA9, resulting in robust activation of Hox genes (Oka et al., 2016). However, whether this phenomenon is general to other leukemogenic proteins remains unknown. Here, we show that two other leukemogenic proteins, nucleoporin-fusion SET-Nup214 and the NPM1 mutant, NPM1c, which contains a nuclear export signal (NES) at its C-terminus and is one of the most frequent mutations in acute myeloid leukemia, are recruited to the HOX cluster region via chromatin-bound CRM1, leading to HOX gene activation in human leukemia cells. Furthermore, we demonstrate that this mechanism is highly sensitive to a CRM1 inhibitor in leukemia cell line. Together, these findings indicate that CRM1 acts as a key molecule that connects leukemogenic proteins to aberrant HOX gene regulation either via nucleoporin-CRM1 interaction (for SET-Nup214) or NES-CRM1 interaction (for NPM1c).


Subject(s)
Karyopherins/genetics , Leukemia, Myeloid, Acute/genetics , Nuclear Pore Complex Proteins/genetics , Nuclear Proteins/genetics , Receptors, Cytoplasmic and Nuclear/genetics , Active Transport, Cell Nucleus/genetics , Cell Line, Tumor , Cell Nucleus/genetics , Chromatin/genetics , Cytoplasm/genetics , DNA-Binding Proteins/genetics , Gene Expression Regulation, Leukemic/genetics , Histone Chaperones/genetics , Homeodomain Proteins/genetics , Humans , Leukemia, Myeloid, Acute/pathology , Mutation/genetics , Nuclear Export Signals/genetics , Nucleophosmin , Exportin 1 Protein
16.
Biochim Biophys Acta Mol Cell Res ; 1866(10): 1520-1532, 2019 10.
Article in English | MEDLINE | ID: mdl-31326540

ABSTRACT

Activation and repression of Notch target genes is mediated by transcription factor CSL, known as Suppressor of Hairless (Su(H)) in Drosophila and CBF1 or RBPJ in human. CSL associates either with co-activator Notch or with co-repressors such as Drosophila Hairless. The nuclear translocation of transcription factor CSL relies on co-factor association, both in mammals and in Drosophila. The Drosophila CSL orthologue Su(H) requires Hairless for repressor complex formation. Based on its role in transcriptional silencing, H protein would be expected to be strictly nuclear. However, H protein is also cytosolic, which may relate to its role in the stabilization and nuclear translocation of Su(H) protein. Here, we investigate the function of the predicted nuclear localization signals (NLS 1-3) and single nuclear export signal (NES) of co-repressor Hairless using GFP-fusion proteins, reporter assays and in vivo analyses using Hairless wild type and shuttling-defective Hairless mutants. We identify NLS3 and NES to be critical for Hairless function. In fact, H⁎NLS3 mutant flies match H null mutants, whereas H⁎NLS3⁎NES double mutants display weaker phenotypes in agreement with a crucial role for NES in H export. As expected for a transcriptional repressor, Notch target genes are deregulated in H⁎NLS3 mutant cells, demonstrating nuclear requirement for its activity. Importantly, we reveal that Su(H) protein strictly follows Hairless protein localization. Together, we propose that shuttling between the nucleo-cytoplasmic compartments provides the possibility to fine tune the regulation of Notch target gene expression by balancing of Su(H) protein availability for Notch activation.


Subject(s)
Cytoplasm/metabolism , Drosophila Proteins/metabolism , Drosophila melanogaster/genetics , Drosophila melanogaster/metabolism , Receptors, Notch/metabolism , Transcription Factors/metabolism , Animals , Drosophila Proteins/genetics , Female , Nuclear Export Signals/genetics , Nuclear Localization Signals/genetics , Phenotype , Receptors, Notch/genetics , Transcription Factors/genetics , Wings, Animal/growth & development
17.
Sci Rep ; 9(1): 6627, 2019 04 29.
Article in English | MEDLINE | ID: mdl-31036839

ABSTRACT

Nuclear export signal (NES) motifs function as essential regulators of the subcellular location of proteins by interacting with the major nuclear exporter protein, CRM1. Prediction of NES is of great interest in many aspects of research including cancer, but currently available methods, which are mostly based on the sequence-based approaches, have been suffered from high false positive rates since the NES consensus patterns are quite commonly observed in protein sequences. Therefore, finding a feature that can distinguish real NES motifs from false positives is desired to improve the prediction power, but it is quite challenging when only using the sequence. Here, we provide a comprehensive table for the validated cargo proteins, containing the location of the NES consensus patterns with the disordered propensity plots, known protein domain information, and the predicted secondary structures. It could be useful for determining the most plausible NES region in the context of the whole protein sequence and suggests possibilities for some non-binders of the annotated regions. In addition, using the currently available crystal structures of CRM1 bound to various classes of NES peptides, we adopted, for the first time, the structure-based prediction of the NES motifs bound to the CRM1's binding groove. Combining sequence-based and structure-based predictions, we suggest a novel and more straight-forward approach to identify CRM1-binding NES sequences by analysis of their structural prerequisites and energetic evaluation of the stability at the CRM1's binding site.


Subject(s)
Active Transport, Cell Nucleus/physiology , Cell Nucleus/metabolism , Nuclear Export Signals/physiology , Active Transport, Cell Nucleus/genetics , Binding Sites , Humans , Hydrogen Bonding , Hydrophobic and Hydrophilic Interactions , Nuclear Export Signals/genetics , Protein Binding , Protein Structure, Secondary , Receptors, Cytoplasmic and Nuclear/chemistry , Receptors, Cytoplasmic and Nuclear/metabolism
18.
Cell Mol Life Sci ; 76(4): 809-825, 2019 Feb.
Article in English | MEDLINE | ID: mdl-30535970

ABSTRACT

Hypoxia is frequently encountered in the microenvironment of solid tumors. Hypoxia-inducible factors (HIFs), the main effectors of cell response to hypoxia, promote cancer cell survival and progression. HIF-1α, the oxygen-regulated subunit of HIF-1, is often correlated with oncogenesis and represents an attractive therapeutic target. We have previously reported that activation HIF-1α by ERK involves modification of two serine residues and masking of a nuclear export signal (NES), all inside a 43-amino acid domain termed ERK Targeted Domain (ETD). Overexpression of ETD variants including wild-type, phospho-mimetic (SE) or NES-less (IA) mutant forms caused HIF-1 inactivation in two hepatocarcinoma cell lines, while a phospho-deficient (SA) form was ineffective and acted as a sequence-specific negative control. To deliver these ETD forms directly into cancer cells, they were fused to the HIV TAT-sequence and produced as cell-permeable peptides. When the TAT-ETD peptides were added to the culture medium of Huh7 cells, they entered the cells and, with the exception of ETD-SA, accumulated inside the nucleus, caused mislocalization of endogenous HIF-1α to the cytoplasm, significant reduction of HIF-1 activity and inhibition of expression of specific HIF-1, but not HIF-2, gene targets under hypoxia. More importantly, transduced nuclear TAT-ETD peptides restricted migration, impaired colony formation and triggered apoptotic cell death of cancer cells grown under hypoxia, while they produced no effects in normoxic cells. These data demonstrate the importance of ERK-mediated activation of HIF-1 for low oxygen adaptation and the applicability of ETD peptide derivatives as sequence-specific HIF-1 and cancer cell growth inhibitors under hypoxia.


Subject(s)
Apoptosis/physiology , Cell-Penetrating Peptides/metabolism , Extracellular Signal-Regulated MAP Kinases/metabolism , Hypoxia-Inducible Factor 1, alpha Subunit/metabolism , Amino Acid Sequence , Apoptosis/drug effects , Apoptosis/genetics , Cell Hypoxia , Cell Line, Tumor , Cell-Penetrating Peptides/genetics , Cell-Penetrating Peptides/pharmacology , Extracellular Signal-Regulated MAP Kinases/genetics , Gene Expression Regulation, Neoplastic/drug effects , HeLa Cells , Hep G2 Cells , Humans , Hypoxia-Inducible Factor 1, alpha Subunit/genetics , Neoplasms/genetics , Neoplasms/metabolism , Neoplasms/pathology , Nuclear Export Signals/genetics , Recombinant Fusion Proteins/genetics , Recombinant Fusion Proteins/metabolism , Recombinant Fusion Proteins/pharmacology , Sequence Homology, Amino Acid , tat Gene Products, Human Immunodeficiency Virus/genetics
19.
Viruses ; 10(4)2018 04 20.
Article in English | MEDLINE | ID: mdl-29677136

ABSTRACT

NOP53 is a tumor suppressor protein located in the nucleolus and is translocated to the cytoplasm during infection by vesicular stomatitis virus (VSV) and herpes simplex virus type 1 (HSV-1), as shown in our previous study. Cytoplasmic NOP53 interacts with the retinoic acid-inducible gene I (RIG-I) to remove its K63-linked ubiquitination, leading to attenuation of type I interferon IFN-β. In the present study, we found no obvious translocation of NOP53 in infection by a mutant virus lacking ICP4 (HSV-1/d120, replication inadequate). Blocking cytoplasmic translocation of NOP53 by the deletion of its nuclear export sequence (NES) abrogated its ability to support viral replication. These results demonstrated that NOP53 redistribution is related to viral replication. It is interesting that treatment with poly (I:C) or RIG-I-N (a constitutively-active variant) directly induced NOP53 cytoplasmic translocation. To better assess the function of cytoplasmic NOP53 in viral replication, the NOP53-derived protein N3-T, which contains a human immunodeficiency virus (HIV)-derived cell-penetrating Tat peptide at the C-terminal region of N3 (residues 330⁻432), was constructed and expressed. The recombinant N3-T protein formed trimers, attenuated the expression of IFN-β and IFN-stimulated genes, as well as decreased the phosphorylation level of interferon regulatory factor 3 (IRF3). Furthermore, N3-T promoted the efficient replication of enveloped and non-enveloped DNA and RNA viruses belonging to 5 families. Our findings expand the understanding of the mechanism by which viruses utilize the nucleolar protein NOP53 for optimal viral replication.


Subject(s)
Cytoplasm/metabolism , Host-Pathogen Interactions/immunology , Nuclear Proteins/metabolism , Tumor Suppressor Proteins/metabolism , Virus Replication , Animals , Cell Line , Cell-Penetrating Peptides/chemistry , DEAD Box Protein 58/genetics , Down-Regulation/drug effects , Herpesvirus 1, Human/genetics , Herpesvirus 1, Human/physiology , Humans , Interferon Regulatory Factor-3/metabolism , Interferon-beta/genetics , Nuclear Export Signals/genetics , Nuclear Proteins/chemistry , Nuclear Proteins/genetics , Nuclear Proteins/immunology , Phosphorylation/drug effects , Poly I-C/pharmacology , Recombinant Fusion Proteins/chemistry , Recombinant Fusion Proteins/genetics , Recombinant Fusion Proteins/metabolism , Recombinant Fusion Proteins/pharmacology , Sequence Deletion , Tumor Suppressor Proteins/chemistry , Tumor Suppressor Proteins/genetics , tat Gene Products, Human Immunodeficiency Virus/chemistry
20.
Biochim Biophys Acta Mol Basis Dis ; 1864(7): 2385-2394, 2018 Jul.
Article in English | MEDLINE | ID: mdl-29704611

ABSTRACT

Glucokinase (GCK) plays a key role in glucose homeostasis. Heterozygous inactivating mutations in the GCK gene cause the familial, mild fasting hyperglycaemia named MODY2. Besides its particular kinetic characteristics, glucokinase is regulated by subcellular compartmentation in hepatocytes. Glucokinase regulatory protein (GKRP) binds to GCK, leading to enzyme inhibition and import into the nucleus at fasting. When glucose concentration increases, GCK-GKRP dissociates and GCK is exported to the cytosol due to a nuclear export signal (NES). With the aim to characterize the GCK-NES, we have functionally analysed nine MODY2 mutations located within the NES sequence. Recombinant GCK mutants showed reduced catalytic activity and, in most cases, protein instability. Most of the mutants interact normally with GKRP, although mutations L306R and L309P impair GCK nuclear import in cotransfected cells. We demonstrated that GCK-NES function depends on exportin 1. We further showed that none of the mutations fully inactivate the NES, with the exception of mutation L304P, which likely destabilizes its α-helicoidal structure. Finally, we found that residue Glu300 negatively modulates the NES activity, whereas other residues have the opposite effect, thus suggesting that some of the NES spacer residues contribute to the low affinity of the NES for exportin 1, which is required for its proper functioning. In conclusion, our results have provided functional and structural insights regarding the GCK-NES and contributed to a better knowledge of the molecular mechanisms involved in the nucleo-cytoplasmic shuttling of glucokinase. Impairment of this regulatory mechanism by some MODY2 mutations might contribute to the hyperglycaemia in the patients.


Subject(s)
Cell Nucleus/enzymology , Cytoplasm/enzymology , Diabetes Mellitus, Type 2 , Glucokinase , Hepatocytes/enzymology , Mutation, Missense , Nuclear Export Signals/genetics , Adult , Amino Acid Substitution , Cell Nucleus/pathology , Cytoplasm/pathology , Diabetes Mellitus, Type 2/enzymology , Diabetes Mellitus, Type 2/genetics , Female , Glucokinase/genetics , Glucokinase/metabolism , HEK293 Cells , Humans , Karyopherins/genetics , Karyopherins/metabolism , Receptors, Cytoplasmic and Nuclear/genetics , Receptors, Cytoplasmic and Nuclear/metabolism , Exportin 1 Protein
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