MelanogasterProteinsMRNAsMRNA localizationGenesHomologTranscriptsVivoEmbryonic developmentStabilityEscherichiaRibosomalPolymeraseOrthologGene expressionRegulatesRegulatoryEmbryoInteractionsMammalianPolymerasesMotifTumorSignal transductionXenopusDeadenylationEukaryoticSpatialExpressionMechanismCytoplasmicRegulate mRNA translationSynthesisGranulesProcessesINTRONTissuesFunctionalBacterialCyclicMembraneAREsBroadlyRoles
Melanogaster5
- To understand the role of autophagy in the pathogenesis of glial tumors in vivo, an established Drosophila melanogaster model of glioma was used based on overexpression in larval glial cells of an active human EGFR and of the PI3K homolog Pi3K92E /Dp110. (sdbonline.org)
- In the present article, we describe a deep peptidomics workflow which enabled the identification of 401 alternative proteins in Drosophila melanogaster. (biomed.news)
- Apparently distinct mechanisms of de novo lumen formation observed in vitro - in three-dimensional cultures of endothelial and Madin-Darby canine kidney (MDCK) cells - and in vivo - in zebrafish vasculature, Caenorhabditis elegans excretory cells and the Drosophila melanogaster trachea - in fact share many common features. (bvsalud.org)
- The hangover gene defines a cellular stress pathway that is required for rapid ethanol tolerance in Drosophila melanogaster. (sdbonline.org)
- Previous work has established Drosophila melanogaster as a suitable model system to analyze the molecular and neural bases of rapid ethanol tolerance. (sdbonline.org)
Proteins27
- Movement of large molecules such as proteins and RNA through the pores is required for both gene expression and the maintenance of chromosomes. (wikipedia.org)
- Although the interior of the nucleus does not contain any membrane-bound subcompartments, a number of nuclear bodies exist, made up of unique proteins, RNA molecules, and particular parts of the chromosomes. (wikipedia.org)
- In addition, after transcription, a wide array of RNA-binding proteins interacts with cis -acting elements located mainly in the 3' untranslated region, determining the fate of mRNAs in eukaryotic cells. (frontiersin.org)
- Nanos are RNA-binding proteins playing crucial roles in germ cell development and maintenance. (nature.com)
- The Nanos proteins family regroups highly conserved RNA-binding proteins in higher eukaryotes implicated in germ cell development and maintenance. (nature.com)
- These proteins, called alternative proteins, have failed to be annotated notably due to the short length of their open reading frame (less than 100 codons) or the enforced rule establishing that messenger RNAs (mRNAs) are monocistronic. (biomed.news)
- Subcellular localization, protein domains, and short linear motifs were predicted for 235 of the alternative proteins identified and point toward specific functions of these small proteins. (biomed.news)
- Finally, we observed 14 alternative proteins with developmentally regulated expression patterns and 10 induced upon the heat-shock treatment of embryos, demonstrating stage or stress-specific production of alternative proteins. (biomed.news)
- Localizing messenger RNAs at specific subcellular sites is a conserved mechanism for targeting the synthesis of cytoplasmic proteins to distinct subcellular domains, thereby generating the asymmetric protein distributions necessary for cellular and developmental polarity. (bvsalud.org)
- Nuclear mRNA transcripts acquire a protein coat composed of cap- and RNA-binding proteins that allow nuclear export and dictate the functional program of cytoplasmic mRNAs ( Moore, 2005 ). (rupress.org)
- RNA-binding proteins contribute to specificity by interacting with both Ccr4-Not and target mRNAs, but this is not fully understood. (elifesciences.org)
- Numerous fundamental cellular processes, including virtually every aspect of gene expression and regulation, depend on the cooperation of RNAs and proteins. (fu-berlin.de)
- Specific RNAs and proteins associate to build up some of the most complex macromolecular machineries of living cells, such as ribosomes and spliceosomes, which mediate particular steps of gene expression. (fu-berlin.de)
- RNAs and proteins can also engage in more transient interactions, for example during co-transcriptional regulation of RNA polymerases or during post-transcriptional regulation of (pre-)mRNA life cycles. (fu-berlin.de)
- We investigate the molecular mechanisms, by which RNAs and proteins cooperate to bring about the biological functions of selected RNPs involved in transcription and pre-mRNA splicing. (fu-berlin.de)
- Differential RNA-dependent ATPase activities of four rRNA processing yeast DEAD-box proteins. (colorado.edu)
- These genes, encoding for RNA binding proteins, contain a highly conserved RNA recognition motif and at least one DAZ repeat encoding for a 24 amino acids sequence able to bind other mRNA binding proteins. (ijbs.com)
- This family includes three members, Boule (or Boll ), Dazl (or Dazla ) and DAZ , encoding RNA binding proteins. (ijbs.com)
- The localization of DAZ family proteins suggests that they can regulate mRNA translation occurring in the cytoplasm. (ijbs.com)
- These proteins have a highly conserved RNA recognition motif (RRM) for binding target mRNAs and at least one characteristic sequence of 24 amino acids, which are termed as DAZ repeats [ 1 ]. (ijbs.com)
- Dazl can regulate the expression, transport and localization of target mRNAs of proteins which control the differentiation, growth and maturation of germ cells. (ijbs.com)
- Control of eukaryotic messenger RNA synthesis by sequence-specific DNA-binding proteins. (wikidata.org)
- At the sub-cellular scale, maps document the spatial organization of proteins, RNA, DNA, and metabolites with nanometer precision and temporal acuity on the order of seconds. (stanford.edu)
- Ubiquitination is a multifunctional posttranslational modification controlling the activity, subcellular localization and stability of proteins. (cipsm.de)
- Plastid-specific ribosomal proteins (PSRPs) have been proposed to play roles in the light-dependent regulation of chloroplast translation. (cipsm.de)
- m 6 A recruits effector proteins that determine the fate of mRNAs through changes in splicing, cellular localization, stability, and translation efficiency. (molcells.org)
- The m 6 A-modified RNAs then recruit m 6 A-binding proteins (readers) that guide these RNAs for RNA biogenesis processes such as pre-mRNA splicing, nuclear export, stabilization, degradation, and translation. (molcells.org)
MRNAs4
- They can bind to the 3′ untranslated region (3′UTR) of target messenger RNAs (mRNAs) in order to regulate gene expression post-transcriptionally with no sequence specificity but by potential electrostatic interactions with the phosphate backbone of RNA 2 , 3 . (nature.com)
- Puf3 allows Ccr4-Not to select specific mRNAs from a mixture of molecules. (elifesciences.org)
- Many eukaryotic precursor messenger RNAs (pre-mRNAs) bear coding regions (exons) interspersed with non-coding intervening sequences (introns). (fu-berlin.de)
- We propose that the ability of mRNAs to self-sort into homotypic assemblies is an inherent property of an messenger ribonucleoprotein (mRNP) that is augmented under conditions that increase RNA concentration, such as upon enrichment in RNA-protein granules, a process that appears conserved in diverse cellular contexts and organisms. (princeton.edu)
MRNA localization2
- We show that the interphase centrosome does not define spindle orientation in female GSCs and that DSas-4 mutant GSCs [7], lacking centrioles and centrosomes, invariably divide asymmetrically to produce cystoblasts that proceed normally through oogenesis-remarkably, oocyte specification, microtubule organization, and mRNA localization are all unperturbed. (ox.ac.uk)
- We demonstrate that in vivo mRNA localization to granules and self-assembly within granules are governed by different mRNA features: localization is encoded by specific RNA regions, whereas self-assembly involves the entire mRNA, does not involve sequence-specific, ordered intermolecular RNA:RNA interactions, and is thus RNA sequence independent. (princeton.edu)
Genes10
- In Vertebrates, Nanos paralogous genes were associated to partial redundancies and specific functional evolutions. (nature.com)
- In teleostean fish, two nanos1 genes were generated, probably during the Teleost specific whole genome duplication (3R). (nature.com)
- Some miRNAs are hosted in pri-miRNAs annotated as long non-coding RNAs (lncRNAs) and defined as MIRHGs (for miRNA Host Genes). (mdpi.com)
- Isolation and characterization of alternative messenger RNAs coding class I HLA genes. (cnr.it)
- ABSTRACT {Promoters are DNA regions that initiate the transcription of specific genes near the transcription start sites. (giwebb.com)
- A lymphocyte-specific cellular enhancer is located downstream of the joining region in immunoglobulin heavy chain genes. (wikidata.org)
- RNA sequencing of VGLUT+ DA neurons in mice and flies identified candidate genes that we functionally screened to further dissect VGLUT-mediated DA neuron resilience across PD models. (umassmed.edu)
- The Drosophila genome contains two genes( CG8422 and CG1237 0) orthologous to Manduca and Acheta DH-Rs. (silverchair.com)
- New secondary mesenchyme specific genes, expressed exclusively in pigment cells, were isolated from sea urchin embryos using a differential screening of a macroarray cDNA library. (silverchair.com)
- CNPY2 up-regulated gene expression of AR target genes such as KLK3 gene which encodes the prostate specific antigen (PSA) and promoted cell growth of PC cells. (oncotarget.com)
Homolog1
- Interestingly, the resulting hyperplastic glia express high levels of key components of the lysosomal-autophagic compartment, including vacuolar-type H(+)-ATPase (V-ATPase) subunits and ref(2)P (refractory to Sigma P), the Drosophila homolog of SQSTM1/p62. (sdbonline.org)
Transcripts4
- The availability of multiple PAS in the same 3' regulatory region enables the inclusion or exclusion of 3' untranslated region (3'UTR) sequences, resulting in transcripts that may differ in particularities involving post-transcriptional processes such as stability, transport and translation ( Mayr, 2016 ), and even protein localization ( Berkovits and Mayr, 2015 ). (frontiersin.org)
- However, the full range of transcripts that are asymmetrically distributed in specialized cell types, and the significance of their localization, especially in the nervous system, are not known. (bvsalud.org)
- We used the EP-MS2 method, which combines EP transposon insertion with the MS2/MCP in vivo fluorescent labeling system, to screen for novel localized transcripts in polarized cells, focusing on the highly branched Drosophila class IV dendritic arborization neurons. (bvsalud.org)
- MicroRNAs (miRNAs) are small regulatory non-coding RNAs, resulting from the cleavage of long primary transcripts (pri-miRNAs) in the nucleus by the Microprocessor complex generating precursors (pre-miRNAs) that are then exported to the cytoplasm and processed into mature miRNAs. (mdpi.com)
Vivo1
- The α 2 ββ'ω core enzyme cooperates with transcription factors and responds to signals on DNA templates and nascent RNAs to achieve full functionality in vivo . (fu-berlin.de)
Embryonic development1
- To better understand this control, we profiled translational efficiencies and poly(A)-tail lengths throughout Drosophila oocyte maturation and early embryonic development. (elifesciences.org)
Stability1
- Polyadenylation is essential for the stability of the transcript, preventing the mRNA from being the target of posttranscriptional gene silencing (PTGS) via RNA-dependent RNA polymerase 6 (RDR6) in plants ( Luo and Chen, 2007 ). (frontiersin.org)
Escherichia1
- RNP-based processive anti-termination underlies the switching from immediate-early to delayed-early gene expression in other lambdoid phages as well as ribosomal RNA synthesis in Escherichia coli . (fu-berlin.de)
Ribosomal2
- Huang YH, Said N, Loll B, Wahl MC (2019) Structural basis for the function of SuhB as a transcription factor in ribosomal RNA synthesis. (fu-berlin.de)
- A dominant negative mutant of the E. coli RNA helicase DbpA blocks assembly of the 50S ribosomal subunit. (colorado.edu)
Polymerase1
- RNA-based processive anti-termination is exemplified by the polymerase utilization ( put ) signal of phage HK022. (fu-berlin.de)
Ortholog2
- Evidence is provided that Hangover acts as a nuclear RNA binding protein and the phosphodiesterase 4d ortholog dunce as a target RNA. (sdbonline.org)
- The mammalian vesicular glutamate transporter VGLUT2 and Drosophila ortholog dVGLUT have been implicated as modulators of DA neuron resilience. (umassmed.edu)
Gene expression3
- Cytoplasmic RNA granules in germ cells (polar and germinal granules), somatic cells (stress granules and processing bodies), and neurons (neuronal granules) have emerged as important players in the posttranscriptional regulation of gene expression. (rupress.org)
- His work primarily focuses on a step in gene expression referred to as RNA splicing. (unibas.ch)
- Epigenetic modification of the transcribed RNA can be another layer of gene expression regulation. (molcells.org)
Regulates1
- We review the relationship between different classes of these granules and discuss how spatial organization regulates messenger RNA translation/decay. (rupress.org)
Regulatory5
- Bacteria transcribe their genomes with the help of multi-subunit RNA polymerases (RNAPs), which comprise two large β and β' subunits that form the active site, two regulatory α subunits and an ω subunit that supports RNAP assembly. (fu-berlin.de)
- Pausing and termination can be further modulated by elongation factors, such as N-utilization substances A and G. Some regulatory factors or RNAs can stably insulate RNAP from the destabilizing effects of terminators over long distances (processive anti-termination). (fu-berlin.de)
- In these processes, transcript-borne regulatory RNAs alone or in conjunction with protein factors assemble on the surface of RNAP and accompany the enzyme during further transcription by an RNA looping mechanism, rendering the elongation complex resistant to pause and/or termination signals downstream of the original modification site. (fu-berlin.de)
- A regulatory upstream promoter element in the Drosophila hsp 70 heat-shock gene. (wikidata.org)
- Future research will aim at identifying specific inhibitors and/or inducers of UPR regulatory markers as well as expand the list of UPR-related animal models. (molvis.org)
Embryo1
- Shimmi, O., Umulis, D., Othmer, H. & O'Connor, M. B. Facilitated transport of a Dpp/Scw heterodimer by Sog/Tsg leads to robust patterning of the Drosophila blastoderm embryo. (nature.com)
Interactions1
- For this, the Sfmbt protein complex was affinity purified from the nuclear extract, followed by highly specific peptide sequencing (IP/LC-MS). As a result, a number of previously uncharacterized Sfmbt interactions were discovered. (sdbonline.org)
Mammalian1
- These participate in transcriptional/translational feedback loops and many homologous clock-components in the fruit fly Drosophila are also expressed in mammalian clock tissues with circadian rhythms. (bioone.org)
Polymerases1
- In bacteria, promoters are recognized by RNA polymerases and associated sigma factors. (giwebb.com)
Motif2
- Here we show that site-specific mutation of one conserved arginine to glutamine within the RNA recognition motif impairs binding of recombinant AtGRP7 to its pre-mRNA in vitro. (uni-bielefeld.de)
- Auto-regulation of the circadian slave oscillator component AtGRP7 and regulation of its targets is impaired by a single RNA recognition motif point mutation", The Plant Journal , vol. 52, 2007, pp. 1119-1130. (uni-bielefeld.de)
Tumor1
- Tumor specific expression, expression at the earliest stages of tumor development, and direct exposure to blood, suggest that TVMs are ideal biomarkers for both ovarian cancer diagnosis and targeted immunotherapy. (nih.gov)
Signal transduction1
- In this review, we will focus on how the signal transduction pathways, which play key roles in diverse physiological and pathological conditions, coordinate cellular processes through m 6 A. Given that m 6 A also controls signaling pathways through RNA modification or acting as a ligand, understanding the crosstalk between signal transduction networks and m 6 A RNA processing will provide us insights into the complex biological systems. (molcells.org)
Xenopus1
- In Xenopus, zebrafish, and Drosophila the major activation of zygotic transcription occurs as the cell cycle lengthens and gastrulation begins, a developmental period referred to as the midblastula transition. (elifesciences.org)
Deadenylation1
- Here, we reconstitute accelerated and selective deadenylation of RNAs containing AU-rich elements (AREs) and Pumilio-response elements (PREs). (elifesciences.org)
Eukaryotic1
- In addition to the catalytic domain, eukaryotic sirtuins contain variable amino- and carboxy-terminal extensions that regulate their subcellular localizations and catalytic activity. (biomedcentral.com)
Spatial2
- Using MRI-informed RNA profiling, we analyzed ~600,000 single-nucleus and ~55,000 spatial transcriptomes, comparing them against EAE inoculation status, longitudinal radiological signals, and histopathological features. (umassmed.edu)
- With the increasing technical depth of RNA profiling technologies, novel insights have unravelled the spatial diversity exhibited by miRNAs inside a cell. (eurekaselect.com)
Expression2
- Isolation and expression analysis in murine embryos of Dlx5 and Dlx6, two murine homologues of the Drosophila Distal-less gene. (cnr.it)
- We discovered transcription factors modulating dVGLUT-dependent DA neuroprotection and identified dj-1β as a regulator of sex-specific DA neuron dVGLUT expression. (umassmed.edu)
Mechanism1
- indicating a specific site selection mechanism of m 6 A modification. (molcells.org)
Cytoplasmic1
- This study provides insight into how nuclear Hangover/RNA signaling is linked to the cytoplasmic regulation of cAMP levels and results in neuronal adaptation and behavioral changes (Ruppert, 2017). (sdbonline.org)
Regulate mRNA translation1
- Different classes of RNA granules share some protein components and may use similar mechanisms to regulate mRNA translation/decay. (rupress.org)
Synthesis1
- RNA synthesis is terminated intrinsically, when the elongation complex transcribes a stable RNA hairpin followed by a uridine-rich stretch, or with the aid of transcription termination factor ρ. (fu-berlin.de)
Granules1
- Morphological descriptions of RNA granules originated with Metschnikoff (1865) , who described dark staining granules at one pole within Miastor metraloas (fly) larvae. (rupress.org)
Processes1
- This great importance necessitates a better understanding of key biological processes of crustaceans in order to address key bottlenecks in the fishery and aquaculture industries to enable it to meet the ever-growing demand in quality protein [ 6 ], as well as to devise species-specific treatments for invasive species. (biomedcentral.com)
INTRON1
- A tissue-specific transcription enhancer element is located in the major intron of a rearranged immunoglobulin heavy chain gene. (wikidata.org)
Tissues1
- Because wingless ( wg ) plays a similar role in the induction of peripheral eye tissues of Drosophila , these findings indicate a possible conservation of the process that patterns the photoreceptive and support structures of the eye. (biologists.com)
Functional2
- With the rapid development of computational biology and deep sequencing technology, more and more studies have shown that a large number of non-classical open reading frames that have not been annotated and hidden in non-coding RNA can encode functional micropeptide. (biomed.news)
- Signalling then converges to nuclear accumulation of transcriptionally active SMAD complexes and gives rise to a plethora of specific functional responses in both embryos and adult organisms. (nature.com)
Bacterial2
- To date, only a few predictors are available for identifying general bacterial promoters with limited predictive performance.In this study, we developed TIMER, a Siamese neural network-based approach for identifying both general and species-specific bacterial promoters. (giwebb.com)
- Specifically, TIMER uses DNA sequences as the input and employs three Siamese neural networks with the attention layers to train and optimize the models for a total of 13 species-specific and general bacterial promoters. (giwebb.com)
Cyclic1
- two of them play a dual role in cyclic guanosine monophosphate (cGMP) and cAMP signaling, whereas only Dunce (Dnc) is cAMP specific. (sdbonline.org)
Membrane1
- The Drosophila tracheal system, an established tubulogenesis model, contains branched terminal cells with subcellular tubes formed by apical plasma membrane invagination. (bvsalud.org)
AREs1
- Specific signal sequences, AREs for example[ 17 ], can affect the rate at which the poly-adenosine tail is shortened. (berkeley.edu)
Broadly1
- However, the cellular signaling process upon which hang acts remains unclear, and how the broadly expressed hang protein mediates specific behavioral changes in response to global increases of cellular stressors such as ethanol remains an open question (Ruppert, 2017). (sdbonline.org)
Roles1
- The identification of a Drosophila receptor for the DH neuropeptide provides a basis for genetic analysis of this critical factor's roles in maintaining physiological homeostasis. (silverchair.com)