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60,686 results
  • Nuclear immunophilin FKBP39 from Drosophila melanogaster drives spontaneous liquid-liquid phase separation. [Journal Article]
    Int J Biol Macromol. 2020 Jun 29 [Online ahead of print]Tarczewska A, Wycisk K, … Ożyhar A
  • The FKBP39 from Drosophila melanogaster is a multifunctional regulatory immunophilin. It contains two globular domains linked by a highly charged disordered region. The N-terminal domain shows homology to the nucleoplasmin core domain, and the C-terminal domain is characteristic for the family of the FKBP immunophilin ligand binding domain. The specific partially disordered structure of the prote…
  • Disome and Trisome Profiling Reveal Genome-wide Targets of Ribosome Quality Control. [Journal Article]
    Mol Cell. 2020 Jun 27 [Online ahead of print]Meydan S, Guydosh NR
  • The ribosome-associated protein quality control (RQC) system that resolves stalled translation events is activated when ribosomes collide and form disome, trisome, or higher-order complexes. However, it is unclear whether this system distinguishes collision complexes formed on defective mRNAs from those with functional roles on endogenous transcripts. Here, we performed disome and trisome footpri…
  • RNA-Sequencing and Bioinformatics Analysis of Long Noncoding RNAs and mRNAs in the asthenozoospermia. [Journal Article]
    Biosci Rep. 2020 Jul 02 [Online ahead of print]Lu H, Xu D, … Ma Y
  • Asthenozoospermia is one of the major causes of human male infertility. Long non-coding RNAs (lncRNAs) play critical roles in the spermatogenesis processes. This study aims to investigate the intricate regulatory network associated with asthenozoospermia. The lncRNAs expression profile was analyzed in the asthenozoospermia seminal plasma exosomes by RNA-sequencing, and the functions of differenti…
  • Molecular identification of Cryptosporidium spp. in alpacas (Vicugna pacos) in China. [Journal Article]
    Int J Parasitol Parasites Wildl. 2020 Aug; 12:181-184.Zhang Q, Li J, … Qi M
  • Cryptosporidium is a ubiquitous protozoan in human and animals. To investigate the genetic diversity of Cryptosporidium spp. in alpaca (Vicugna pacos) in China, 484 fecal samples from alpacas were collected at nine sites, and Cryptosporidium spp. were screened with PCR amplification of the small subunit ribosome RNA (SSU rRNA) locus. Cryptosporidium spp. infected 2.9% (14/484) of the alpacas. Of …
  • Cryo-EM of elongating ribosome with EF-Tu•GTP elucidates tRNA proofreading. [Journal Article]
    Nature. 2020 Jul 01 [Online ahead of print]Loveland AB, Demo G, Korostelev AA
  • Ribosomes accurately decode mRNA by proofreading each aminoacyl-tRNA that is delivered by the elongation factor EF-Tu1. To understand the molecular mechanism of this proofreading step it is necessary to visualize GTP-catalysed elongation, which has remained a challenge2-4. Here we use time-resolved cryogenic electron microscopy to reveal 33 ribosomal states after the delivery of aminoacyl-tRNA by…
  • Systematic quantitative analysis of ribosome inventory during nutrient stress. [Journal Article]
    Nature. 2020 Jul 01 [Online ahead of print]An H, Ordureau A, … Harper JW
  • Mammalian cells reorganize their proteomes in response to nutrient stress through translational suppression and degradative mechanisms using the proteasome and autophagy systems1,2. Ribosomes are central targets of this response, as they are responsible for translation and subject to lysosomal turnover during nutrient stress3-5. The abundance of ribosomal (r)-proteins (around 6% of the proteome; …
  • Ribosome rescue activity of an Arabidopsis thaliana ArfB homolog. [Journal Article]
    Genes Genet Syst. 2020 Jul 02 [Online ahead of print]Nagao M, Tsuchiya F, … Abo T
  • A homolog of the bacterial ribosome rescue factor ArfB was identified in Arabidopsis thaliana. The factor, named AtArfB for Arabidopsis thaliana ArfB, showed ribosome rescue activity in both in vivo and in vitro assays based on the bacterial translation system. As has been shown for ArfB, the ribosome rescue activity of AtArfB was dependent on the GGQ motif, the crucial motif for the function of …
  • The transcription factors aryl hydrocarbon receptor and MYC cooperate in the regulation of cellular metabolism. [Journal Article]
    J Biol Chem. 2020 Jul 01 [Online ahead of print]Lafita-Navarro MC, Perez-Castro L, … Conacci-Sorrell M
  • The transcription factor aryl hydrocarbon receptor (AHR) drives the expression of genes involved in detoxification pathways in cells exposed to pollutants and other small molecules. Moreover, AHR supports transcriptional programs that promote ribosome biogenesis and protein synthesis in cells stimulated to proliferate by the oncoprotein MYC. Thus, AHR is necessary for the proliferation of MYC-ove…
  • Ribosome Collisions Trigger General Stress Responses to Regulate Cell Fate. [Journal Article]
    Cell. 2020 Jun 23 [Online ahead of print]Wu CC, Peterson A, … Green R
  • Problems arising during translation of mRNAs lead to ribosome stalling and collisions that trigger a series of quality control events. However, the global cellular response to ribosome collisions has not been explored. Here, we uncover a function for ribosome collisions in signal transduction. Using translation elongation inhibitors and general cellular stress conditions, including amino acid sta…
  • Binding of a viral IRES to the 40S subunit occurs in two successive steps mediated by eS25. [Journal Article]
    Nucleic Acids Res. 2020 Jul 01 [Online ahead of print]Walters B, Axhemi A, … Thompson SR
  • The mechanism for how internal ribosome entry sites (IRESs) recruit ribosomes to initiate translation of an mRNA is not completely understood. We investigated how a 40S subunit was recruited by the cricket paralysis virus intergenic region (CrPV IGR) IRES to form a stable 40S-IRES complex. Kinetic binding studies revealed that formation of the complex between the CrPV IGR and the 40S subunit cons…
  • The human box C/D snoRNA U3 is a miRNA source and miR-U3 regulates expression of sortin nexin 27. [Journal Article]
    Nucleic Acids Res. 2020 Jul 01 [Online ahead of print]Lemus-Diaz N, Ferreira RR, … Bohnsack MT
  • MicroRNAs (miRNAs) are important regulators of eukaryotic gene expression and their dysfunction is often associated with cancer. Alongside the canonical miRNA biogenesis pathway involving stepwise processing and export of pri- and pre-miRNA transcripts by the microprocessor complex, Exportin 5 and Dicer, several alternative mechanisms of miRNA production have been described. Here, we reveal that …
  • Sika deer presence affects the host-parasite interface of a Japanese land leech. [Journal Article]
    Ecol Evol. 2020 Jun; 10(12):6030-6038.Morishima K, Nakano T, Aizawa M
  • Since the 1990s, increasing populations of a blood feeding land leech (Haemadipsa japonica) have become a serious issue in several Japanese prefectures, and it may be caused by the increases in sika deer (Cervus nippon) populations seen over the last quarter of the century. Therefore, this study aimed to reveal the host animal species of H. japonica using iDNA (vertebrate DNA isolated from invert…
  • TOP mRNPs: Molecular Mechanisms and Principles of Regulation. [Review]
    Biomolecules. 2020 Jun 27; 10(7)Cockman E, Anderson P, Ivanov P
  • The cellular response to changes in the surrounding environment and to stress requires the coregulation of gene networks aiming to conserve energy and resources. This is often achieved by downregulating protein synthesis. The 5' Terminal OligoPyrimidine (5' TOP) motif-containing mRNAs, which encode proteins that are essential for protein synthesis, are the primary targets of translational control…
  • Ribosome Display Technology: Applications in Disease Diagnosis and Control. [Review]
    Antibodies (Basel). 2020 Jun 27; 9(3)Kunamneni A, Ogaugwu C, … Durvasula R
  • Antibody ribosome display remains one of the most successful in vitro selection technologies for antibodies fifteen years after it was developed. The unique possibility of direct generation of whole proteins, particularly single-chain antibody fragments (scFvs), has facilitated the establishment of this technology as one of the foremost antibody production methods. Ribosome display has become a v…
  • Roles of Organellar RNA-Binding Proteins in Plant Growth, Development, and Abiotic Stress Responses. [Review]
    Int J Mol Sci. 2020 Jun 26; 21(12)Lee K, Kang H
  • Organellar gene expression (OGE) in chloroplasts and mitochondria is primarily modulated at post-transcriptional levels, including RNA processing, intron splicing, RNA stability, editing, and translational control. Nucleus-encoded Chloroplast or Mitochondrial RNA-Binding Proteins (nCMRBPs) are key regulatory factors that are crucial for the fine-tuned regulation of post-transcriptional RNA metabo…
  • Structural insights into mammalian mitochondrial translation elongation catalyzed by mtEFG1. [Journal Article]
    EMBO J. 2020 Jun 30 [Online ahead of print]Kummer E, Ban N
  • Mitochondria are eukaryotic organelles of bacterial origin where respiration takes place to produce cellular chemical energy. These reactions are catalyzed by the respiratory chain complexes located in the inner mitochondrial membrane. Notably, key components of the respiratory chain complexes are encoded on the mitochondrial chromosome and their expression relies on a dedicated mitochondrial tra…
  • MetaRibo-Seq measures translation in microbiomes. [Journal Article]
    Nat Commun. 2020 Jun 29; 11(1):3268.Fremin BJ, Sberro H, Bhatt AS
  • No method exists to measure large-scale translation of genes in uncultured organisms in microbiomes. To overcome this limitation, we develop MetaRibo-Seq, a method for simultaneous ribosome profiling of tens to hundreds of organisms in microbiome samples. MetaRibo-Seq was benchmarked against gold-standard Ribo-Seq in a mock microbial community and applied to five different human fecal samples. Un…
  • Disruption of evolutionarily correlated tRNA elements impairs accurate decoding. [Journal Article]
    Proc Natl Acad Sci U S A. 2020 Jun 29 [Online ahead of print]Nguyen HA, Sunita S, Dunham CM
  • Bacterial transfer RNAs (tRNAs) contain evolutionarily conserved sequences and modifications that ensure uniform binding to the ribosome and optimal translational accuracy despite differences in their aminoacyl attachments and anticodon nucleotide sequences. In the tRNA anticodon stem-loop, the anticodon sequence is correlated with a base pair in the anticodon loop (nucleotides 32 and 38) to tune…
  • Small Nucleolar RNAs Determine Resistance to Doxorubicin in Human Osteosarcoma. [Journal Article]
    Int J Mol Sci. 2020 Jun 24; 21(12)Godel M, Morena D, … Kopecka J
  • Doxorubicin (Dox) is one of the most important first-line drugs used in osteosarcoma therapy. Multiple and not fully clarified mechanisms, however, determine resistance to Dox. With the aim of identifying new markers associated with Dox-resistance, we found a global up-regulation of small nucleolar RNAs (snoRNAs) in human Dox-resistant osteosarcoma cells. We investigated if and how snoRNAs are li…
  • Mechanism of translation inhibition by type II GNAT toxin AtaT2. [Journal Article]
    Nucleic Acids Res. 2020 Jun 29 [Online ahead of print]Ovchinnikov SV, Bikmetov D, … Dubiley S
  • Type II toxin-antitoxins systems are widespread in prokaryotic genomes. Typically, they comprise two proteins, a toxin, and an antitoxin, encoded by adjacent genes and forming a complex in which the enzymatic activity of the toxin is inhibited. Under stress conditions, the antitoxin is degraded liberating the active toxin. Though thousands of various toxin-antitoxins pairs have been predicted bio…
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