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RNA constitutes up to 20% of a cell's dry weight, corresponding to ∼20 mg/mL. This high concentration of RNA facilitates low-affinity protein-RNA quinary interactions, which may play an important role in facilitating and regulating biological processes. In the yeast Pichia pastoris, the level of ubiquitin-RNA colocalization increases when cells are grown in the presence of dextrose and methanol instead of methanol as the sole carbon source. Total RNA isolated from cells grown in methanol increases β-galactosidase activity relative to that seen with RNA isolated from cells grown in the presence of dextrose and methanol. Because the total cellular RNA content changes with growth medium, protein-RNA quinary interactions can alter in-cell protein biochemistry and may play an important role in cell adaptation, critical to many physiological and pathological states.
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http://dx.doi.org/10.1021/acs.biochem.6b00330 | DOI Listing |
Nat Metab
September 2025
Department of Metabolism and Nutritional Programming, Van Andel Institute, Grand Rapids, MI, USA.
Cancer cells are exposed to diverse metabolites in the tumour microenvironment that are used to support the synthesis of nucleotides, amino acids and lipids needed for rapid cell proliferation. In some tumours, ketone bodies such as β-hydroxybutyrate (β-OHB), which are elevated in circulation under fasting conditions or low glycemic diets, can serve as an alternative fuel that is metabolized in the mitochondria to provide acetyl-CoA for the tricarboxylic acid (TCA) cycle. Here we identify a non-canonical route for β-OHB metabolism that bypasses the TCA cycle to generate cytosolic acetyl-CoA.
View Article and Find Full Text PDFNat Microbiol
September 2025
The Mina and Everard Goodman Faculty of Life Sciences, Bar-Ilan University, Ramat Gan, Israel.
Restriction-modification (R-M) systems protect against phage infection by detecting and degrading invading foreign DNA. However, like many prokaryotic anti-phage defences, R-M systems pose a major risk of autoimmunity, exacerbated by the presence of hundreds to thousands of potential cleavage sites in the bacterial genome. Pseudomonas aeruginosa strains experience the temporary inactivation of restriction endonucleases following growth at high temperatures, but the reason and mechanisms for this phenomenon are unknown.
View Article and Find Full Text PDFMicrobiol Resour Announc
September 2025
Research Department for Limnology, Universität Innsbruck, Mondsee, Austria.
is a pathogenic bacterium that can survive in hostile environments and inside heterotrophic protozoan cells. Here, we present transcriptomic data for grown in a rich medium, cultured under starvation conditions, treated with hydrogen peroxide, and extracted from cells after 8 and 15 h of infection.
View Article and Find Full Text PDFFront Bioeng Biotechnol
August 2025
Department Bio-Adaptive production, Fraunhofer Institute for Production Technology (FHG), Aachen, Germany.
Mesenchymal stem/stromal cells (MSCs) have been identified as a promising therapeutic option for osteoarthritis, graft vs. host disease and cardiovascular diseases, among others. For widespread application of these therapies, robust and scaled manufacturing processes are required that reliably yield high amounts of high quality MSCs.
View Article and Find Full Text PDFJ Biol Chem
September 2025
Department of Biochemistry and Molecular Biology, Penn State University, University Park, PA, 16802; Center for Structural Biology, Penn State University, University Park, PA 16802; Center for RNA Molecular Biology, Penn State University, University Park, PA 16802. Electronic address:
Despite the overall conservation of ribosomes across all domains of life, differences in their 3D architecture, rRNA sequences, ribosomal protein composition, and translation factor requirements reflect lineage-specific adaptations to environmental niches. In the domain Archaea, structural studies have primarily focused on non-methanogenic thermophiles and halophiles, leaving it unclear whether these represent the broader archaeal domain. Here, we report the cryo-electron microscopy (cryo-EM) structure of the ribosome from Methanosarcina acetivorans, a previously unreported high-resolution structure from a model mesophilic methanogenic archaeon.
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