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Structural investigation of an RNA device that regulates PD-1 expression in mammalian cells.
Nucleic Acids Res
February 2025
Protein-Nucleic Acid Interaction Section, Center for Structural Biology, Center for Cancer Research, National Cancer Institute, Frederick, MD, 21702, United States.
Synthetic RNA devices are engineered to control gene expression and offer great potential in both biotechnology and clinical applications. Here, we present multidisciplinary structural and biochemical data for a tetracycline (Tc)-responsive RNA device (D43) in both ligand-free and bound states, providing a structure-dynamical basis for signal transmission. Activation of self-cleavage is achieved via ligand-induced conformational and dynamical changes that stabilize the elongated bridging helix harboring the communication module, which drives proper coordination of the catalytic residues.
View Article and Find Full Text PDFWhole-genome sequencing-based characterization of Listeria monocytogenes isolated from cattle and pig slaughterhouses.
Infect Genet Evol
March 2025
Foot-and-Mouth Disease Research Division, Animal and Plant Quarantine Agency, Gimcheon 39660, Republic of Korea. Electronic address:
Listeria monocytogenes is a foodborne pathogen that causes human listeriosis and may be transmitted to humans via the food chain, beginning at slaughter and extending through food production and consumption. In this study, we performed whole-genome sequencing (WGS) analysis to determine the genetic characteristics of L. monocytogenes from the carcasses and environments of cattle and pig slaughterhouses in Korea.
View Article and Find Full Text PDFbiGMamAct: efficient CRISPR/Cas9-mediated docking of large functional DNA cargoes at the locus.
Synth Biol (Oxf)
February 2025
EMBL Grenoble, European Molecular Biology Laboratory, 71 avenue des Martyrs, Grenoble Cedex 9 CS 90181, 38042, France.
Recent advances in molecular and cell biology and imaging have unprecedentedly enabled multiscale structure-functional studies of entire metabolic pathways from atomic to micrometer resolution and the visualization of macromolecular complexes , especially if these molecules are expressed with appropriately engineered and easily detectable tags. However, genome editing in eukaryotic cells is challenging when generating stable cell lines loaded with large DNA cargoes. To address this limitation, here, we have conceived biGMamAct, a system that allows the straightforward assembly of a multitude of genetic modules and their subsequent integration in the genome at the locus with high efficacy, through standardized cloning steps.
View Article and Find Full Text PDFMolecular breeding of pigs in the genome editing era.
Genet Sel Evol
March 2025
College of Animal Sciences, Jilin University, Changchun, 130062, China.
Background: To address the increasing demand for high-quality pork protein, it is essential to implement strategies that enhance diets and produce pigs with excellent production traits. Selective breeding and crossbreeding are the primary methods used for genetic improvement in modern agriculture. However, these methods face challenges due to long breeding cycles and the necessity for beneficial genetic variation associated with high-quality traits within the population.
View Article and Find Full Text PDFAdapting systems biology to address the complexity of human disease in the single-cell era.
Nat Rev Genet
March 2025
Institute for Medical Engineering and Science, Massachusetts Institute of Technology, Cambridge, MA, USA.
Systems biology aims to achieve holistic insights into the molecular workings of cellular systems through iterative loops of measurement, analysis and perturbation. This framework has had remarkable success in unicellular model organisms, and recent experimental and computational advances - from single-cell and spatial profiling to CRISPR genome editing and machine learning - have raised the exciting possibility of leveraging such strategies to prevent, diagnose and treat human diseases. However, adapting systems-inspired approaches to dissect human disease complexity is challenging, given that discrepancies between the biological features of human tissues and the experimental models typically used to probe function (which we term 'translational distance') can confound insight.
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