65 Result(s)
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Protocol
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Protocol
Use of Specific Borrelia Phages as a New Strategy for Improved Diagnostic Tests
The high failure rate of tick-borne infection (TBI)-related testing underscores the need for novel approaches that do not rely on serology and two-tier testing. Delayed diagnosis of TBIs, especially Borrelia infe...
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Application of dsRNA in the Pine Wood Nematode, Bursaphelenchus xylophilus
The pine wood nematode Bursaphelenchus xylophilus is one of the most destructive invasive species worldwide, causing the wilting and eventual death of pine trees. Despite recognition of their economic and environ...
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Combining Gas Exchange and Rapid Quenching of Leaf Tissue for Mass Spectrometry Analysis Directly in Gas Exchange Cuvette
Isotopically nonstationary metabolic flux analysis (INST-MFA) is a powerful technique for studying plant central metabolism, which involves introducing a 13CO2 tracer to plant leaves and sampling the labeled meta...
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Genetic Code Expansion in Pseudomonas putida KT2440
Emerging microorganism Pseudomonas putida KT2440 is utilized for the synthesis of biobased chemicals from renewable feedstocks and for bioremediation. However, the methods for analyzing, engineering, and regulati...
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Holographic Optogenetic Activation of Neurons Eliciting Locomotion in Head-Embedded Larval Zebrafish
Understanding how motor circuits are organized and recruited in order to perform complex behavior is an essential question of neuroscience. Here we present an optogenetic protocol on larval zebrafish that allo...
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Construction of Xylose-Utilizing Cyanobacterial Chassis for Bioproduction Under Photomixotrophic Conditions
Xylose is a major component of lignocellulose and the second most abundant sugar present in nature after glucose; it, therefore, has been considered to be a promising renewable resource for the production of b...
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Using Dynamic Gas Exchange Measurements During Oxygen Transients to Study Nonsteady-State Photorespiration
Leaf-level gas exchange is widely used to investigate the largest carbon fluxes in illuminated leaves, offering a nondestructive way to investigate the impact of photorespiration on plant carbon balance. Moder...
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Single-Molecule Imaging of the Phase Separation-Modulated DNA Compaction to Study Transcriptional Repression
Liquid-liquid phase separation (LLPS) often induces the formation of biomolecule condensates at the cellular level. The importance of this phenomenon has been demonstrated in many important biological function...
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Assessment of Ferroptosis in Hematopoietic Stem and Progenitor Cells
Hematopoietic stem cells (HSCs) are critical for maintaining hematopoiesis throughout life by utilizing their self-renewing and multipotent capabilities. Ferroptosis is a type of cell death characterized by th...
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High-Resolution Atomic Force Microscopy Imaging of RNA Molecules in Solution
Atomic force microscopy (AFM) is an important and versatile technique to investigate the structures and dynamics of biomolecules under physiologically relevant conditions at the single-molecule level. Recent p...
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Cell-Type Deconvolution of Bulk DNA Methylation Data with EpiSCORE
DNA methylation data generated from bulk tissue represents a mixture of many different cell types. Variation in the cell-type composition of tissues is thus a major confounder when inferring differential DNA m...
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Visualization of Differentiated Cells in 3D and 2D Intestinal Organoid Cultures
The intestinal epithelium maintains self-renewal and differentiation capacities via coordination of key signaling pathways, including the Wnt, bone morphogenetic protein (BMP), epidermal growth factor (EGF), a...
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Functional Interrogation of Ca2+ Signals in Human Cancer Cells In Vitro and Ex Vivo by Fluorescent Microscopy and Molecular Tools
Genetically encoded calcium indicators (GECIs) and high-resolution confocal microscopy enable dynamic visualization of calcium signals in cells and tissues. Two-dimensional and 3D biocompatible materials mimic...
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Genetic Code Expansion in Mammalian Cells Through Quadruplet Codon Decoding
Genetic code expansion enables the site-specific incorporation of noncanonical amino acids (ncAAs) into proteins both in vitro and in vivo. In addition to a widely applied nonsense suppression strategy, the us...
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Quantifying the Mechanical Properties of Yeast Candida albicans Using Atomic Force Microscopy-based Force Spectroscopy
Fungi can adapt to a wide range of environmental stresses in the wild and host milieu by employing their plastic genome and great diversity in morphology. Among different adaptive strategies, mechanical stimul...
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Combining Biophysical Methods for Structure–Function Analyses of RNA in Solution
RNA-level regulation by riboswitches relies on the specific binding of small metabolites to the aptamer domain to trigger substantial conformational changes that affect transcription or translation. Although s...
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Penta-Primer Amplification Refractory Mutation System (PARMS) with Direct PCR-Based SNP Marker-Assisted Selection (D-MAS)
The penta-primer amplification refractory mutation system (PARMS) is a high-throughput, low-cost, and automated genoty** assay system that utilizes competitive allele-specific polymerase chain reaction (AS-P...
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Monitoring Axonal Degeneration in Human Pluripotent Stem Cell Models of Hereditary Spastic Paraplegias
Axonal degeneration underlies many debilitating diseases including hereditary spastic paraplegias (HSPs). HSPs are a large heterogeneous group of neurodegenerative diseases characterized by axonopathy involvin...
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Cas9 Nickase-Based Genome Editing in Clostridium cellulolyticum
Clostridium cellulolyticum is a model mesophilic, cellulolytic bacterium, with the potential to produce biofuels from lignocellulose. However, the natural cellulose utilization efficiency is quite low and, theref...
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Generation of Properly Folded Epidermal Growth Factor-Like (EGF) Repeats and Glycosyltransferases Enables In Vitro O-Glycosylation
The epidermal growth factor-like (EGF) domain is an evolutionarily conserved motif found widely distributed among numerous secreted and membrane-anchored proteins, including the Notch receptors. Notch receptor...
