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Phage DNA Extraction, Genome Assembly, and Genome Closure
Bacteriophages, or more simply phages, are currently experiencing a renaissance in life science research for their roles in natural microbial...
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Family-Free Genome Comparison
The comparison of large-scale genome structures across distinct species offers valuable insights into the species’ phylogeny, genome organization,...
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Step-by-Step Bacterial Genome Comparison
Thanks to advancements in genome sequencing and bioinformatics, thousands of bacterial genome sequences are available in public databases. This...
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SARS-CoV-2 RNA Genome
Coding regionsCoding regions of the genome are translated into several non-structural proteins, as well as into the widely studied spike protein,...
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Detection of Z-DNA Structures in Supercoiled Genome
Z-DNAs are nucleic acid secondary structures that form within a special pattern of nucleotides and are promoted by DNA supercoiling. Through Z-DNA...
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Genome-wide distribution of 5-hydroxymethyluracil and chromatin accessibility in the Breviolum minutum genome
BackgroundIn dinoflagellates, a unique and extremely divergent genomic and nuclear organization has evolved. The highly unusual features of...
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CRISPR/LbCas12a-Mediated Genome Editing in Soybean
Currently methods for generating soybean edited lines are time-consuming, inefficient, and limited to certain genotypes. Here we describe a fast and...
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Complete chloroplast genome sequence of Camellia sinensis: genome structure, adaptive evolution, and phylogenetic relationships
The chloroplast (cp) genome holds immense potential for a variety of applications including species identification, phylogenetic analysis, and...
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Conclusion: Reducing the Perils from the Misuse of Genome Editing
Advances in genome editing came about not only in the era of synthetic biology, but also in the era of artificial intelligence (AI). Innovations in...
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Optimization of nutrient utilization efficiency and productivity for algal cultures under light and dark cycles using genome-scale model process control
Algal cultivations are strongly influenced by light and dark cycles. In this study, genome-scale metabolic models were applied to optimize nutrient...
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Mitochondrial genome features and systematic evolution of diospyros kaki thunb 'Taishuu'
Background'Taishuu' has a crisp texture, abundant juice, and sweet flavor with hints of cantaloupe. The availability of mitochondrial genome data of Diospyros...
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Editing the Genome of the Golden Hamster (Mesocricetus auratus)
The golden (Syrian) hamster (Mesocricetus auratus) is a small rodent belonging to the Cricetidae family. Golden hamsters have several unique...
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A high-quality genome compendium of the human gut microbiome of Inner Mongolians
Metagenome-based resources have revealed the diversity and function of the human gut microbiome, but further understanding is limited by insufficient...
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Regulating epithelial-mesenchymal plasticity from 3D genome organization
Epithelial-mesenchymal transition (EMT) is a dynamic process enabling polarized epithelial cells to acquire mesenchymal features implicated in...
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Closed genomes uncover a saltwater species of Candidatus Electronema and shed new light on the boundary between marine and freshwater cable bacteria
Cable bacteria of the Desulfobulbaceae family are centimeter-long filamentous bacteria, which are capable of conducting long-distance electron...
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Integrating machine learning and genome editing for crop improvement
Genome editing is a promising technique that has been broadly utilized for basic gene function studies and trait improvements. Simultaneously, the...
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Generation of Genome-Edited Chicken Through Targeting of Primordial Germ Cells
Genome editing technology facilitates the creation of specific and precise genetic changes to unravel gene function and rapidly transfer unique...
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Strategies to improve genome editing efficiency in crop plants
Genome editing technology comprises site-directed mutagenesis of genomes, involving alterations of few bases to precise replacement of a fragment or...
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CircR-loop: a novel RNA:DNA interaction on genome instability
CircR-loop, a recently unearthed regulatory mechanism situated at the crossroads of circular RNA and DNA interactions, constitute a subset of R-loop....
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From Genome Mining to Protein Engineering: A Structural Bioinformatics Route
This chapter outlines applications in genome mining, along with computational methods to predict protein structure and protein-ligand docking. It...