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SARS-CoV-2 continuously optimizes its codon usage to adapt to human lung environment
Viruses need to utilize the resources from host cells to reproduce themselves. RNA translation rate, which is largely determined by codon usage, is...
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Hepatitis B virus (HBV) codon adapts well to the gene expression profile of liver cancer: an evolutionary explanation for HBV’s oncogenic role
Due to the evolutionary arms race between hosts and viruses, viruses must adapt to host translation systems to rapidly synthesize viral proteins....
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Intraspecific and interspecific variations in the synonymous codon usage in mitochondrial genomes of 8 pleurotus strains
In this study, we investigated the codon bias of twelve mitochondrial core protein coding genes (PCGs) in eight Pleurotus strains, two of which are...
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Compositional Dynamics and Codon Usage Pattern of Myogenin (MyoG) Gene across Different Mammalian Species
AbstractMyoG enin ( MyoG ) is one of the key regulatory factors for controlling the generation of skeletal muscle. Codon usage bias (CUB) as a unique...
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Assembly and comparative analysis of the complete mitochondrial and chloroplast genome of Cyperus stoloniferus (Cyperaceae), a coastal plant possessing saline-alkali tolerance
BackgroundCyperus stoloniferus is an important species in coastal ecosystems and possesses economic and ecological value. To elucidate the...
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Codon usage bias and genetic diversity in chloroplast genomes of Elaeagnus species (Myrtiflorae: Elaeagnaceae)
Codon usage bias (CUB) reveals the characteristics of species and can be utilized to understand their evolutionary relationship, increase the target...
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Human genes with codon usage bias similar to that of the nonstructural protein 1 gene of influenza A viruses are conjointly involved in the infectious pathogenesis of influenza A viruses
Molecular mechanisms of the non-structural protein 1 (NS1) in influenza A-induced pathological changes remain ambiguous. This study explored the...
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Codon usage of host-specific P genotypes (VP4) in group A rotavirus
BackgroundGroup A rotavirus (RVA) is a common causative agent of acute gastroenteritis in infants and young children worldwide. RVA P genotypes,...
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Analysis of chloroplast genome characteristics and codon usage bias in 14 species of Annonaceae
For the study of species evolution, chloroplast gene expression, and transformation, the chloroplast genome is an invaluable resource. Codon usage...
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Codon usage bias analysis of the gene encoding NAD+-dependent DNA ligase protein of Invertebrate iridescent virus 6
The genome of Invertebrate iridescent virus 6 (IIV6) contains a sequence that shows similarity to eubacterial NAD + -dependent DNA ligases. The...
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Analysis of codon usage patterns in 48 Aconitum species
BackgroundThe Aconitum genus is a crucial member of the Ranunculaceae family. There are 350 Aconitum species worldwide, with about 170 species found...
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Regardless of having identical photosynthetic pathways, chloroplast genomes vary depending on whether the host plant is monocotyledonous or dicotyledonous
The comprehension of the evolutionary mechanisms behind chloroplasts is derived from the comparative analysis of chloroplast (CP) genomes across...
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Cold adaptation and response genes of Antarctic Cryobacterium sp. SO2 from the Fildes Peninsula, King George Island
Cryobacterium spp. are Gram-positive bacteria that inhabit diverse geographical locations, particularly extremely cold environments like the Polar...
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The complete chloroplast genome of the halophyte flowering plant Suaeda monoica from Jeddah, Saudi Arabia
The complete chloroplast genome (plastome) of the annual flowering halophyte herb Suaeda monoica Forssk. ex J. F. Gmel. family (Amaranthaceae) that...
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Codon usage characterization and phylogenetic analysis of the mitochondrial genome in Hemerocallis citrina
BackgroundHemerocallis citrina Baroni is a traditional vegetable crop widely cultivated in eastern Asia for its high edible, medicinal, and...
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Codon usage bias and evolution analysis in the mitochondrial genome of Mesona chinensis Benth
Mesona chinensis Benth (MCB) is an edible and medicinal plant in southern China and Southeast Asian countries. Mitochondria, semi-autonomous...
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Assembly and comparative analysis of the first complete mitochondrial genome of Setaria italica
Main conclusionIn this study, we assembled the first complete mitochondrial genome of Setaria italica and confirmed the multi-branched architecture.
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Solanum aculeatissimum and Solanum torvum chloroplast genome sequences: a comparative analysis with other Solanum chloroplast genomes
BackgroundSolanum aculeatissimum and Solanum torvum belong to the Solanum species, and they are essential plants known for their high resistance to...
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Elucidating the multichromosomal structure within the Brasenia schreberi mitochondrial genome through assembly and analysis
Brasenia schreberi , a plant species traditionally utilized in Chinese medicine and cuisine, represents an early evolutionary stage among flowering...
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Analysis of codon usage bias of WRKY transcription factors in Helianthus annuus
BackgroundThe phenomenon of codon usage bias is known to exist in many genomes and is mainly determined by mutation and selection. Codon usage bias...
