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Evolution of codon usage bias in Drosophila [PDF]
Proceedings of the National Academy of Sciences, 1997 We first review what is known about patterns of codon usage bias in Drosophila and make the following points: ( i ) Drosophila genes are as biased or more biased than those in microorganisms. (
J R, Powell, E N, Moriyama
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Ribo-seq enlightens codon usage bias [PDF]
DNA Research, 2017 Codon usage is biased between lowly and highly expressed genes in a genome-specific manner. This universal bias has been well assessed in some unicellular species, but remains problematic to assess in more complex species. We propose a new method to compute codon usage bias based on genome wide translational data. A new technique based on sequencing of
Paulet, Damien +2 more
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Frontiers in Microbiology, 2016 Codon usage bias, as a combined interplay from mutation and selection, has been intensively studied in Escherichia coli. However, codon usage analysis in an E. coli pangenome remains unexplored and the relative importance of mutation and selection acting
Shixiang Sun +3 more
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Codon usage bias reveals genomic adaptations to environmental conditions in an acidophilic consortium. [PDF]
PLoS ONE, 2018 The analysis of codon usage bias has been widely used to characterize different communities of microorganisms. In this context, the aim of this work was to study the codon usage bias in a natural consortium of five acidophilic bacteria used for biomining.
Andrew Hart +3 more
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Codon usage bias and the evolution of influenza A viruses. Codon Usage Biases of Influenza Virus [PDF]
BMC Evolutionary Biology, 2010 Abstract Background The influenza A virus is an important infectious cause of morbidity and mortality in humans and was responsible for 3 pandemics in the 20th century. As the replication of the influenza virus is based on its host's machinery, codon usage of its viral genes might be subject to host selection ...
Wong, Emily +4 more
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Analysis of Codon Usage Bias of Thioredoxin in Apicomplexan Protozoa
Parasites & Vectors, 2023 Abstract Background Apicomplexan protozoa are a diverse group of obligate intracellular parasites causing many diseases that affect humans and animals such as malaria, toxoplasmosis, and cryptosporidiosis. Apicomplexan protozoa possess unique thioredoxins (Trxs) that have been shown to regulate various cellular processes including metabolic ...
Dawei Wang, Baoling Yang
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Analysis of factors shaping synonymous codon usage in pseudorabies virus
浙江大学学报. 农业与生命科学版, 2007 Synonymous codon usage and the main factors shaping codon usage in pseudorabies virus were reported in order to understand the architecture and evolution of pseudorabies virus.
YIN Hua-ping +3 more
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Developmental Stage and Level of Codon Usage Bias in Drosophila [PDF]
Molecular Biology and Evolution, 2008 Codon usage bias (CUB) is a ubiquitous observation in molecular evolution. As a model, Drosophila has been particularly well-studied and indications show that selection at least partially controls codon usage, probably through selection for translational efficiency.
Vicario S +3 more
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Identification of the optimal codons for acetolactate synthase from weeds: an in-silico study
Plant, Soil and Environment, 2021 Although various studies of codon usage bias have been reported in a broad spectrum of organisms, no studies to date have examined codon usage bias for herbicide target genes. In this study, we analysed codon usage patterns for the acetolactate synthase (
Madhab Kumar Sen +3 more
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Enhanced effective codon numbers to understand codon usage bias [PDF]
Biosystems, 2019 Abstract Codon usage bias is a well recognized phenomenon but the relative influence of its major causes: G+C content, mutational biases, and selection, are often difficult to disentangle. This paper presents methods to calculate modified effective codon numbers that allow the investigation of the sources of codon bias and how genes or ...
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