Codon Usage Bias Analysis of Citrus tristeza Virus: Higher Codon Adaptation to Citrus reticulata Host
نویسندگان
چکیده
منابع مشابه
Citrus tristeza virus-host interactions
Citrus tristeza virus (CTV) is a phloem-limited virus whose natural host range is restricted to citrus and related species. Although the virus has killed millions of trees, almost destroying whole industries, and continually limits production in many citrus growing areas, most isolates are mild or symptomless in most of their host range. There is little understanding of how the virus causes sev...
متن کاملIdentification of Synonymous Codon Usage Bias in the Pseudorabies Virus UL31 Gene
Background: Little knowledge of synonymous codon usage pattern of pseudorabies virus (PRV) genome, especially the UL31 gene in the process for its evolution is available. Objectives: In the present study, the codon usage bias between PRV UL31 sequence and the UL31-like sequences was identified. Materials and Methods: We used a comprehensive analysi...
متن کاملMore Codon Usage Bias
χ measure. In statistics, the χ statstic computes how different the distribution of values is from a uniform distribution. Let d = c1 . . . cN be a DNA string in nucleotide alphabet, and let L be the total number of codons in d that are not Methinine or Tryptophan (the number does include the stop codons though). Let a be a k-degenerate amino acid, and let La be the total number of codons codin...
متن کاملThe Complex Genetics of Citrus tristeza virus
The 2000 x 11 nm long bipolar flexuous filamentous particles of Citrus tristeza virus (CTV) (genus Closterovirus, family Closteroviridae) (Figure 1) contain a single-stranded positive-sense RNA genome of 19.3 kb, which is encapsidated in two different capsid proteins that coat the opposite ends of the virions [1, 2]. CTV is the largest identified RNA virus infecting plants and the second larges...
متن کاملRelative Codon Adaptation Index, a Sensitive Measure of Codon Usage Bias
We propose a simple, sensitive measure of synonymous codon usage bias, the Relative Codon Adaptation Index (rCAI), as a way to discriminate better between highly biased and unbiased regions, compared with the widely used Codon Adaptation Index (CAI). CAI is a geometric mean of the relative usage of codons in a gene, and is calculated using the codon usage table trained with a set of highly expr...
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ژورنال
عنوان ژورنال: Viruses
سال: 2019
ISSN: 1999-4915
DOI: 10.3390/v11040331