Reply to "codon usage frequency of RNA virus genomes from high-temperature acidic-environment metagenomes".
نویسندگان
چکیده
Mark Young, Benjamin Bolduc, Daniel P. Shaughnessy, Francisco F. Roberto, Yuri I. Wolf, Eugene V. Koonin Thermal Biology Institute and Departments of Microbiology, Plant Sciences and Plant Pathology, and Chemistry and Biochemistry, Montana State University, Bozeman, Montana, USA; National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, Maryland, USA; Idaho National Laboratory, Idaho Falls, Idaho, USA
منابع مشابه
Genome-Wide Analysis of Codon Usage and Influencing Factors in Chikungunya Viruses
Chikungunya virus (CHIKV) is an arthropod-borne virus of the family Togaviridae that is transmitted to humans by Aedes spp. mosquitoes. Its genome comprises a 12 kb single-strand positive-sense RNA. In the present study, we report the patterns of synonymous codon usage in 141 CHIKV genomes by calculating several codon usage indices and applying multivariate statistical methods. Relative synonym...
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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...
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The codon usage patterns of viruses reflect the evolutionary changes that allow them to optimize their survival and adapt their fitness to the external environment and, most importantly, their hosts. Here we report the genotype-specific codon usage patterns of Zika virus (ZIKV) strains from the current and previous outbreaks. Several genotype-specific and common codon usage traits were noted in...
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Environment-dependent genomic features have been defined for different metagenomes, whose genes and their associated processes are related to specific environments. Identification of ORFs and their functional categories are the most common methods for association between functional and environmental features. However, this analysis based on finding ORFs misses noncoding sequences and, therefore...
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In order to study and compare the phosphate transporter gene codon usage and it's respond to the traits like salt tolerance, day length, Pollination and temperature in different plants, 100 isoform from 10 plants are extracted from NCBI website and then analyzed with Gene Infinity and Minitab 16 software. The result shows that the highest codon usage similarity (81.95%) was for wheat a...
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ورودعنوان ژورنال:
- Journal of virology
دوره 87 3 شماره
صفحات -
تاریخ انتشار 2013