The distribution of synonymous codon choice in the translation initiation region of dengue virus.
Dengue is the most common arthropod-borne viral (Arboviral) illness in humans. The genetic features concerning the codon usage of dengue virus (DENV) were analyzed by the relative synonymous codon usage, the effective number of codons and the codon adaptation index. The evolutionary distance between...
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doaj-f81521eac5d845ecaf69773b97b673842020-11-24T21:54:40ZengPublic Library of Science (PLoS)PLoS ONE1932-62032013-01-01810e7723910.1371/journal.pone.0077239The distribution of synonymous codon choice in the translation initiation region of dengue virus.Jian-hua ZhouJie ZhangDong-jie SunQi MaHao-tai ChenLi-na MaYao-zhong DingYong-sheng LiuDengue is the most common arthropod-borne viral (Arboviral) illness in humans. The genetic features concerning the codon usage of dengue virus (DENV) were analyzed by the relative synonymous codon usage, the effective number of codons and the codon adaptation index. The evolutionary distance between DENV and the natural hosts (Homo sapiens, Pan troglodytes, Aedes albopictus and Aedes aegypti) was estimated by a novel formula. Finally, the synonymous codon usage preference for the translation initiation region of this virus was also analyzed. The result indicates that the general trend of the 59 synonymous codon usage of the four genotypes of DENV are similar to each other, and this pattern has no link with the geographic distribution of the virus. The effect of codon usage pattern of Aedes albopictus and Aedes aegypti on the formation of codon usage of DENV is stronger than that of the two primates. Turning to the codon usage preference of the translation initiation region of this virus, some codons pairing to low tRNA copy numbers in the two primates have a stronger tendency to exist in the translation initiation region than those in the open reading frame of DENV. Although DENV, like other RNA viruses, has a high mutation to adapt its hosts, the regulatory features about the synonymous codon usage have been 'branded' on the translation initiation region of this virus in order to hijack the translational mechanisms of the hosts.http://europepmc.org/articles/PMC3808402?pdf=render |
collection |
DOAJ |
language |
English |
format |
Article |
sources |
DOAJ |
author |
Jian-hua Zhou Jie Zhang Dong-jie Sun Qi Ma Hao-tai Chen Li-na Ma Yao-zhong Ding Yong-sheng Liu |
spellingShingle |
Jian-hua Zhou Jie Zhang Dong-jie Sun Qi Ma Hao-tai Chen Li-na Ma Yao-zhong Ding Yong-sheng Liu The distribution of synonymous codon choice in the translation initiation region of dengue virus. PLoS ONE |
author_facet |
Jian-hua Zhou Jie Zhang Dong-jie Sun Qi Ma Hao-tai Chen Li-na Ma Yao-zhong Ding Yong-sheng Liu |
author_sort |
Jian-hua Zhou |
title |
The distribution of synonymous codon choice in the translation initiation region of dengue virus. |
title_short |
The distribution of synonymous codon choice in the translation initiation region of dengue virus. |
title_full |
The distribution of synonymous codon choice in the translation initiation region of dengue virus. |
title_fullStr |
The distribution of synonymous codon choice in the translation initiation region of dengue virus. |
title_full_unstemmed |
The distribution of synonymous codon choice in the translation initiation region of dengue virus. |
title_sort |
distribution of synonymous codon choice in the translation initiation region of dengue virus. |
publisher |
Public Library of Science (PLoS) |
series |
PLoS ONE |
issn |
1932-6203 |
publishDate |
2013-01-01 |
description |
Dengue is the most common arthropod-borne viral (Arboviral) illness in humans. The genetic features concerning the codon usage of dengue virus (DENV) were analyzed by the relative synonymous codon usage, the effective number of codons and the codon adaptation index. The evolutionary distance between DENV and the natural hosts (Homo sapiens, Pan troglodytes, Aedes albopictus and Aedes aegypti) was estimated by a novel formula. Finally, the synonymous codon usage preference for the translation initiation region of this virus was also analyzed. The result indicates that the general trend of the 59 synonymous codon usage of the four genotypes of DENV are similar to each other, and this pattern has no link with the geographic distribution of the virus. The effect of codon usage pattern of Aedes albopictus and Aedes aegypti on the formation of codon usage of DENV is stronger than that of the two primates. Turning to the codon usage preference of the translation initiation region of this virus, some codons pairing to low tRNA copy numbers in the two primates have a stronger tendency to exist in the translation initiation region than those in the open reading frame of DENV. Although DENV, like other RNA viruses, has a high mutation to adapt its hosts, the regulatory features about the synonymous codon usage have been 'branded' on the translation initiation region of this virus in order to hijack the translational mechanisms of the hosts. |
url |
http://europepmc.org/articles/PMC3808402?pdf=render |
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