Analysis of synonymous codon usage bias in helicase gene from Autographa californica multiple nucleopolyhedrovirus
Analysis of synonymous codon usage bias in helicase gene from Autographa californica multiple nucleopolyhedrovirus
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苜蓿银纹夜蛾多重核多角体病毒解旋酶基因同义密码子使用偏倚分析
DOI：
10.1007/s13258-018-0689-x
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发表时间：
2018-04
期刊：
影响因子：
2.1
通讯作者：
Wenqiang Wei
中科院分区：
文献类型：
--
作者：
Hongju Wang;Tao Meng;Wenqiang Wei
The helicase gene of Autographa californica multiple nucleopolyhedrovirus (AcMNPV) is not only involved in viral DNA replication, but also plays a role in viral host range. To identify the codon usage bias of helicase of AcMNPV, the codon usage bias of helicase was especially studies in AcMNPV and 41 reference strains of baculoviruses by calculating the codon adaptation index (CAI), effective number of codon (ENc), relative synonymous codon usage (RSCU), and other indices. The helicase of baculovirus is less biased (mean ENc = 50.539 > 40; mean CAI = 0.246). AcMNPV helicase has a strong bias toward the synonymous codons with G and C at the third codon position (GC3s = 53.6%). The plot of GC3s against ENc values revealed that GC compositional constraints are the main factor that determines the codon usage bias of major of helicase. Several indicators supported that the codon usage pattern of helicase is mainly subject to mutation pressure. Analysis of variation in codon usage and amino acid composition indicated AcMNPV helicase shows the significant preference for one or more postulated codons for each amino acid. A cluster analysis based on RSCU values suggested that AcMNPV is evolutionarily closer to members of group I alphabaculovirus. Comparison of the codon usage pattern among E. coli, yeast, mouse, human and AcMNPV showed that yeast is a suitable expression system for AcMNPV helicase. AcMNPV helicase shows weak codon usage bias. This study may help in elucidating the functional mechanism of AcMNPV helicase and the evolution of baculovirus helicases.
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DOI：
10.1016/j.meegid.2016.07.042
发表时间：
2016-10
期刊：
Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases
影响因子：
--
作者：
Shi SL;Jiang YR;Yang RS;Wang Y;Qin L
通讯作者：
Qin L
影响因子：
3.7
作者：
Kumar N;Bera BC;Greenbaum BD;Bhatia S;Sood R;Selvaraj P;Anand T;Tripathi BN;Virmani N
通讯作者：
Virmani N
影响因子：
5.4
作者：
Manli Wang;Jue Wang;F. Yin;Ying Tan;F. Dèng;Xinwen Chen;J. Jehle;J. Vlak;Zhìhóng Hú;Huálín Wáng
通讯作者：
Manli Wang;Jue Wang;F. Yin;Ying Tan;F. Dèng;Xinwen Chen;J. Jehle;J. Vlak;Zhìhóng Hú;Huálín Wáng
影响因子：
3.4
作者：
Vicario S;Moriyama EN;Powell JR
通讯作者：
Powell JR
影响因子：
14.9
作者：
GRANTHAM, R;GAUTIER, C;GOUY, M
通讯作者：
GOUY, M