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논문 기본 정보
- 자료유형
- 학술저널
- 저자정보
- 발행연도
- 2018.1
- 수록면
- 767 - 780 (14page)
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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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참고문헌 (44)
참고문헌 신청
Auewarakul P / 2005 / Composition bias and genome polarity of RNA viruses / Virus Res 109:33~37
Babbitt GA / 2014 / Synonymous codon bias and functional constraint on GC3-related DNA backbone dynamics in the prokaryotic nucleoid / Nucleic Acids Res 42:10915~10926
Bideshi DK / 2000 / The Trichoplusia ni granulovirus helicase is unable to support replication of Autographa californica multicapsid nucleopolyhedrovirus in cells and larvae of T. ni / J Gen Virol 81:1593~1599
Buhr F / 2016 / Synonymous codons direct cotranslational folding toward different protein conformations / Mol Cell 61:341~351
Burge C / 1992 / Over- and under-representation of short oligonucleotides in DNA sequences / Proc Natl Acad Sci USA 89:1358~1362
Babbitt GA / 2014 / Synonymous codon bias and functional constraint on GC3-related DNA backbone dynamics in the prokaryotic nucleoid / Nucleic Acids Res 42:10915~10926
Bideshi DK / 2000 / The Trichoplusia ni granulovirus helicase is unable to support replication of Autographa californica multicapsid nucleopolyhedrovirus in cells and larvae of T. ni / J Gen Virol 81:1593~1599
Buhr F / 2016 / Synonymous codons direct cotranslational folding toward different protein conformations / Mol Cell 61:341~351
Burge C / 1992 / Over- and under-representation of short oligonucleotides in DNA sequences / Proc Natl Acad Sci USA 89:1358~1362
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