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Analysis of Synonymous Codon Usage in the US5 Gene of Duck Plague Virus

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Abstract:

The Duck Plague Virus (DPV) US5 gene was identified by constructing the DPV genomic library, the synonymous codon usage in the US5 gene of DPV and 11 reference herpesviruses have been investigated by using the CodonW 1.4 program, CUSP (create a codon usage table) program and CHIPS (calculated ENC value) of EMBOSS (The European Molecular Biology Open Software Suite). The results reveals that the synonymous codons with A and T at the third codon positon have widely usage in the codon of US5 gene of DPV. G + C compositional constraint is the main factor that determines the codon usage bias in US5 gene. In addition, rare condons analysis showed that there are 75 rare condons (13.9%) in the ORF of the DPV US5 gene on line (http//:www.kazusa.or.jp/codon), There were 20 codons showing distinct usage differences between DPV with Escherichia coli, 19 between DPV and yeast, 25 between DPV and Human. Therefore the yeast expression system may be suitable for the expression of DPV US5 gene.

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Periodical:

Advanced Materials Research (Volumes 641-642)

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606-614

DOI:

https://doi.org/10.4028/www.scientific.net/AMR.641-642.606

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Online since:

January 2013

Authors:

Xiao Huan Hu, Ming Shu Wang, An Chun Cheng

Keywords:

Codon Usage Bias, Duck Plague Virus, US5 Gene

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© 2013 Trans Tech Publications Ltd. All Rights Reserved

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