Factors Affecting Synonymous Codon Usage Bias in Chloroplast Genome of

Oncidium Gower Ramsey is a fascinating and important ornamental flower in floral industry. In this research, the complete nucleotide sequence of the chloroplast genome in Oncidium Gower Ramsey was studied, then analyzed using Codonw software. Correspondence analysis and method of effective number of...

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Bibliographic Details
Main Authors: Chen Xu, Xiaoning Cai, Quanzhan Chen, Hongxia Zhou, Yao Cai, Ailing Ben
Format: Article
Language:English
Published: SAGE Publishing 2011-01-01
Series:Evolutionary Bioinformatics
Online Access:https://doi.org/10.4137/EBO.S8092
Description
Summary:Oncidium Gower Ramsey is a fascinating and important ornamental flower in floral industry. In this research, the complete nucleotide sequence of the chloroplast genome in Oncidium Gower Ramsey was studied, then analyzed using Codonw software. Correspondence analysis and method of effective number of codon as Nc-plot were conducted to analyze synonymous codon usage. According to the corresponding analysis, codon bias in the chloroplast genome of Oncidium Gower Ramsey is related to their gene length, mutation bias, gene hydropathy level of each protein, gene function and selection or gene expression only subtly affect codon usage. This study will provide insights into the molecular evolution study and high-level transgene expression.
ISSN:1176-9343