| 原核表达中优化起始密码下游序列的软件设计与实现 |
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| 引用本文： | 许龙,李涛,周晓巍,黄培堂.原核表达中优化起始密码下游序列的软件设计与实现[J].生物工程学报,2006,22(6):1032-1035. |
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| 作者姓名： | 许龙 李涛 周晓巍 黄培堂 |
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| 作者单位： | 1. 军事医学科学院生物工程研究所,北京,100071
2. 军事医学科学院国家生物医学分析中心,北京,100850 |
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| 摘 要： | 在原核表达中影响外源基因表达效率的因素有很多,这其中翻译起始效率起了非常重要的作用。翻译起始效率又主要受SD序列、SD序列与起始密码子之间的间距、DB(DownstreamBox)序列、mRNA翻译起始区(TIR)的二级结构和稀有密码子等因素的影响。主要针对DB序列和5′端稀有密码子的优化设计了软件。通过计算机对序列进行分析比对后,按照匹配碱基数、匹配位置、密码子使用频率平均值的顺序进行排序,给出一些优化序列,并给出了软件算法。
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| 关 键 词： | DB序列 16SrRNA 序列匹配性 基因表达 软件设计 |
| 文章编号： | 1000-3061(2006)06-1032-04 |
| 收稿时间： | 04 10 2006 12:00AM |
| 修稿时间： | 07 11 2006 12:00AM |
Design and Implementation of DB Sequence Optimization Software |
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| XU Long,LI Tao,ZHOU Xiao-Wei,HUANG Pei-Tang.Design and Implementation of DB Sequence Optimization Software[J].Chinese Journal of Biotechnology,2006,22(6):1032-1035. |
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| Authors: | XU Long LI Tao ZHOU Xiao-Wei HUANG Pei-Tang |
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| Institution: | 1, Beijing Institute of Biotechnology, Beijing 100071, China;2, National Center of Biomedical Analysis, Beijing 100850, China |
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| Abstract: | TIR (Translation Initiation Region) efficiency is very important in prokaryotic expression. The TIR's efficiency is highly dependent on SD (Shine-Dalgarno) sequence, distance between SD sequence and start codon, DB (Downstream Box) sequence, TIR's second structure, codon adaptation and so on. In this paper, we designed and implemented the software to optimize DB sequence and 5' rare codons. It generated some optimization sequences by analyzing the target sequence and comparing it with 16S RNA. And the optimization sequences is sorting by number of base pairing, location of base pairing and codon adaptation. We drew up the algorithm and the core of code in this paper. |
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| Keywords: | DB sequence 16SrRNA base pairing gene expression software design |
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