食管癌相关功能未知基因的电子克隆延伸与ncRNA的发现  

Silicon Cloning for the Unknown Functional Genes Related to Esophageal Carcinoma and ncRNA Finding

作　　者：吴炳礼[1] 许丽艳[2] 应晓敏[3] 牛永东[1] 李伍举[3] 李恩民[1] 

机构地区：[1]汕头大学医学院生化与分子生物学教研室,汕头515041 [2]汕头大学医学院肿瘤病理研究室,汕头515041 [3]军事医学科学院基础医学研究所,北京100850

出　　处：《癌变．畸变．突变》2008年第2期85-88,共4页Carcinogenesis,Teratogenesis & Mutagenesis

基　　金：国家自然科学基金项目(30370641;30570829;30672376);广东省自然科学基金重点项目(05104541;7118419);教育部高等学校博士点重点学科专项基金项目(20050560002;20050560003)

摘　　要：背景与目的:运用电子克隆等生物信息学方法研究筛查出的48个与食管癌相关功能未知的DNA序列片段,为食管癌相关研究提供指导。材料与方法:以48个DNA序列片段为核心,运用BioEdit建立本地数据库;通过电子克隆的方法对48个DNA序列中功能未知的基因片段进行序列延伸;通过BLAST同源分析搜索48个基因的内含子以及上下游基因间隔区中存在的非编码RNA(noncodingRNA,ncRNA)。结果:48个DNA序列中功能未知的基因片段通过电子克隆的方法平均能够延伸190bp以上;在48个基因的内含子以及上下游基因间隔区存在着与已知ncRNA相似性很高的片段。结论:运用电子克隆的方法可以使某些食管癌相关功能未知基因的序列得以明显延伸;一些食管癌相关基因所在的染色体区段存在着某些与ncRNA高度相似的片段,这提示我们,ncRNA可能参与食管癌的发生过程,其具体功能有待深入研究。BACKGROUND AND AIM：In order to provide further support for the experimental verification and functional exploration of 48 DNA sequences related to esophageal carcinoma found in our lab, these sequences were investigated systematically Using bioinformatics methods such as silicon cloning and BLAST search tool. MATERIALS METHODS： A local database including the 48 sequences was constructed by the BioEdit software; the 48 DNA sequences coding unknown genes were extended by the method of silicon cloning; the potential ncRNAs, located in the introns, the upstream and downstream of intergenic regions of the above 48 DNA sequences, were analyzed by BLAST tool. RESULTS： The sequences coding unknown genes were extended to more than 190 bp on average using silicon cloning. Some sequence segraents with high similarity to the known noncoding RNA（ncRNAs） were found in the intronic or intergenic regions. CONCLUSION： Some esophageal carcinoma related genes can be extended obviously by the method of silicon cloning,some sequences with high similarity to known ncRNAs were found in the chromosome region where the esophageal carcinoma related genes are located. The information gives us potential clues that these ncRNAs maybe participate in the development process of esophageal carcinoma, and the functions of these ncRNAs needs further study.

关 键 词：生物信息学 序列分析 非编码RNA 电子克隆 

分 类 号：R818.03[医药卫生—放射医学]