籼稻'93-11'一段基因组序列的完善及分析

超级杂交稻父本‘93-11＇的基因组序列测定的完成,为进行作物遗传改良和不同作物之间的比较基因组学研究提供了又一重要序列资源.但是,该基因组序列中还存在很多“缺口”,为使‘93-11＇的基因组序列更加精确,同时提供一些“缺口”填补策略和方法,本研究采用PCR扩增、回收克隆测序的方法对该基因组中一段长约160 kb、含有6个“缺口”的基因组序列进行了完善,并运用相关分子生物学和生物信息学软件进行了详细分析,结果表明：该6个“缺口”中,存在1个“缺口”估计错误,2个序列拼接错误;“缺口”主要位于非编码区,位于编码区的只有1个,其改变了对本处基因的注释,使此基因由原来的9个外显子增加为11个;填补“缺口”后,基因密度增加.

Gap-filling and Analyzing of DNA Sequence in One Genomic Region of Indica '93-11'

One important resource,genomic sequence of Indica '93-11'(the pollen provider of super-hybrid-rice),has been ready for the research of crop genetic improvement and comparative genomics among crops.But,there are so many gaps in it.In order to upgrade the precision of the sequence of Indica '93-11' and provide methods for gap filling,PCR amplification,cloning and sequencing of PCR fragment were used to fill the gaps in a 160 kb genomic fragment(containing 6 gaps) of Indica '93-11'.The result show that one gap estimate error and two sequence spelling errors are detected;these gaps exist mainly in noncoding region and one gap exists in coding region.The annotation of the gene containing this gap changed to 11 exons from original 9;the gene density is increased after filling the gaps.