缺铁水稻根转录本微点阵分析  

Microarray analysis of transcriptome in rice roots under Fe-deficiency stress

作　　者：孙彤[1] 闫莉婕[1] 黄勤妮[1] 印莉萍[1] 

机构地区：[1]首都师范大学生物系,北京100037

出　　处：《生物信息学》2004年第3期1-5,共5页Chinese Journal of Bioinformatics

基　　金：国家重点基础研究专项基金 (19990 1170 0 );国家自然科学基金项目(3 0 170 5 5 2 );北京市自然科学基金项目 (5 0 42 0 0 4);北京市教委资助项目(KM2 0 0 410 0 2 80 15 )

摘　　要：水稻不仅是非常重要的粮食作物 ,也是用于研究的模式植物之一 .由于水稻基因组测序的完成 ,用功能基因组学的现代方法来研究缺铁相关基因的表达调控是最高效的方法之一。在前期工作的基础上 ,精心设计了缺铁和EDTA鳌合二价铁诱导5天的水稻根实验 ,并进行了转录水平的微点阵 (microarray)分析。但只获得了第 5天的结果。在 10 5 31个水稻cDNA芯片图谱中 ,缺铁和加铁比较发现了 4 5 1个差异点。对缺铁诱导的 4 5 1个差异cDNA逐一地进行NCBI (美国国家生物技术信息中心 )的BLAST(局部定位排列搜索工具 )数据库检索、分析和归类。发现其中缺铁与加铁 ( -Fe/Fe -EDTAratio)之间的相对表达水平(REL)在 2 - 9.175之间的缺铁诱导上调基因为 2 0 3个 ,缺铁诱导的下调基因为 2 4 8个。对每一类上调基因都逐一地进行了NCBI-PubMed的文献检索。利用国际网络数据库进行了功能鉴定。Rice is not only a very important crop, but also a model plant. With completed the rice genomic sequencing, the most effective strategy of gene functions such as transcriptome and proteome maps have being employed within the Post-genomics. Studies on the expression of genes responded to Fe-deficiency at transcript level are significant to the completion of this paper work.. Based on the prophase work, we keep improving the inducible experiments in rice roots treated with -Fe and EDTA-Fe for five days, and then analysing gene expression at transcriptional levels by Microarray and software. Employing microarray methods, which were analyzed through the use of a EST collection representing 10531 individual gene sequences. The transcriptome maps were successfully generated from rice roots under Fe-deficiency condition for five days.There were total 451 distinguish cDNA spots, each gene among them was searched, construed and classified through using the BLAST(basic local alignment search tool)of NCBI (national center of biological information) and other internet database one by one . 203 up-regulated transcripts that ratio of -Fe/Fe-EDTA were 2 to 9.175 were found among 451 different cDNAs . The 248 cDNAs at the ratio of between 0.075 to 0.490 were down-regulation genes. Each group of up-genes was searched with the philology in NCBI-PubMed and then attempted definitive characteristics of gene functions using the internet and software.

关 键 词：微点阵 转录本组图谱  缺铁胁迫 水稻根 

分 类 号：S511[农业科学—作物学]