Microarray Analysis Of Transcriptome In Rice Roots Under Fe-Deficiency Stress

Rice is not only a very important crop, but also a model plant. Research on the clone and expression of genes related to the Fe-deficiency response is already involved in the "973 project". And the mechanism (endocytosis) of the iron uptake under iron deficiency stress was supported by National Science Fund of China (NSFC). With completed the rice genomic sequencing, the most effective strategy of gene functions such as transcript 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 thesis work.Based on the prophase work, we keep improving the inducible experiments in rice roots treated with -Fe and EDTA-Fe for three days or five days respectively , and then analyzing 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 only for five days but not for three 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 NCB1 (national center of biological information) and other internet database by 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 up-regulation inducible transcripts were including: two for presumed membrane proteins (perhaps relevant iron transporting), five for cytoskeleton proteins, eight proteins for related vesicle transporting, fiveteen for metabolizing flow of substance and energy , ten for gene regulator, seventeen cDNA related the cell cycle and differential control (it is said that the increase of root hair were response to Fe-deficient), sixteen relative to communication and signal conduction, twenty three transcripts were unknown functions gene, and the all of other genes were 107 transcripts which still belonged to the unknown genes. The 248 cDNAs at the ratio of between 0.075 to 0.49 were down-regulation repressive genes, which were done with alignment and congregation one by one like the up-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. It is lucky that the transcripts about signal, signal receptor, regulator of gene expression, and some DNA replication -licensing factor (minichromosome maintenance protein MCM) were emergence. More excited event was that almost a set of transcripts relative vesicle transporting taken charge for plasma membrane protein were founded. As the same time, it is alsoproved that it was required to sample at noon 11:00-14:00. However, the inducible experiments would been designed for six days and nine days or even longer time treated with iron-deficiency, if the controlled roots morphological gene should be wandered. Furthermore, if the crosstalking in communication of signal conduction should be wanted to know, the microarray at the third day would be repeated to do again. Through deep analysis of signal conduction flow, vesicle transporting flow, mass and energy metabolizing flow and cell cycle control gene expression at mRNA level, at the last, a fire-new and material model of pathway by -Fe inducible property was established.