Transcriptomic analysis of regulatory gene expression profiles by DELLA and LEC1 during embryo development in Arabidopsis thaliana.. Transcriptomic analysis of regulatory gene expression profiles by DELLA and LEC1 during embryo development in Arabidopsis thaliana.

To understand how GA functions in regulating embryo development, a genome-wide transcriptomic analysis was carried out using 9DAF seeds dissected from siliques of dellaq (rga28 gai rgl1 rgl2) and the wild-type (col-0-2) grown in full-spectrum white fluorescent light at 22°C under long day conditions (16 h light/8 h dark). Then we found that GA regulates embryo development via DELLA-LEC1interaction, a subsequent genome-wide transcriptomic analysis was carried out using 9DAF seeds dissected from siliques of lec1-4 and the wild-type (col-0-1) in the same growth condition. Basing on the criteria of 1.5-fold cutoff for the genes with 5% false discovery rate, we first identified the differentially expressed genes in dellaq vs col-0-2, lec1-4 vs Col-0-1 subsets, which are referred to as DELLA and LEC1 regulated genes. These data reveal that DELLAs and LEC1 co-target a set of common genes in late embryogenesis, strongly supporting the role of DELLA-LEC1 in embryo development. Overall design: RNA-seq analysis profiles of wild-type Col, dellaq, lec1-4 and 9DAF seeds were generated by deep sequencing, in triplicate.

为解析赤霉素（GA）在胚胎发育调控中的功能机制，本研究以生长于22℃长日照（16小时光照/8小时黑暗）全光谱白色荧光灯培养条件下的dellaq（rga28 gai rgl1 rgl2）突变体与野生型（col-0-2）的角果中解剖获取的开花后9天（9DAF）种子为材料，开展全基因组转录组分析。后续研究发现GA可通过DELLA-LEC1互作调控胚胎发育，因此我们采用相同培养条件，以lec1-4突变体与野生型（col-0-1）的角果中解剖得到的9DAF种子为材料，再次开展全基因组转录组分析。基于1.5倍表达差异阈值与5%错误发现率（FDR）的筛选标准，我们首先分别鉴定得到dellaq相较于col-0-2、lec1-4相较于col-0-1两组比较中的差异表达基因，分别记为DELLA调控基因与LEC1调控基因。上述数据表明，DELLAs与LEC1在胚胎发育晚期共同靶向一组共有基因，有力佐证了DELLA-LEC1互作在胚胎发育中的调控作用。整体实验设计：对野生型Col、dellaq、lec1-4的9DAF种子进行RNA测序（RNA-seq）分析，所有样本均设置三次生物学重复，通过深度测序获取转录组表达谱。